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8p94

Cryo-EM structure of cortactin stabilized Arp2/3-complex nucleated actin branches

Method: ELECTRON MICROSCOPY Dmax: 230.1 Å Quality: EXCELLENT
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1. Protein Identity and Related Structures Protein Identity & Related Structures

Actin-related protein 3

Homo sapiens

UniProt P61158

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein heterocomplex Heteromer Protein × 30 PDB declaration: 30-meric（30） Consistent with protein copy count Chain A； UniProt 1–418 Not recorded Actin-related protein 2 × 1 （P61160） Actin-related protein 2/3 complex subunit 1B × 1 （O15143） Actin-related protein 2/3 complex subunit 2 × 1 （O15144） Actin-related protein 2/3 complex subunit 3 × 1 （O15145） Actin-related protein 2/3 complex subunit 4 × 1 （P59998） Actin-related protein 2/3 complex subunit 5-like protein × 1 （Q9BPX5） Actin, cytoplasmic 1 × 10 （Q6QAQ1） Src substrate cortactin × 1 （Q60598） F-actin-capping protein subunit alpha-1 × 1 （P47753） Isoform 2 of F-actin-capping protein subunit beta × 1 （P47757） Phalloidin × 10 ADP ADENOSINE-5'-DIPHOSPHATE × 12 MG MAGNESIUM ION × 12 ELECTRON MICROSCOPY cryo-EM buffer：pH 7.5；20 mM HEPES pH 7.5, 50mM KCl, 1mM EGTA, 1mM MgCl2, 0.2 mM ATP and 1 mM DTT cryo-EM vitrification conditions：Cryogen ETHANE；Back blotting Resolution 3.30 Å

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

Other PDB Difference from Current Entry 8P94 Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Method and Experimental Conditions Structure Quality
6UHC CryoEM structure of human Arp2/3 complex with bound NPFs Deposited 2019-09-27 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 9 PDB declaration: nonameric
Chain A 1–418（418 aa）
Not recorded MG MAGNESIUM ION × 2 ATP ADENOSINE-5'-TRIPHOSPHATE × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 7
cryo-EM vitrification conditions Cryogen ETHANE；Grids manually blotted for 3 seconds with Whatman 41 filter paper and manually plunged on Leica EM CPC manual plunger.
Resolution 3.90 Å
6YW6 Cryo-EM structure of the ARP2/3 1B5CL isoform complex. Deposited 2020-04-29 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 7 PDB declaration: heptameric
Chain A 1–418（418 aa）
Not recorded ATP ADENOSINE-5'-TRIPHOSPHATE × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 7
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.20 Å
6YW7 Cryo-EM structure of the ARP2/3 1A5C isoform complex. Deposited 2020-04-29 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 7 PDB declaration: heptameric
Chain A 1–418（418 aa）
Not recorded ATP ADENOSINE-5'-TRIPHOSPHATE × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 7
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.50 Å
9I2B SPIN90-Arp2/3 nucleated bidirectional actin filaments Deposited 2025-01-20 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 24 PDB declaration: 24-meric
Chain A 1–418（418 aa）
Chain K 1–418（418 aa）
Not recorded ADP ADENOSINE-5'-DIPHOSPHATE × 8 MG MAGNESIUM ION × 8 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.00 Å

4 other PDB entries and 4 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name ARP3_HUMAN
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–418； UniProt 1–418

Actin-related protein 2

Homo sapiens

UniProt P61160

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein heterocomplex Heteromer Protein × 30 PDB declaration: 30-meric（30） Consistent with protein copy count Chain B； UniProt 1–394 Not recorded Actin-related protein 3 × 1 （P61158） Actin-related protein 2/3 complex subunit 1B × 1 （O15143） Actin-related protein 2/3 complex subunit 2 × 1 （O15144） Actin-related protein 2/3 complex subunit 3 × 1 （O15145） Actin-related protein 2/3 complex subunit 4 × 1 （P59998） Actin-related protein 2/3 complex subunit 5-like protein × 1 （Q9BPX5） Actin, cytoplasmic 1 × 10 （Q6QAQ1） Src substrate cortactin × 1 （Q60598） F-actin-capping protein subunit alpha-1 × 1 （P47753） Isoform 2 of F-actin-capping protein subunit beta × 1 （P47757） Phalloidin × 10 ADP ADENOSINE-5'-DIPHOSPHATE × 12 MG MAGNESIUM ION × 12 ELECTRON MICROSCOPY cryo-EM buffer：pH 7.5；20 mM HEPES pH 7.5, 50mM KCl, 1mM EGTA, 1mM MgCl2, 0.2 mM ATP and 1 mM DTT cryo-EM vitrification conditions：Cryogen ETHANE；Back blotting Resolution 3.30 Å

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

Other PDB Difference from Current Entry 8P94 Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Method and Experimental Conditions Structure Quality
6UHC CryoEM structure of human Arp2/3 complex with bound NPFs Deposited 2019-09-27 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 9 PDB declaration: nonameric
Chain B 1–394（394 aa）
Not recorded MG MAGNESIUM ION × 2 ATP ADENOSINE-5'-TRIPHOSPHATE × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 7
cryo-EM vitrification conditions Cryogen ETHANE；Grids manually blotted for 3 seconds with Whatman 41 filter paper and manually plunged on Leica EM CPC manual plunger.
Resolution 3.90 Å
6YW6 Cryo-EM structure of the ARP2/3 1B5CL isoform complex. Deposited 2020-04-29 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 7 PDB declaration: heptameric
Chain B 1–394（394 aa）
Not recorded ATP ADENOSINE-5'-TRIPHOSPHATE × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 7
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.20 Å
6YW7 Cryo-EM structure of the ARP2/3 1A5C isoform complex. Deposited 2020-04-29 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 7 PDB declaration: heptameric
Chain B 1–394（394 aa）
Not recorded ATP ADENOSINE-5'-TRIPHOSPHATE × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 7
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.50 Å
9I2B SPIN90-Arp2/3 nucleated bidirectional actin filaments Deposited 2025-01-20 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 24 PDB declaration: 24-meric
Chain B 1–394（394 aa）
Chain L 1–394（394 aa）
Not recorded ADP ADENOSINE-5'-DIPHOSPHATE × 8 MG MAGNESIUM ION × 8 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.00 Å

4 other PDB entries and 4 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name ARP2_HUMAN
Isoform —
PDB entities 2
Chains and sequence ranges Author chain B； PDBConstruct 1–394； UniProt 1–394

Actin-related protein 2/3 complex subunit 1B

Homo sapiens

UniProt O15143

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein heterocomplex Heteromer Protein × 30 PDB declaration: 30-meric（30） Consistent with protein copy count Chain C； UniProt 1–372 Not recorded Actin-related protein 3 × 1 （P61158） Actin-related protein 2 × 1 （P61160） Actin-related protein 2/3 complex subunit 2 × 1 （O15144） Actin-related protein 2/3 complex subunit 3 × 1 （O15145） Actin-related protein 2/3 complex subunit 4 × 1 （P59998） Actin-related protein 2/3 complex subunit 5-like protein × 1 （Q9BPX5） Actin, cytoplasmic 1 × 10 （Q6QAQ1） Src substrate cortactin × 1 （Q60598） F-actin-capping protein subunit alpha-1 × 1 （P47753） Isoform 2 of F-actin-capping protein subunit beta × 1 （P47757） Phalloidin × 10 ADP ADENOSINE-5'-DIPHOSPHATE × 12 MG MAGNESIUM ION × 12 ELECTRON MICROSCOPY cryo-EM buffer：pH 7.5；20 mM HEPES pH 7.5, 50mM KCl, 1mM EGTA, 1mM MgCl2, 0.2 mM ATP and 1 mM DTT cryo-EM vitrification conditions：Cryogen ETHANE；Back blotting Resolution 3.30 Å

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

Other PDB Difference from Current Entry 8P94 Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Method and Experimental Conditions Structure Quality
6UHC CryoEM structure of human Arp2/3 complex with bound NPFs Deposited 2019-09-27 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 9 PDB declaration: nonameric
Chain C 1–372（372 aa）
Not recorded MG MAGNESIUM ION × 2 ATP ADENOSINE-5'-TRIPHOSPHATE × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 7
cryo-EM vitrification conditions Cryogen ETHANE；Grids manually blotted for 3 seconds with Whatman 41 filter paper and manually plunged on Leica EM CPC manual plunger.
Resolution 3.90 Å
6YW6 Cryo-EM structure of the ARP2/3 1B5CL isoform complex. Deposited 2020-04-29 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 7 PDB declaration: heptameric
Chain C 1–372（372 aa）
Not recorded ATP ADENOSINE-5'-TRIPHOSPHATE × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 7
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.20 Å
9I2B SPIN90-Arp2/3 nucleated bidirectional actin filaments Deposited 2025-01-20 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 24 PDB declaration: 24-meric
Chain C 1–372（372 aa）
Chain M 1–372（372 aa）
Not recorded ADP ADENOSINE-5'-DIPHOSPHATE × 8 MG MAGNESIUM ION × 8 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.00 Å

3 other PDB entries and 3 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name ARC1B_HUMAN
Isoform —
PDB entities 3
Chains and sequence ranges Author chain C； PDBConstruct 1–372； UniProt 1–372

Actin-related protein 2/3 complex subunit 2

Homo sapiens

UniProt O15144

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein heterocomplex Heteromer Protein × 30 PDB declaration: 30-meric（30） Consistent with protein copy count Chain D； UniProt 1–300 Not recorded Actin-related protein 3 × 1 （P61158） Actin-related protein 2 × 1 （P61160） Actin-related protein 2/3 complex subunit 1B × 1 （O15143） Actin-related protein 2/3 complex subunit 3 × 1 （O15145） Actin-related protein 2/3 complex subunit 4 × 1 （P59998） Actin-related protein 2/3 complex subunit 5-like protein × 1 （Q9BPX5） Actin, cytoplasmic 1 × 10 （Q6QAQ1） Src substrate cortactin × 1 （Q60598） F-actin-capping protein subunit alpha-1 × 1 （P47753） Isoform 2 of F-actin-capping protein subunit beta × 1 （P47757） Phalloidin × 10 ADP ADENOSINE-5'-DIPHOSPHATE × 12 MG MAGNESIUM ION × 12 ELECTRON MICROSCOPY cryo-EM buffer：pH 7.5；20 mM HEPES pH 7.5, 50mM KCl, 1mM EGTA, 1mM MgCl2, 0.2 mM ATP and 1 mM DTT cryo-EM vitrification conditions：Cryogen ETHANE；Back blotting Resolution 3.30 Å

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

Other PDB Difference from Current Entry 8P94 Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Method and Experimental Conditions Structure Quality
6UHC CryoEM structure of human Arp2/3 complex with bound NPFs Deposited 2019-09-27 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 9 PDB declaration: nonameric
Chain D 1–300（300 aa）
Not recorded MG MAGNESIUM ION × 2 ATP ADENOSINE-5'-TRIPHOSPHATE × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 7
cryo-EM vitrification conditions Cryogen ETHANE；Grids manually blotted for 3 seconds with Whatman 41 filter paper and manually plunged on Leica EM CPC manual plunger.
Resolution 3.90 Å
6YW6 Cryo-EM structure of the ARP2/3 1B5CL isoform complex. Deposited 2020-04-29 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 7 PDB declaration: heptameric
Chain D 1–300（300 aa）
Not recorded ATP ADENOSINE-5'-TRIPHOSPHATE × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 7
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.20 Å
6YW7 Cryo-EM structure of the ARP2/3 1A5C isoform complex. Deposited 2020-04-29 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 7 PDB declaration: heptameric
Chain D 1–300（300 aa）
Not recorded ATP ADENOSINE-5'-TRIPHOSPHATE × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 7
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.50 Å
9I2B SPIN90-Arp2/3 nucleated bidirectional actin filaments Deposited 2025-01-20 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 24 PDB declaration: 24-meric
Chain D 1–300（300 aa）
Chain N 1–300（300 aa）
Not recorded ADP ADENOSINE-5'-DIPHOSPHATE × 8 MG MAGNESIUM ION × 8 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.00 Å

4 other PDB entries and 4 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name ARPC2_HUMAN
Isoform —
PDB entities 4
Chains and sequence ranges Author chain D； PDBConstruct 1–300； UniProt 1–300

Actin-related protein 2/3 complex subunit 3

Homo sapiens

UniProt O15145

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein heterocomplex Heteromer Protein × 30 PDB declaration: 30-meric（30） Consistent with protein copy count Chain E； UniProt 1–178 Not recorded Actin-related protein 3 × 1 （P61158） Actin-related protein 2 × 1 （P61160） Actin-related protein 2/3 complex subunit 1B × 1 （O15143） Actin-related protein 2/3 complex subunit 2 × 1 （O15144） Actin-related protein 2/3 complex subunit 4 × 1 （P59998） Actin-related protein 2/3 complex subunit 5-like protein × 1 （Q9BPX5） Actin, cytoplasmic 1 × 10 （Q6QAQ1） Src substrate cortactin × 1 （Q60598） F-actin-capping protein subunit alpha-1 × 1 （P47753） Isoform 2 of F-actin-capping protein subunit beta × 1 （P47757） Phalloidin × 10 ADP ADENOSINE-5'-DIPHOSPHATE × 12 MG MAGNESIUM ION × 12 ELECTRON MICROSCOPY cryo-EM buffer：pH 7.5；20 mM HEPES pH 7.5, 50mM KCl, 1mM EGTA, 1mM MgCl2, 0.2 mM ATP and 1 mM DTT cryo-EM vitrification conditions：Cryogen ETHANE；Back blotting Resolution 3.30 Å

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

Other PDB Difference from Current Entry 8P94 Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Method and Experimental Conditions Structure Quality
6UHC CryoEM structure of human Arp2/3 complex with bound NPFs Deposited 2019-09-27 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 9 PDB declaration: nonameric
Chain E 1–178（178 aa）
Not recorded MG MAGNESIUM ION × 2 ATP ADENOSINE-5'-TRIPHOSPHATE × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 7
cryo-EM vitrification conditions Cryogen ETHANE；Grids manually blotted for 3 seconds with Whatman 41 filter paper and manually plunged on Leica EM CPC manual plunger.
Resolution 3.90 Å
6YW6 Cryo-EM structure of the ARP2/3 1B5CL isoform complex. Deposited 2020-04-29 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 7 PDB declaration: heptameric
Chain E 1–178（178 aa）
Not recorded ATP ADENOSINE-5'-TRIPHOSPHATE × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 7
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.20 Å
6YW7 Cryo-EM structure of the ARP2/3 1A5C isoform complex. Deposited 2020-04-29 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 7 PDB declaration: heptameric
Chain E 1–178（178 aa）
Not recorded ATP ADENOSINE-5'-TRIPHOSPHATE × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 7
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.50 Å
9I2B SPIN90-Arp2/3 nucleated bidirectional actin filaments Deposited 2025-01-20 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 24 PDB declaration: 24-meric
Chain E 1–178（178 aa）
Chain O 1–178（178 aa）
Not recorded ADP ADENOSINE-5'-DIPHOSPHATE × 8 MG MAGNESIUM ION × 8 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.00 Å

4 other PDB entries and 4 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name ARPC3_HUMAN
Isoform —
PDB entities 5
Chains and sequence ranges Author chain E； PDBConstruct 1–178； UniProt 1–178

Actin-related protein 2/3 complex subunit 4

Homo sapiens

UniProt P59998

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein heterocomplex Heteromer Protein × 30 PDB declaration: 30-meric（30） Consistent with protein copy count Chain F； UniProt 1–168 Not recorded Actin-related protein 3 × 1 （P61158） Actin-related protein 2 × 1 （P61160） Actin-related protein 2/3 complex subunit 1B × 1 （O15143） Actin-related protein 2/3 complex subunit 2 × 1 （O15144） Actin-related protein 2/3 complex subunit 3 × 1 （O15145） Actin-related protein 2/3 complex subunit 5-like protein × 1 （Q9BPX5） Actin, cytoplasmic 1 × 10 （Q6QAQ1） Src substrate cortactin × 1 （Q60598） F-actin-capping protein subunit alpha-1 × 1 （P47753） Isoform 2 of F-actin-capping protein subunit beta × 1 （P47757） Phalloidin × 10 ADP ADENOSINE-5'-DIPHOSPHATE × 12 MG MAGNESIUM ION × 12 ELECTRON MICROSCOPY cryo-EM buffer：pH 7.5；20 mM HEPES pH 7.5, 50mM KCl, 1mM EGTA, 1mM MgCl2, 0.2 mM ATP and 1 mM DTT cryo-EM vitrification conditions：Cryogen ETHANE；Back blotting Resolution 3.30 Å

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

Other PDB Difference from Current Entry 8P94 Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Method and Experimental Conditions Structure Quality
6UHC CryoEM structure of human Arp2/3 complex with bound NPFs Deposited 2019-09-27 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 9 PDB declaration: nonameric
Chain F 1–168（168 aa）
Not recorded MG MAGNESIUM ION × 2 ATP ADENOSINE-5'-TRIPHOSPHATE × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 7
cryo-EM vitrification conditions Cryogen ETHANE；Grids manually blotted for 3 seconds with Whatman 41 filter paper and manually plunged on Leica EM CPC manual plunger.
Resolution 3.90 Å
6YW6 Cryo-EM structure of the ARP2/3 1B5CL isoform complex. Deposited 2020-04-29 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 7 PDB declaration: heptameric
Chain F 1–168（168 aa）
Not recorded ATP ADENOSINE-5'-TRIPHOSPHATE × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 7
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.20 Å
6YW7 Cryo-EM structure of the ARP2/3 1A5C isoform complex. Deposited 2020-04-29 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 7 PDB declaration: heptameric
Chain F 1–168（168 aa）
Not recorded ATP ADENOSINE-5'-TRIPHOSPHATE × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 7
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.50 Å
9I2B SPIN90-Arp2/3 nucleated bidirectional actin filaments Deposited 2025-01-20 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 24 PDB declaration: 24-meric
Chain F 1–168（168 aa）
Chain P 1–168（168 aa）
Not recorded ADP ADENOSINE-5'-DIPHOSPHATE × 8 MG MAGNESIUM ION × 8 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.00 Å

4 other PDB entries and 4 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name ARPC4_HUMAN
Isoform —
PDB entities 6
Chains and sequence ranges Author chain F； PDBConstruct 1–168； UniProt 1–168

Actin-related protein 2/3 complex subunit 5-like protein

Homo sapiens

UniProt Q9BPX5

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein heterocomplex Heteromer Protein × 30 PDB declaration: 30-meric（30） Consistent with protein copy count Chain G； UniProt 1–153 Not recorded Actin-related protein 3 × 1 （P61158） Actin-related protein 2 × 1 （P61160） Actin-related protein 2/3 complex subunit 1B × 1 （O15143） Actin-related protein 2/3 complex subunit 2 × 1 （O15144） Actin-related protein 2/3 complex subunit 3 × 1 （O15145） Actin-related protein 2/3 complex subunit 4 × 1 （P59998） Actin, cytoplasmic 1 × 10 （Q6QAQ1） Src substrate cortactin × 1 （Q60598） F-actin-capping protein subunit alpha-1 × 1 （P47753） Isoform 2 of F-actin-capping protein subunit beta × 1 （P47757） Phalloidin × 10 ADP ADENOSINE-5'-DIPHOSPHATE × 12 MG MAGNESIUM ION × 12 ELECTRON MICROSCOPY cryo-EM buffer：pH 7.5；20 mM HEPES pH 7.5, 50mM KCl, 1mM EGTA, 1mM MgCl2, 0.2 mM ATP and 1 mM DTT cryo-EM vitrification conditions：Cryogen ETHANE；Back blotting Resolution 3.30 Å

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

Other PDB Difference from Current Entry 8P94 Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Method and Experimental Conditions Structure Quality
6YW6 Cryo-EM structure of the ARP2/3 1B5CL isoform complex. Deposited 2020-04-29 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 7 PDB declaration: heptameric
Chain G 1–153（153 aa）
Not recorded ATP ADENOSINE-5'-TRIPHOSPHATE × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 7
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.20 Å
9I2B SPIN90-Arp2/3 nucleated bidirectional actin filaments Deposited 2025-01-20 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 24 PDB declaration: 24-meric
Chain G 1–153（153 aa）
Chain Q 1–153（153 aa）
Not recorded ADP ADENOSINE-5'-DIPHOSPHATE × 8 MG MAGNESIUM ION × 8 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.00 Å

2 other PDB entries and 2 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name ARP5L_HUMAN
Isoform —
PDB entities 7
Chains and sequence ranges Author chain G； PDBConstruct 1–153； UniProt 1–153

Actin, cytoplasmic 1

OrganismNot specified

UniProt Q6QAQ1

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein heterocomplex Heteromer Protein × 30 PDB declaration: 30-meric（30） Consistent with protein copy count Chain H； UniProt 1–375 Chain J； UniProt 1–375 Chain K； UniProt 1–375 Chain N； UniProt 1–375 Chain O； UniProt 1–375 Chain P； UniProt 1–375 Chain Q； UniProt 1–375 Chain R； UniProt 1–375 Chain S； UniProt 1–375 Chain W； UniProt 1–375 Not recorded Actin-related protein 3 × 1 （P61158） Actin-related protein 2 × 1 （P61160） Actin-related protein 2/3 complex subunit 1B × 1 （O15143） Actin-related protein 2/3 complex subunit 2 × 1 （O15144） Actin-related protein 2/3 complex subunit 3 × 1 （O15145） Actin-related protein 2/3 complex subunit 4 × 1 （P59998） Actin-related protein 2/3 complex subunit 5-like protein × 1 （Q9BPX5） Src substrate cortactin × 1 （Q60598） F-actin-capping protein subunit alpha-1 × 1 （P47753） Isoform 2 of F-actin-capping protein subunit beta × 1 （P47757） Phalloidin × 10 ADP ADENOSINE-5'-DIPHOSPHATE × 12 MG MAGNESIUM ION × 12 ELECTRON MICROSCOPY cryo-EM buffer：pH 7.5；20 mM HEPES pH 7.5, 50mM KCl, 1mM EGTA, 1mM MgCl2, 0.2 mM ATP and 1 mM DTT cryo-EM vitrification conditions：Cryogen ETHANE；Back blotting Resolution 3.30 Å

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

Other PDB Difference from Current Entry 8P94 Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Method and Experimental Conditions Structure Quality
5ADX CryoEM structure of dynactin complex at 4.0 angstrom resolution Deposited 2015-08-24 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 27 PDB declaration: 27-meric
Chain H 6–375（370 aa）
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer 50MM KCL, 25MM K2HPO4- KH2PO4, 1MM MGCL2,5MM DTT；pH 6.5；50MM KCL, 25MM K2HPO4- KH2PO4, 1MM MGCL2,5MM DTT
cryo-EM vitrification conditions Cryogen ETHANE；LIQUID ENTHANE
Resolution 4.00 Å
5AFU Cryo-EM structure of dynein tail-dynactin-BICD2N complex Deposited 2015-01-26 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 33 PDB declaration: 33-meric
Chain H 6–375（370 aa）
Not recorded ADP ADENOSINE-5'-DIPHOSPHATE × 9 ATP ADENOSINE-5'-TRIPHOSPHATE × 1 ELECTRON MICROSCOPY
cryo-EM buffer 150MM KCL, 25MM HEPES-KOH, 1MM MGCL2, 0.1MM MGATP, 5MM DTT；pH 7.4；150MM KCL, 25MM HEPES-KOH, 1MM MGCL2, 0.1MM MGATP, 5MM DTT
cryo-EM vitrification conditions Cryogen ETHANE；LIQUID ETHANE
Resolution 8.20 Å
6F1T Cryo-EM structure of two dynein tail domains bound to dynactin and BICDR1 Deposited 2017-11-23 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 45 PDB declaration: 45-meric
Chain H 1–375（375 aa）
Not recorded ADP ADENOSINE-5'-DIPHOSPHATE × 9 ATP ADENOSINE-5'-TRIPHOSPHATE × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.50 Å
6F38 Cryo-EM structure of two dynein tail domains bound to dynactin and HOOK3 Deposited 2017-11-28 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 45 PDB declaration: 45-meric
Chain H 1–375（375 aa）
Not recorded ADP ADENOSINE-5'-DIPHOSPHATE × 9 ATP ADENOSINE-5'-TRIPHOSPHATE × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.2
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 6.70 Å
6F3A Cryo-EM structure of a single dynein tail domain bound to dynactin and BICD2N Deposited 2017-11-28 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 36 PDB declaration: 36-meric
Chain H 1–375（375 aa）
Not recorded ADP ADENOSINE-5'-DIPHOSPHATE × 9 ATP ADENOSINE-5'-TRIPHOSPHATE × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 8.20 Å
6ZNL Cryo-EM structure of the dynactin complex Deposited 2020-07-06 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 23 PDB declaration: 23-meric
Chain H 1–375（375 aa）
Not recorded ADP ADENOSINE-5'-DIPHOSPHATE × 9 ATP ADENOSINE-5'-TRIPHOSPHATE × 1 ZN ZINC ION × 3 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.80 Å
6ZNM The pointed end complex of dynactin bound to BICDR1 Deposited 2020-07-06 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 10 PDB declaration: decameric
Chain H 1–375（375 aa）
Not recorded ADP ADENOSINE-5'-DIPHOSPHATE × 3 ATP ADENOSINE-5'-TRIPHOSPHATE × 1 ZN ZINC ION × 3 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.10 Å
6ZNN The pointed end complex of dynactin bound to Hook3 Deposited 2020-07-06 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 12 PDB declaration: dodecameric
Chain H 1–375（375 aa）
Not recorded ADP ADENOSINE-5'-DIPHOSPHATE × 3 ATP ADENOSINE-5'-TRIPHOSPHATE × 1 ZN ZINC ION × 3 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.50 Å
6ZNO The pointed end complex of dynactin with the p150 projection docked Deposited 2020-07-06 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 10 PDB declaration: decameric
Chain H 1–375（375 aa）
Not recorded ADP ADENOSINE-5'-DIPHOSPHATE × 3 ATP ADENOSINE-5'-TRIPHOSPHATE × 1 ZN ZINC ION × 3 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 6.80 Å
6ZO4 The pointed end complex of dynactin bound to BICD2 Deposited 2020-07-07 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 10 PDB declaration: decameric
Chain H 1–375（375 aa）
Not recorded ADP ADENOSINE-5'-DIPHOSPHATE × 3 ATP ADENOSINE-5'-TRIPHOSPHATE × 1 ZN ZINC ION × 3 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 8.20 Å
7Z8F Composite structure of dynein-dynactin-BICDR on microtubules Deposited 2022-03-17 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 43 PDB declaration: 43-meric
Chain H 1–375（375 aa）
Not recorded ADP ADENOSINE-5'-DIPHOSPHATE × 13 MG MAGNESIUM ION × 14 ATP ADENOSINE-5'-TRIPHOSPHATE × 5 ZN ZINC ION × 3 ANP PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER × 8 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.2
cryo-EM vitrification conditions Cryogen ETHANE；20 second incubation
Resolution 20.00 Å
7Z8M The pointed end complex of dynactin bound to BICDR1 Deposited 2022-03-17 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 9 PDB declaration: nonameric
Chain H 1–375（375 aa）
Not recorded ZN ZINC ION × 3 ATP ADENOSINE-5'-TRIPHOSPHATE × 1 MG MAGNESIUM ION × 4 ADP ADENOSINE-5'-DIPHOSPHATE × 3 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.2
cryo-EM vitrification conditions Cryogen ETHANE；20 second incubation
Resolution 3.37 Å
8IAH Structure of mammalian spectrin-actin junctional complex of membrane skeleton, State I, Global map Deposited 2023-02-08 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 36 PDB declaration: 36-meric
Chain A 1–375（375 aa）
Chain B 1–375（375 aa）
Chain C 1–375（375 aa）
Chain D 1–375（375 aa）
Chain E 1–375（375 aa）
Chain F 1–375（375 aa）
Chain G 1–375（375 aa）
Chain H 1–375（375 aa）
Chain I 1–375（375 aa）
Chain J 1–375（375 aa）
Chain K 1–375（375 aa）
Chain L 1–375（375 aa）
Not recorded ADP ADENOSINE-5'-DIPHOSPHATE × 12 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.60 Å
8IAI Structure of mammalian spectrin-actin junctional complex of membrane skeleton, State II, Global map Deposited 2023-02-08 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 31 PDB declaration: 31-meric
Chain A 1–375（375 aa）
Chain B 1–375（375 aa）
Chain C 1–375（375 aa）
Chain D 1–375（375 aa）
Chain E 1–375（375 aa）
Chain F 1–375（375 aa）
Chain G 1–375（375 aa）
Chain H 1–375（375 aa）
Chain I 1–375（375 aa）
Chain J 1–375（375 aa）
Chain K 1–375（375 aa）
Not recorded ADP ADENOSINE-5'-DIPHOSPHATE × 11 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.50 Å
8IB2 Structure of mammalian spectrin-actin junctional complex of membrane skeleton, Pointed-end segment, headpiece domain of dematin optimized Deposited 2023-02-09 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric
Chain B 1–375（375 aa）
Chain C 1–375（375 aa）
Chain D 1–375（375 aa）
Chain E 1–375（375 aa）
Chain F 1–375（375 aa）
Not recorded ADP ADENOSINE-5'-DIPHOSPHATE × 5 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.80 Å
8PTK Composite structure of Dynein-Dynactin-JIP3-LIS1 Deposited 2023-07-14 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 53 PDB declaration: 53-meric
Chain H 1–375（375 aa）
Not recorded ADP ADENOSINE-5'-DIPHOSPHATE × 16 ATP ADENOSINE-5'-TRIPHOSPHATE × 6 ZN ZINC ION × 3 MG MAGNESIUM ION × 6 ANP PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER × 4 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.2
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 10.00 Å
9DGR Composite structure of dynein-dynactin on microtubules Deposited 2024-09-03 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 39 PDB declaration: 39-meric
Chain H 1–375（375 aa）
Not recorded ZN ZINC ION × 3 MG MAGNESIUM ION × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.2
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 15.00 Å
9DGS Dynactin and dynein tail region of dynein-dynactin complex on microtubules Deposited 2024-09-03 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 31 PDB declaration: 31-meric
Chain H 1–375（375 aa）
Not recorded ADP ADENOSINE-5'-DIPHOSPHATE × 9 ATP ADENOSINE-5'-TRIPHOSPHATE × 1 ZN ZINC ION × 3 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.2
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.90 Å
9DGT structure of dynactin, dynein tail with one BICDR from dynein-dynactin-BICDR on microtubules Deposited 2024-09-03 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 35 PDB declaration: 35-meric
Chain H 1–375（375 aa）
Not recorded ADP ADENOSINE-5'-DIPHOSPHATE × 9 ATP ADENOSINE-5'-TRIPHOSPHATE × 1 ZN ZINC ION × 3 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.2
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 7.20 Å
9DGU structure of dynactin, dynein tail with two BICDR from dynein-dynactin-BICDR on microtubules Deposited 2024-09-03 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 37 PDB declaration: 37-meric
Chain H 1–375（375 aa）
Not recorded ADP ADENOSINE-5'-DIPHOSPHATE × 9 ATP ADENOSINE-5'-TRIPHOSPHATE × 1 ZN ZINC ION × 3 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.2
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 7.10 Å
9DGV structure of dynactin, dynein tail with TRAK2 from dynein-dynactin-TRAK2 on microtubules Deposited 2024-09-03 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 33 PDB declaration: 33-meric
Chain H 1–375（375 aa）
Not recorded ADP ADENOSINE-5'-DIPHOSPHATE × 9 ATP ADENOSINE-5'-TRIPHOSPHATE × 1 ZN ZINC ION × 3 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.2
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 8.80 Å
9HHL Structure of Dynein-Dynactin-NuMA-LIS1 Deposited 2024-11-21 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Insufficient information Heteromer；Protein × 41 PDB declaration: 41-meric
Chain H 1–375（375 aa）
Not recorded ADP ADENOSINE-5'-DIPHOSPHATE × 8 ATP ADENOSINE-5'-TRIPHOSPHATE × 2 ZN ZINC ION × 3 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.2
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 6.53 Å
9I2B SPIN90-Arp2/3 nucleated bidirectional actin filaments Deposited 2025-01-20 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 24 PDB declaration: 24-meric
Chain I 1–375（375 aa）
Chain J 1–375（375 aa）
Chain S 1–375（375 aa）
Chain T 1–375（375 aa）
Not recorded ADP ADENOSINE-5'-DIPHOSPHATE × 8 MG MAGNESIUM ION × 8 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.00 Å
9YNG Dynactin and dynein-1 tail region of dynein-dynactin complex on microtubule in the presence of LIS1 Deposited 2025-10-10 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 31 PDB declaration: 31-meric
Chain H 1–375（375 aa）
Not recorded ADP ADENOSINE-5'-DIPHOSPHATE × 9 ATP ADENOSINE-5'-TRIPHOSPHATE × 1 ZN ZINC ION × 3 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.2
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.07 Å

24 other PDB entries and 24 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name ACTB_PIG
Isoform —
PDB entities 8
Chains and sequence ranges Author chain H； PDBConstruct 1–375； UniProt 1–375 Author chain J； PDBConstruct 1–375； UniProt 1–375 Author chain K； PDBConstruct 1–375； UniProt 1–375 Author chain N； PDBConstruct 1–375； UniProt 1–375 Author chain O； PDBConstruct 1–375； UniProt 1–375 Author chain P； PDBConstruct 1–375； UniProt 1–375 Author chain Q； PDBConstruct 1–375； UniProt 1–375 Author chain R； PDBConstruct 1–375； UniProt 1–375 Author chain S； PDBConstruct 1–375； UniProt 1–375 Author chain W； PDBConstruct 1–375； UniProt 1–375

Src substrate cortactin

Mus musculus

UniProt Q60598

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein heterocomplex Heteromer Protein × 30 PDB declaration: 30-meric（30） Consistent with protein copy count Chain I； UniProt 1–546 Not recorded Actin-related protein 3 × 1 （P61158） Actin-related protein 2 × 1 （P61160） Actin-related protein 2/3 complex subunit 1B × 1 （O15143） Actin-related protein 2/3 complex subunit 2 × 1 （O15144） Actin-related protein 2/3 complex subunit 3 × 1 （O15145） Actin-related protein 2/3 complex subunit 4 × 1 （P59998） Actin-related protein 2/3 complex subunit 5-like protein × 1 （Q9BPX5） Actin, cytoplasmic 1 × 10 （Q6QAQ1） F-actin-capping protein subunit alpha-1 × 1 （P47753） Isoform 2 of F-actin-capping protein subunit beta × 1 （P47757） Phalloidin × 10 ADP ADENOSINE-5'-DIPHOSPHATE × 12 MG MAGNESIUM ION × 12 ELECTRON MICROSCOPY cryo-EM buffer：pH 7.5；20 mM HEPES pH 7.5, 50mM KCl, 1mM EGTA, 1mM MgCl2, 0.2 mM ATP and 1 mM DTT cryo-EM vitrification conditions：Cryogen ETHANE；Back blotting Resolution 3.30 Å

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

Other PDB Difference from Current Entry 8P94 Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Method and Experimental Conditions Structure Quality
3ULR Lysozyme contamination facilitates crystallization of a hetero-trimericCortactin:Arg:Lysozyme complex Deposited 2011-11-11 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric
Chain B 487–546（60 aa） Fragment：SH3 domain (UNP residues 487-546)
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；297 K；1.0M Na Citrate, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 297K
Resolution 1.65 Å R-free 0.225
5NV1 SH3 domain from Mouse cortactin (C 2 2 21 crystal form) Deposited 2017-05-03 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 490–546（57 aa）
Not recorded MES 2-(N-MORPHOLINO)-ETHANESULFONIC ACID × 1 GOL GLYCEROL × 1 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；289 K；1.6 M Mg-sulfate, 0.1 M MES pH 6.5
Resolution 1.51 Å
5NVJ SH3 domain from Mouse cortactin (C 1 2 1 crystal form) Deposited 2017-05-04 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 490–546（57 aa）
Not recorded BEN BENZAMIDINE × 1 GOL GLYCEROL × 1 CIT CITRIC ACID × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5；289 K；1.2 M (NH4)2SO4, 0.1 M sodium citrate pH 5, 1% benzamidine hydrochloride.
Resolution 1.18 Å R-free 0.201
5NVJ SH3 domain from Mouse cortactin (C 1 2 1 crystal form) Deposited 2017-05-04 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain B 490–546（57 aa）
Not recorded BEN BENZAMIDINE × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5；289 K；1.2 M (NH4)2SO4, 0.1 M sodium citrate pH 5, 1% benzamidine hydrochloride.
Resolution 1.18 Å R-free 0.201
5NXJ SH3 domain from Mouse cortactin (P 1 21 1 crystal form) Deposited 2017-05-10 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 490–546（57 aa） Fragment：SH3 domain, UNP Residues 490-546
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5；289 K；1.2 M (NH4)2SO4, 0.1 M sodium citrate pH 5, 3% 2_propanol
Resolution 2.28 Å R-free 0.248
5NXJ SH3 domain from Mouse cortactin (P 1 21 1 crystal form) Deposited 2017-05-10 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain B 490–546（57 aa） Fragment：SH3 domain, UNP Residues 490-546
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5；289 K；1.2 M (NH4)2SO4, 0.1 M sodium citrate pH 5, 3% 2_propanol
Resolution 2.28 Å R-free 0.248
5NXJ SH3 domain from Mouse cortactin (P 1 21 1 crystal form) Deposited 2017-05-10 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 3 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain C 490–546（57 aa） Fragment：SH3 domain, UNP Residues 490-546
Not recorded IPA ISOPROPYL ALCOHOL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5；289 K；1.2 M (NH4)2SO4, 0.1 M sodium citrate pH 5, 3% 2_propanol
Resolution 2.28 Å R-free 0.248
5NXJ SH3 domain from Mouse cortactin (P 1 21 1 crystal form) Deposited 2017-05-10 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 4 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain D 490–546（57 aa） Fragment：SH3 domain, UNP Residues 490-546
Not recorded IPA ISOPROPYL ALCOHOL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5；289 K；1.2 M (NH4)2SO4, 0.1 M sodium citrate pH 5, 3% 2_propanol
Resolution 2.28 Å R-free 0.248
5NXJ SH3 domain from Mouse cortactin (P 1 21 1 crystal form) Deposited 2017-05-10 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 5 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain E 490–546（57 aa） Fragment：SH3 domain, UNP Residues 490-546
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5；289 K；1.2 M (NH4)2SO4, 0.1 M sodium citrate pH 5, 3% 2_propanol
Resolution 2.28 Å R-free 0.248
5NXJ SH3 domain from Mouse cortactin (P 1 21 1 crystal form) Deposited 2017-05-10 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 6 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain F 490–546（57 aa） Fragment：SH3 domain, UNP Residues 490-546
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5；289 K；1.2 M (NH4)2SO4, 0.1 M sodium citrate pH 5, 3% 2_propanol
Resolution 2.28 Å R-free 0.248
7PLL Structure of the murine cortactin C-SH3 domain in complex with a Pyk2 proline-rich ligand Deposited 2021-08-31 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 490–546（57 aa） Fragment：SH3 domain, UNP Residues 490-546
Not recorded No recorded non-water small molecule SOLUTION NMR
NMR measurement conditions pH 6.5；296 K；Ionic strength (raw mmCIF value) 123；Pressure 1
NMR sample composition 0.8 mM cortactin C-terminal SH3 domain, 0.8 mM Pyk2-PRR2 peptide, 30 mM sodium phosphate, 0.01 % w/v sodium azide, 93% H2O/7% D2O | 93% H2O/7% D2O
NMR sample composition 0.5 mM Pyk2-PRR2 peptide, 30 mM sodium phosphate, 0.01 % w/v sodium azide, 93% H2O/7% D2O | 93% H2O/7% D2O
NMR sample composition 0.8 mM 2H,13C,15N cortactin C-terminal SH3 domain, 0.8 mM Pyk2-PRR2 peptide, 30 mM sodium phosphate, 0.01 % w/v sodium azide, 100% D2O | 100% D2O
NMR sample composition 0.8 mM cortactin C-terminal SH3 domain, 0.8 mM Pyk2-PRR2 peptide, 30 mM sodium phosphate, 0.01 % w/v sodium azide, 100% D2O | 100% D2O
Resolution not provided
8TAH Cryo-EM structure of Cortactin-bound to Arp2/3 complex Deposited 2023-06-27 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 8 PDB declaration: octameric
Chain H 1–76（76 aa）
Not recorded MG MAGNESIUM ION × 2 ATP ADENOSINE-5'-TRIPHOSPHATE × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 7；10 mM imidazole pH 7.0, 50 mM KCl, 2 mM MgCl2, 1 mM EGTA
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.89 Å

6 other PDB entries and 12 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name SRC8_MOUSE
Isoform —
PDB entities 9
Chains and sequence ranges Author chain I； PDBConstruct 1–546； UniProt 1–546

F-actin-capping protein subunit alpha-1

Mus musculus

UniProt P47753

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein heterocomplex Heteromer Protein × 30 PDB declaration: 30-meric（30） Consistent with protein copy count Chain U； UniProt 1–286 Not recorded Actin-related protein 3 × 1 （P61158） Actin-related protein 2 × 1 （P61160） Actin-related protein 2/3 complex subunit 1B × 1 （O15143） Actin-related protein 2/3 complex subunit 2 × 1 （O15144） Actin-related protein 2/3 complex subunit 3 × 1 （O15145） Actin-related protein 2/3 complex subunit 4 × 1 （P59998） Actin-related protein 2/3 complex subunit 5-like protein × 1 （Q9BPX5） Actin, cytoplasmic 1 × 10 （Q6QAQ1） Src substrate cortactin × 1 （Q60598） Isoform 2 of F-actin-capping protein subunit beta × 1 （P47757） Phalloidin × 10 ADP ADENOSINE-5'-DIPHOSPHATE × 12 MG MAGNESIUM ION × 12 ELECTRON MICROSCOPY cryo-EM buffer：pH 7.5；20 mM HEPES pH 7.5, 50mM KCl, 1mM EGTA, 1mM MgCl2, 0.2 mM ATP and 1 mM DTT cryo-EM vitrification conditions：Cryogen ETHANE；Back blotting Resolution 3.30 Å

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

Other PDB Difference from Current Entry 8P94 Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Method and Experimental Conditions Structure Quality
7PDZ Structure of capping protein bound to the barbed end of a cytoplasmic actin filament Deposited 2021-08-09 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 13 PDB declaration: tridecameric
Chain F 1–286（286 aa）
Not recorded ADP ADENOSINE-5'-DIPHOSPHATE × 6 MG MAGNESIUM ION × 6 PO4 PHOSPHATE ION × 4 ELECTRON MICROSCOPY
cryo-EM buffer pH 7；KMEI buffer
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.80 Å

1 other PDB entries and 1 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name CAZA1_MOUSE
Isoform —
PDB entities 10
Chains and sequence ranges Author chain U； PDBConstruct 1–286； UniProt 1–286

Isoform 2 of F-actin-capping protein subunit beta

Mus musculus

UniProt P47757

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein heterocomplex Heteromer Protein × 30 PDB declaration: 30-meric（30） Consistent with protein copy count Chain V； UniProt 1–272 Not recorded Actin-related protein 3 × 1 （P61158） Actin-related protein 2 × 1 （P61160） Actin-related protein 2/3 complex subunit 1B × 1 （O15143） Actin-related protein 2/3 complex subunit 2 × 1 （O15144） Actin-related protein 2/3 complex subunit 3 × 1 （O15145） Actin-related protein 2/3 complex subunit 4 × 1 （P59998） Actin-related protein 2/3 complex subunit 5-like protein × 1 （Q9BPX5） Actin, cytoplasmic 1 × 10 （Q6QAQ1） Src substrate cortactin × 1 （Q60598） F-actin-capping protein subunit alpha-1 × 1 （P47753） Phalloidin × 10 ADP ADENOSINE-5'-DIPHOSPHATE × 12 MG MAGNESIUM ION × 12 ELECTRON MICROSCOPY cryo-EM buffer：pH 7.5；20 mM HEPES pH 7.5, 50mM KCl, 1mM EGTA, 1mM MgCl2, 0.2 mM ATP and 1 mM DTT cryo-EM vitrification conditions：Cryogen ETHANE；Back blotting Resolution 3.30 Å

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

Other PDB Difference from Current Entry 8P94 Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Method and Experimental Conditions Structure Quality
7PDZ Structure of capping protein bound to the barbed end of a cytoplasmic actin filament Deposited 2021-08-09 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 13 PDB declaration: tridecameric
Chain E 1–272（272 aa）
Not recorded ADP ADENOSINE-5'-DIPHOSPHATE × 6 MG MAGNESIUM ION × 6 PO4 PHOSPHATE ION × 4 ELECTRON MICROSCOPY
cryo-EM buffer pH 7；KMEI buffer
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.80 Å

1 other PDB entries and 1 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name CAPZB_MOUSE
Isoform P47757-2
PDB entities 11
Chains and sequence ranges Author chain V； PDBConstruct 1–272； UniProt 1–272

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

SAXS scattering curve SAXS Profile

SAXS profile for 8p94

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 8p94
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2. Structure Basics 2. Structure Basics

Entry ID entry_id8p94
Deposition date deposition_date2023-06-05
Structure title titleCryo-EM structure of cortactin stabilized Arp2/3-complex nucleated actin branches
Keywords keywordsComplex, CONTRACTILE PROTEIN; CONTRACTILE PROTEIN
Experimental Method methodELECTRON MICROSCOPY
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3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

Radius of gyration Rg (Guinier) rg_guinier82.08 Å
Radius of gyration Rg (electron density) rg_electron83.20 Å
Forward intensity I(0) i07348910000.00
Molecular weight molecular_weight721940.0 kDa
Excluded volume excluded_volume901270 ų
Envelope volume envelope_volume1338900 ų
Hydration-shell volume shell_volume146080 ų
Envelope diameter envelope_diameter305.1 Å
Shell Rg shell_rg67.66 Å
Envelope Rg envelope_rg84.85 Å
Shape Rg shape_rg83.22 Å
Total Rg total_rg82.94 Å
Total atoms total_atoms100470
Residues n_residues6370
Spherical-harmonic order n_harmonics20
q range q_range— – 0.5000 Å−1
Data points n_points101
Shell type shell_typedirectional
Solvent electron density solvent_density0.3340 e/ų
Shell contrast contrast_shell0.0300 e/ų
CRYSOL version crysol_version4.1.3
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4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax230.1 Å
Rg (real space) rg_real77.36 Å
Rg uncertainty (real space) rg_real_error1.25 Å
I(0) (real space) i0_real7.0910e+09
I(0) uncertainty (real space) i0_real_error1.4120e+08
Rg (reciprocal space) rg_reciprocal78.16 Å
I(0) (reciprocal space) i0_reciprocal7269000000.0000
Solution quality estimate total_estimate0.9076
Solution quality rating solution_quality EXCELLENT a EXCELLENT solution
P(r) peaks n_peaks1
Primary peak position r_peak_primary72.7 Å
Skewness Skewness skewness0.485
Kurtosis Kurtosis kurtosis-0.478
Angular range angular_range— – 0.0950 Å−1
Current regularization parameter α current_alpha0.2729
Highest regularization parameter α highest_alpha291200000.0000
Real-space data points n_real_points20
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.939; Stabil: 0.985; Sysdev: 1.000; Positv: 1.000; Valcen: 0.996; Smooth: 0.059
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5. Crystallography and Experiment 5. Crystallography & Experiment

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6. Entities and Polymers Entities & Polymers (14)

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8. Citations (1)

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9. Files and Curves (10)