9bc8

Cargo-loaded Myxococcus xanthus EncA encapsulin engineered pore mutant with T=4 icosahedral symmetry

Method: ELECTRON MICROSCOPY D_max: 159.1 Å Quality: GOOD

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1. Protein Identity and Related Structures Protein Identity & Related Structures

Type 1 encapsulin shell protein EncA

Myxococcus xanthus DK 1622

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 × 480 PDB declaration: 480-meric（480） Consistent with protein copy count	Chain A； UniProt 1–287 Chain B； UniProt 1–287 Chain C； UniProt 1–287 Chain D； UniProt 1–287	Mutation：I203G, Y204G	Encapsulin nanocompartment cargo protein EncC × 240 （Q1D3Y8）	ELECTRON MICROSCOPY cryo-EM buffer：pH 7.5；150 mM NaCl, 20 mM Tris pH 7.5 cryo-EM vitrification conditions：Cryogen ETHANE；Blot force: 20 Blot time: 4 seconds Wait time: 0 seconds	Resolution 3.46 Å
2	Protein heterocomplex Heteromer Protein × 8 PDB declaration: octameric（8） Consistent with protein copy count	Chain A； UniProt 1–287 Chain B； UniProt 1–287 Chain C； UniProt 1–287 Chain D； UniProt 1–287	Mutation：I203G, Y204G	Encapsulin nanocompartment cargo protein EncC × 4 （Q1D3Y8）	ELECTRON MICROSCOPY cryo-EM buffer：pH 7.5；150 mM NaCl, 20 mM Tris pH 7.5 cryo-EM vitrification conditions：Cryogen ETHANE；Blot force: 20 Blot time: 4 seconds Wait time: 0 seconds	Resolution 3.46 Å
3	Protein heterocomplex Heteromer Protein × 40 PDB declaration: 40-meric（40） Consistent with protein copy count	Chain A； UniProt 1–287 Chain B； UniProt 1–287 Chain C； UniProt 1–287 Chain D； UniProt 1–287	Mutation：I203G, Y204G	Encapsulin nanocompartment cargo protein EncC × 20 （Q1D3Y8）	ELECTRON MICROSCOPY cryo-EM buffer：pH 7.5；150 mM NaCl, 20 mM Tris pH 7.5 cryo-EM vitrification conditions：Cryogen ETHANE；Blot force: 20 Blot time: 4 seconds Wait time: 0 seconds	Resolution 3.46 Å
4	Protein heterocomplex Heteromer Protein × 48 PDB declaration: 48-meric（48） Consistent with protein copy count	Chain A； UniProt 1–287 Chain B； UniProt 1–287 Chain C； UniProt 1–287 Chain D； UniProt 1–287	Mutation：I203G, Y204G	Encapsulin nanocompartment cargo protein EncC × 24 （Q1D3Y8）	ELECTRON MICROSCOPY cryo-EM buffer：pH 7.5；150 mM NaCl, 20 mM Tris pH 7.5 cryo-EM vitrification conditions：Cryogen ETHANE；Blot force: 20 Blot time: 4 seconds Wait time: 0 seconds	Resolution 3.46 Å
5	Protein heterocomplex Heteromer Protein × 8 PDB declaration: octameric（8） Consistent with protein copy count	Chain A； UniProt 1–287 Chain B； UniProt 1–287 Chain C； UniProt 1–287 Chain D； UniProt 1–287	Mutation：I203G, Y204G	Encapsulin nanocompartment cargo protein EncC × 4 （Q1D3Y8）	ELECTRON MICROSCOPY cryo-EM buffer：pH 7.5；150 mM NaCl, 20 mM Tris pH 7.5 cryo-EM vitrification conditions：Cryogen ETHANE；Blot force: 20 Blot time: 4 seconds Wait time: 0 seconds	Resolution 3.46 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 9BC8	Assembly / Oligomeric State	Construct	Mutations and Modifications	Ligands, Ions and Non-polymers	Method and Experimental Conditions	Structure Quality
4PT2 Myxococcus xanthus encapsulin protein (EncA) Deposited 2014-03-10	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 180 PDB declaration: 180-MERIC	Chain A 8–294（287 aa） Fragment：UNP residues 8-294 Chain B 8–294（287 aa） Fragment：UNP residues 8-294 Chain P 8–294（287 aa） Fragment：UNP residues 8-294	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer 10 mM Tris, 10 mM MgCl2；pH 7.6；10 mM Tris, 10 mM MgCl2 cryo-EM vitrification conditions 83 K；Cryogen ETHANE；Plunged into liquid ethane (LEICA KF80)	Resolution 4.60 Å
4PT2 Myxococcus xanthus encapsulin protein (EncA) Deposited 2014-03-10	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 2 Protein homooligomer Homooligomer；Protein × 3 PDB declaration: trimeric	Chain A 8–294（287 aa） Fragment：UNP residues 8-294 Chain B 8–294（287 aa） Fragment：UNP residues 8-294 Chain P 8–294（287 aa） Fragment：UNP residues 8-294	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer 10 mM Tris, 10 mM MgCl2；pH 7.6；10 mM Tris, 10 mM MgCl2 cryo-EM vitrification conditions 83 K；Cryogen ETHANE；Plunged into liquid ethane (LEICA KF80)	Resolution 4.60 Å
4PT2 Myxococcus xanthus encapsulin protein (EncA) Deposited 2014-03-10	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 3 Protein homooligomer Homooligomer；Protein × 15 PDB declaration: pentadecameric	Chain A 8–294（287 aa） Fragment：UNP residues 8-294 Chain B 8–294（287 aa） Fragment：UNP residues 8-294 Chain P 8–294（287 aa） Fragment：UNP residues 8-294	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer 10 mM Tris, 10 mM MgCl2；pH 7.6；10 mM Tris, 10 mM MgCl2 cryo-EM vitrification conditions 83 K；Cryogen ETHANE；Plunged into liquid ethane (LEICA KF80)	Resolution 4.60 Å
4PT2 Myxococcus xanthus encapsulin protein (EncA) Deposited 2014-03-10	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 4 Protein homooligomer Homooligomer；Protein × 18 PDB declaration: octadecameric	Chain A 8–294（287 aa） Fragment：UNP residues 8-294 Chain B 8–294（287 aa） Fragment：UNP residues 8-294 Chain P 8–294（287 aa） Fragment：UNP residues 8-294	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer 10 mM Tris, 10 mM MgCl2；pH 7.6；10 mM Tris, 10 mM MgCl2 cryo-EM vitrification conditions 83 K；Cryogen ETHANE；Plunged into liquid ethane (LEICA KF80)	Resolution 4.60 Å
4PT2 Myxococcus xanthus encapsulin protein (EncA) Deposited 2014-03-10	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 5 Protein homooligomer Homooligomer；Protein × 3 PDB declaration: trimeric	Chain A 8–294（287 aa） Fragment：UNP residues 8-294 Chain B 8–294（287 aa） Fragment：UNP residues 8-294 Chain P 8–294（287 aa） Fragment：UNP residues 8-294	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer 10 mM Tris, 10 mM MgCl2；pH 7.6；10 mM Tris, 10 mM MgCl2 cryo-EM vitrification conditions 83 K；Cryogen ETHANE；Plunged into liquid ethane (LEICA KF80)	Resolution 4.60 Å
7S20 M. xanthus encapsulin shell protein EncA with T=3 symmetry Deposited 2021-09-02	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 180 PDB declaration: 180-meric	Chain A 1–294（294 aa） Chain B 1–294（294 aa） Chain C 1–294（294 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.3；20 mM HEPES, pH 7.3, 150 mM NaCl cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.40 Å
7S20 M. xanthus encapsulin shell protein EncA with T=3 symmetry Deposited 2021-09-02	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 2 Protein homooligomer Homooligomer；Protein × 3 PDB declaration: trimeric	Chain A 1–294（294 aa） Chain B 1–294（294 aa） Chain C 1–294（294 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.3；20 mM HEPES, pH 7.3, 150 mM NaCl cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.40 Å
7S20 M. xanthus encapsulin shell protein EncA with T=3 symmetry Deposited 2021-09-02	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 3 Protein homooligomer Homooligomer；Protein × 15 PDB declaration: pentadecameric	Chain A 1–294（294 aa） Chain B 1–294（294 aa） Chain C 1–294（294 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.3；20 mM HEPES, pH 7.3, 150 mM NaCl cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.40 Å
7S20 M. xanthus encapsulin shell protein EncA with T=3 symmetry Deposited 2021-09-02	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 4 Protein homooligomer Homooligomer；Protein × 18 PDB declaration: octadecameric	Chain A 1–294（294 aa） Chain B 1–294（294 aa） Chain C 1–294（294 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.3；20 mM HEPES, pH 7.3, 150 mM NaCl cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.40 Å
7S20 M. xanthus encapsulin shell protein EncA with T=3 symmetry Deposited 2021-09-02	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 5 Protein homooligomer Homooligomer；Protein × 3 PDB declaration: trimeric	Chain A 1–294（294 aa） Chain B 1–294（294 aa） Chain C 1–294（294 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.3；20 mM HEPES, pH 7.3, 150 mM NaCl cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.40 Å
7S21 M. xanthus encapsulin shell protein EncA with T=1 symmetry Deposited 2021-09-02	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 60 PDB declaration: 60-meric	Chain A 1–294（294 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.3；20 mM HEPES, pH 7.3, 150 mM NaCl cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.40 Å
7S21 M. xanthus encapsulin shell protein EncA with T=1 symmetry Deposited 2021-09-02	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain A 1–294（294 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.3；20 mM HEPES, pH 7.3, 150 mM NaCl cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.40 Å
7S21 M. xanthus encapsulin shell protein EncA with T=1 symmetry Deposited 2021-09-02	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 3 Protein homooligomer Homooligomer；Protein × 5 PDB declaration: pentameric	Chain A 1–294（294 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.3；20 mM HEPES, pH 7.3, 150 mM NaCl cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.40 Å
7S21 M. xanthus encapsulin shell protein EncA with T=1 symmetry Deposited 2021-09-02	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 4 Protein homooligomer Homooligomer；Protein × 6 PDB declaration: hexameric	Chain A 1–294（294 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.3；20 mM HEPES, pH 7.3, 150 mM NaCl cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.40 Å
7S21 M. xanthus encapsulin shell protein EncA with T=1 symmetry Deposited 2021-09-02	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 5 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain A 1–294（294 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.3；20 mM HEPES, pH 7.3, 150 mM NaCl cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.40 Å
7S2T M. xanthus encapsulin EncA bound to EncB targeting peptide Deposited 2021-09-03	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 360 PDB declaration: 360-meric	Chain A 1–294（294 aa） Chain B 1–294（294 aa） Chain C 1–294（294 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.3；20 mM HEPES, pH 7.3, 150 mM NaCl cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.45 Å
7S2T M. xanthus encapsulin EncA bound to EncB targeting peptide Deposited 2021-09-03	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 2 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric	Chain A 1–294（294 aa） Chain B 1–294（294 aa） Chain C 1–294（294 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.3；20 mM HEPES, pH 7.3, 150 mM NaCl cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.45 Å
7S2T M. xanthus encapsulin EncA bound to EncB targeting peptide Deposited 2021-09-03	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 3 Protein heterocomplex Heteromer；Protein × 30 PDB declaration: 30-meric	Chain A 1–294（294 aa） Chain B 1–294（294 aa） Chain C 1–294（294 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.3；20 mM HEPES, pH 7.3, 150 mM NaCl cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.45 Å
7S2T M. xanthus encapsulin EncA bound to EncB targeting peptide Deposited 2021-09-03	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 4 Protein heterocomplex Heteromer；Protein × 36 PDB declaration: 36-meric	Chain A 1–294（294 aa） Chain B 1–294（294 aa） Chain C 1–294（294 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.3；20 mM HEPES, pH 7.3, 150 mM NaCl cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.45 Å
7S2T M. xanthus encapsulin EncA bound to EncB targeting peptide Deposited 2021-09-03	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 5 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric	Chain A 1–294（294 aa） Chain B 1–294（294 aa） Chain C 1–294（294 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.3；20 mM HEPES, pH 7.3, 150 mM NaCl cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.45 Å
7S4Q M. xanthus encapsulin EncA bound to EncC targeting peptide Deposited 2021-09-09	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 360 PDB declaration: 360-meric	Chain A 1–294（294 aa） Chain B 1–294（294 aa） Chain C 1–294（294 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.3；20 mM HEPES, pH 7.3, 150 mM NaCl cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.12 Å
7S4Q M. xanthus encapsulin EncA bound to EncC targeting peptide Deposited 2021-09-09	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 2 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric	Chain A 1–294（294 aa） Chain B 1–294（294 aa） Chain C 1–294（294 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.3；20 mM HEPES, pH 7.3, 150 mM NaCl cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.12 Å
7S4Q M. xanthus encapsulin EncA bound to EncC targeting peptide Deposited 2021-09-09	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 3 Protein heterocomplex Heteromer；Protein × 30 PDB declaration: 30-meric	Chain A 1–294（294 aa） Chain B 1–294（294 aa） Chain C 1–294（294 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.3；20 mM HEPES, pH 7.3, 150 mM NaCl cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.12 Å
7S4Q M. xanthus encapsulin EncA bound to EncC targeting peptide Deposited 2021-09-09	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 4 Protein heterocomplex Heteromer；Protein × 36 PDB declaration: 36-meric	Chain A 1–294（294 aa） Chain B 1–294（294 aa） Chain C 1–294（294 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.3；20 mM HEPES, pH 7.3, 150 mM NaCl cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.12 Å
7S4Q M. xanthus encapsulin EncA bound to EncC targeting peptide Deposited 2021-09-09	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 5 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric	Chain A 1–294（294 aa） Chain B 1–294（294 aa） Chain C 1–294（294 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.3；20 mM HEPES, pH 7.3, 150 mM NaCl cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.12 Å
8TK7 Myxococcus xanthus EncA protein shell with compartmentalized SNAP-tag cargo protein Deposited 2023-07-25	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 360 PDB declaration: 360-meric	Chain A 1–287（287 aa） Chain B 1–287（287 aa） Chain C 1–287（287 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5；150 mM NaCl, 20 mM Tris pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.53 Å
8TK7 Myxococcus xanthus EncA protein shell with compartmentalized SNAP-tag cargo protein Deposited 2023-07-25	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 2 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric	Chain A 1–287（287 aa） Chain B 1–287（287 aa） Chain C 1–287（287 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5；150 mM NaCl, 20 mM Tris pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.53 Å
8TK7 Myxococcus xanthus EncA protein shell with compartmentalized SNAP-tag cargo protein Deposited 2023-07-25	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 3 Protein heterocomplex Heteromer；Protein × 30 PDB declaration: 30-meric	Chain A 1–287（287 aa） Chain B 1–287（287 aa） Chain C 1–287（287 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5；150 mM NaCl, 20 mM Tris pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.53 Å
8TK7 Myxococcus xanthus EncA protein shell with compartmentalized SNAP-tag cargo protein Deposited 2023-07-25	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 4 Protein heterocomplex Heteromer；Protein × 36 PDB declaration: 36-meric	Chain A 1–287（287 aa） Chain B 1–287（287 aa） Chain C 1–287（287 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5；150 mM NaCl, 20 mM Tris pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.53 Å
8TK7 Myxococcus xanthus EncA protein shell with compartmentalized SNAP-tag cargo protein Deposited 2023-07-25	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 5 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric	Chain A 1–287（287 aa） Chain B 1–287（287 aa） Chain C 1–287（287 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5；150 mM NaCl, 20 mM Tris pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.53 Å
8V4N Myxococcus xanthus EncA 3xHis pore mutant with T=1 icosahedral symmetry Deposited 2023-11-29	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain A 1–287（287 aa）	Mutation：K199H, T200H, G201H	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 8；50 mM Tris pH 8.0, 200 mM NaCl cryo-EM vitrification conditions Cryogen ETHANE；Blot force: 5 Blot time: 2 seconds	Resolution 2.43 Å
8V4Q Myxococcus xanthus EncA 3xHis pore mutant with tetrahedral symmetry Deposited 2023-11-29	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 3 PDB declaration: trimeric	Chain A 1–287（287 aa） Chain B 1–287（287 aa） Chain C 1–287（287 aa）	Mutation：K199H, T200H, G201H Mutation：K199H, T200H, G201H Mutation：K199H, T200H, G201H	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 8；50 mM Tris pH 8.0, 200 mM NaCl cryo-EM vitrification conditions Cryogen ETHANE；Blot force: 5 Blot time: 2 seconds	Resolution 2.71 Å
8VJO Cryo-EM structure of Myxococcus xanthus EncA encapsulin shell loaded with EncD cargo Deposited 2024-01-07	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 360 PDB declaration: 360-meric	Chain A 1–294（294 aa） Chain B 1–294（294 aa） Chain C 1–294（294 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.3；20mM HEPES, 150mM NaCl cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.40 Å
8VJO Cryo-EM structure of Myxococcus xanthus EncA encapsulin shell loaded with EncD cargo Deposited 2024-01-07	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 2 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric	Chain A 1–294（294 aa） Chain B 1–294（294 aa） Chain C 1–294（294 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.3；20mM HEPES, 150mM NaCl cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.40 Å
8VJO Cryo-EM structure of Myxococcus xanthus EncA encapsulin shell loaded with EncD cargo Deposited 2024-01-07	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 3 Protein heterocomplex Heteromer；Protein × 30 PDB declaration: 30-meric	Chain A 1–294（294 aa） Chain B 1–294（294 aa） Chain C 1–294（294 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.3；20mM HEPES, 150mM NaCl cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.40 Å
8VJO Cryo-EM structure of Myxococcus xanthus EncA encapsulin shell loaded with EncD cargo Deposited 2024-01-07	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 4 Protein heterocomplex Heteromer；Protein × 36 PDB declaration: 36-meric	Chain A 1–294（294 aa） Chain B 1–294（294 aa） Chain C 1–294（294 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.3；20mM HEPES, 150mM NaCl cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.40 Å
8VJO Cryo-EM structure of Myxococcus xanthus EncA encapsulin shell loaded with EncD cargo Deposited 2024-01-07	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 5 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric	Chain A 1–294（294 aa） Chain B 1–294（294 aa） Chain C 1–294（294 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.3；20mM HEPES, 150mM NaCl cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.40 Å
9B9I Myxococcus xanthus EncA encapsulin engineered pore mutant with T=1 icosahedral symmetry Deposited 2024-04-02	Different construct Different mutation/modification Different oligomeric state Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 60 PDB declaration: 60-meric	Chain A 1–287（287 aa） Fragment：I203G, Y204G, del(205-210)	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5；150 mM NaCl, 20 mM Tris pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE；Blot force: 20 Blot time: 4 seconds Wait time: 0 seconds	Resolution 2.86 Å
9B9I Myxococcus xanthus EncA encapsulin engineered pore mutant with T=1 icosahedral symmetry Deposited 2024-04-02	Different construct Different mutation/modification Different oligomeric state Different structure-quality metrics	Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain A 1–287（287 aa） Fragment：I203G, Y204G, del(205-210)	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5；150 mM NaCl, 20 mM Tris pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE；Blot force: 20 Blot time: 4 seconds Wait time: 0 seconds	Resolution 2.86 Å
9B9I Myxococcus xanthus EncA encapsulin engineered pore mutant with T=1 icosahedral symmetry Deposited 2024-04-02	Different construct Different mutation/modification Different oligomeric state Different structure-quality metrics	Assembly 3 Protein homooligomer Homooligomer；Protein × 5 PDB declaration: pentameric	Chain A 1–287（287 aa） Fragment：I203G, Y204G, del(205-210)	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5；150 mM NaCl, 20 mM Tris pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE；Blot force: 20 Blot time: 4 seconds Wait time: 0 seconds	Resolution 2.86 Å
9B9I Myxococcus xanthus EncA encapsulin engineered pore mutant with T=1 icosahedral symmetry Deposited 2024-04-02	Different construct Different mutation/modification Different oligomeric state Different structure-quality metrics	Assembly 4 Protein homooligomer Homooligomer；Protein × 6 PDB declaration: hexameric	Chain A 1–287（287 aa） Fragment：I203G, Y204G, del(205-210)	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5；150 mM NaCl, 20 mM Tris pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE；Blot force: 20 Blot time: 4 seconds Wait time: 0 seconds	Resolution 2.86 Å
9B9I Myxococcus xanthus EncA encapsulin engineered pore mutant with T=1 icosahedral symmetry Deposited 2024-04-02	Different construct Different mutation/modification Different oligomeric state Different structure-quality metrics	Assembly 5 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain A 1–287（287 aa） Fragment：I203G, Y204G, del(205-210)	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5；150 mM NaCl, 20 mM Tris pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE；Blot force: 20 Blot time: 4 seconds Wait time: 0 seconds	Resolution 2.86 Å
9B9Q Cargo-loaded Myxococcus xanthus EncA encapsulin engineered pore mutant with T=3 icosahedral symmetry Deposited 2024-04-03	Different construct Different mutation/modification Different oligomeric state Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 360 PDB declaration: 360-meric	Chain A 1–287（287 aa） Chain B 1–287（287 aa） Chain C 1–287（287 aa）	Mutation：I203G, Y204G, del(205-210) Mutation：I203G, Y204G, del(205-210) Mutation：I203G, Y204G, del(205-210)	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5；150 mM NaCl, 20 mM Tris pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE；Blot force: 20 Blot time: 4 seconds Wait time: 0 seconds	Resolution 3.14 Å
9B9Q Cargo-loaded Myxococcus xanthus EncA encapsulin engineered pore mutant with T=3 icosahedral symmetry Deposited 2024-04-03	Different construct Different mutation/modification Different oligomeric state Different structure-quality metrics	Assembly 2 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric	Chain A 1–287（287 aa） Chain B 1–287（287 aa） Chain C 1–287（287 aa）	Mutation：I203G, Y204G, del(205-210) Mutation：I203G, Y204G, del(205-210) Mutation：I203G, Y204G, del(205-210)	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5；150 mM NaCl, 20 mM Tris pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE；Blot force: 20 Blot time: 4 seconds Wait time: 0 seconds	Resolution 3.14 Å
9B9Q Cargo-loaded Myxococcus xanthus EncA encapsulin engineered pore mutant with T=3 icosahedral symmetry Deposited 2024-04-03	Different construct Different mutation/modification Different oligomeric state Different structure-quality metrics	Assembly 3 Protein heterocomplex Heteromer；Protein × 30 PDB declaration: 30-meric	Chain A 1–287（287 aa） Chain B 1–287（287 aa） Chain C 1–287（287 aa）	Mutation：I203G, Y204G, del(205-210) Mutation：I203G, Y204G, del(205-210) Mutation：I203G, Y204G, del(205-210)	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5；150 mM NaCl, 20 mM Tris pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE；Blot force: 20 Blot time: 4 seconds Wait time: 0 seconds	Resolution 3.14 Å
9B9Q Cargo-loaded Myxococcus xanthus EncA encapsulin engineered pore mutant with T=3 icosahedral symmetry Deposited 2024-04-03	Different construct Different mutation/modification Different oligomeric state Different structure-quality metrics	Assembly 4 Protein heterocomplex Heteromer；Protein × 36 PDB declaration: 36-meric	Chain A 1–287（287 aa） Chain B 1–287（287 aa） Chain C 1–287（287 aa）	Mutation：I203G, Y204G, del(205-210) Mutation：I203G, Y204G, del(205-210) Mutation：I203G, Y204G, del(205-210)	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5；150 mM NaCl, 20 mM Tris pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE；Blot force: 20 Blot time: 4 seconds Wait time: 0 seconds	Resolution 3.14 Å
9B9Q Cargo-loaded Myxococcus xanthus EncA encapsulin engineered pore mutant with T=3 icosahedral symmetry Deposited 2024-04-03	Different construct Different mutation/modification Different oligomeric state Different structure-quality metrics	Assembly 5 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric	Chain A 1–287（287 aa） Chain B 1–287（287 aa） Chain C 1–287（287 aa）	Mutation：I203G, Y204G, del(205-210) Mutation：I203G, Y204G, del(205-210) Mutation：I203G, Y204G, del(205-210)	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5；150 mM NaCl, 20 mM Tris pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE；Blot force: 20 Blot time: 4 seconds Wait time: 0 seconds	Resolution 3.14 Å

11 other PDB entries and 47 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence

UniProt name	ENCAP_MYXXD
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 1–281； UniProt 1–287 Author chain B； PDBConstruct 1–281； UniProt 1–287 Author chain C； PDBConstruct 1–281； UniProt 1–287 Author chain D； PDBConstruct 1–281； UniProt 1–287

Encapsulin nanocompartment cargo protein EncC

Myxococcus xanthus DK 1622

UniProt Q1D3Y8

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 × 480 PDB declaration: 480-meric（480） Consistent with protein copy count	Chain E； UniProt 119–130 Chain F； UniProt 119–130 Chain G； UniProt 119–130 Chain H； UniProt 119–130	Fragment：C-terminal targeting peptide (UNP residues 119-130)	Type 1 encapsulin shell protein EncA × 240 （Q1D6H4）	ELECTRON MICROSCOPY cryo-EM buffer：pH 7.5；150 mM NaCl, 20 mM Tris pH 7.5 cryo-EM vitrification conditions：Cryogen ETHANE；Blot force: 20 Blot time: 4 seconds Wait time: 0 seconds	Resolution 3.46 Å
2	Protein heterocomplex Heteromer Protein × 8 PDB declaration: octameric（8） Consistent with protein copy count	Chain E； UniProt 119–130 Chain F； UniProt 119–130 Chain G； UniProt 119–130 Chain H； UniProt 119–130	Fragment：C-terminal targeting peptide (UNP residues 119-130)	Type 1 encapsulin shell protein EncA × 4 （Q1D6H4）	ELECTRON MICROSCOPY cryo-EM buffer：pH 7.5；150 mM NaCl, 20 mM Tris pH 7.5 cryo-EM vitrification conditions：Cryogen ETHANE；Blot force: 20 Blot time: 4 seconds Wait time: 0 seconds	Resolution 3.46 Å
3	Protein heterocomplex Heteromer Protein × 40 PDB declaration: 40-meric（40） Consistent with protein copy count	Chain E； UniProt 119–130 Chain F； UniProt 119–130 Chain G； UniProt 119–130 Chain H； UniProt 119–130	Fragment：C-terminal targeting peptide (UNP residues 119-130)	Type 1 encapsulin shell protein EncA × 20 （Q1D6H4）	ELECTRON MICROSCOPY cryo-EM buffer：pH 7.5；150 mM NaCl, 20 mM Tris pH 7.5 cryo-EM vitrification conditions：Cryogen ETHANE；Blot force: 20 Blot time: 4 seconds Wait time: 0 seconds	Resolution 3.46 Å
4	Protein heterocomplex Heteromer Protein × 48 PDB declaration: 48-meric（48） Consistent with protein copy count	Chain E； UniProt 119–130 Chain F； UniProt 119–130 Chain G； UniProt 119–130 Chain H； UniProt 119–130	Fragment：C-terminal targeting peptide (UNP residues 119-130)	Type 1 encapsulin shell protein EncA × 24 （Q1D6H4）	ELECTRON MICROSCOPY cryo-EM buffer：pH 7.5；150 mM NaCl, 20 mM Tris pH 7.5 cryo-EM vitrification conditions：Cryogen ETHANE；Blot force: 20 Blot time: 4 seconds Wait time: 0 seconds	Resolution 3.46 Å
5	Protein heterocomplex Heteromer Protein × 8 PDB declaration: octameric（8） Consistent with protein copy count	Chain E； UniProt 119–130 Chain F； UniProt 119–130 Chain G； UniProt 119–130 Chain H； UniProt 119–130	Fragment：C-terminal targeting peptide (UNP residues 119-130)	Type 1 encapsulin shell protein EncA × 4 （Q1D6H4）	ELECTRON MICROSCOPY cryo-EM buffer：pH 7.5；150 mM NaCl, 20 mM Tris pH 7.5 cryo-EM vitrification conditions：Cryogen ETHANE；Blot force: 20 Blot time: 4 seconds Wait time: 0 seconds	Resolution 3.46 Å

Other States of the Same Protein in the Database

Other PDB	Difference from Current Entry 9BC8	Assembly / Oligomeric State	Construct	Mutations and Modifications	Ligands, Ions and Non-polymers	Method and Experimental Conditions	Structure Quality
7S4Q M. xanthus encapsulin EncA bound to EncC targeting peptide Deposited 2021-09-09	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 360 PDB declaration: 360-meric	Chain F 105–116（12 aa） Chain G 105–116（12 aa） Chain H 105–116（12 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.3；20 mM HEPES, pH 7.3, 150 mM NaCl cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.12 Å
7S4Q M. xanthus encapsulin EncA bound to EncC targeting peptide Deposited 2021-09-09	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 2 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric	Chain F 105–116（12 aa） Chain G 105–116（12 aa） Chain H 105–116（12 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.3；20 mM HEPES, pH 7.3, 150 mM NaCl cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.12 Å
7S4Q M. xanthus encapsulin EncA bound to EncC targeting peptide Deposited 2021-09-09	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 3 Protein heterocomplex Heteromer；Protein × 30 PDB declaration: 30-meric	Chain F 105–116（12 aa） Chain G 105–116（12 aa） Chain H 105–116（12 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.3；20 mM HEPES, pH 7.3, 150 mM NaCl cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.12 Å
7S4Q M. xanthus encapsulin EncA bound to EncC targeting peptide Deposited 2021-09-09	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 4 Protein heterocomplex Heteromer；Protein × 36 PDB declaration: 36-meric	Chain F 105–116（12 aa） Chain G 105–116（12 aa） Chain H 105–116（12 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.3；20 mM HEPES, pH 7.3, 150 mM NaCl cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.12 Å
7S4Q M. xanthus encapsulin EncA bound to EncC targeting peptide Deposited 2021-09-09	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 5 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric	Chain F 105–116（12 aa） Chain G 105–116（12 aa） Chain H 105–116（12 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.3；20 mM HEPES, pH 7.3, 150 mM NaCl cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.12 Å
9B9Q Cargo-loaded Myxococcus xanthus EncA encapsulin engineered pore mutant with T=3 icosahedral symmetry Deposited 2024-04-03	Different construct Different mutation/modification Different oligomeric state Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 360 PDB declaration: 360-meric	Chain F 119–130（12 aa） Fragment：C-terminal targeting peptide (UNP residues 119-130) Chain G 119–130（12 aa） Fragment：C-terminal targeting peptide (UNP residues 119-130) Chain H 119–130（12 aa） Fragment：C-terminal targeting peptide (UNP residues 119-130)	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5；150 mM NaCl, 20 mM Tris pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE；Blot force: 20 Blot time: 4 seconds Wait time: 0 seconds	Resolution 3.14 Å
9B9Q Cargo-loaded Myxococcus xanthus EncA encapsulin engineered pore mutant with T=3 icosahedral symmetry Deposited 2024-04-03	Different construct Different mutation/modification Different oligomeric state Different structure-quality metrics	Assembly 2 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric	Chain F 119–130（12 aa） Fragment：C-terminal targeting peptide (UNP residues 119-130) Chain G 119–130（12 aa） Fragment：C-terminal targeting peptide (UNP residues 119-130) Chain H 119–130（12 aa） Fragment：C-terminal targeting peptide (UNP residues 119-130)	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5；150 mM NaCl, 20 mM Tris pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE；Blot force: 20 Blot time: 4 seconds Wait time: 0 seconds	Resolution 3.14 Å
9B9Q Cargo-loaded Myxococcus xanthus EncA encapsulin engineered pore mutant with T=3 icosahedral symmetry Deposited 2024-04-03	Different construct Different mutation/modification Different oligomeric state Different structure-quality metrics	Assembly 3 Protein heterocomplex Heteromer；Protein × 30 PDB declaration: 30-meric	Chain F 119–130（12 aa） Fragment：C-terminal targeting peptide (UNP residues 119-130) Chain G 119–130（12 aa） Fragment：C-terminal targeting peptide (UNP residues 119-130) Chain H 119–130（12 aa） Fragment：C-terminal targeting peptide (UNP residues 119-130)	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5；150 mM NaCl, 20 mM Tris pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE；Blot force: 20 Blot time: 4 seconds Wait time: 0 seconds	Resolution 3.14 Å
9B9Q Cargo-loaded Myxococcus xanthus EncA encapsulin engineered pore mutant with T=3 icosahedral symmetry Deposited 2024-04-03	Different construct Different mutation/modification Different oligomeric state Different structure-quality metrics	Assembly 4 Protein heterocomplex Heteromer；Protein × 36 PDB declaration: 36-meric	Chain F 119–130（12 aa） Fragment：C-terminal targeting peptide (UNP residues 119-130) Chain G 119–130（12 aa） Fragment：C-terminal targeting peptide (UNP residues 119-130) Chain H 119–130（12 aa） Fragment：C-terminal targeting peptide (UNP residues 119-130)	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5；150 mM NaCl, 20 mM Tris pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE；Blot force: 20 Blot time: 4 seconds Wait time: 0 seconds	Resolution 3.14 Å
9B9Q Cargo-loaded Myxococcus xanthus EncA encapsulin engineered pore mutant with T=3 icosahedral symmetry Deposited 2024-04-03	Different construct Different mutation/modification Different oligomeric state Different structure-quality metrics	Assembly 5 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric	Chain F 119–130（12 aa） Fragment：C-terminal targeting peptide (UNP residues 119-130) Chain G 119–130（12 aa） Fragment：C-terminal targeting peptide (UNP residues 119-130) Chain H 119–130（12 aa） Fragment：C-terminal targeting peptide (UNP residues 119-130)	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5；150 mM NaCl, 20 mM Tris pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE；Blot force: 20 Blot time: 4 seconds Wait time: 0 seconds	Resolution 3.14 Å

2 other PDB entries and 10 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence

UniProt name	ENCC_MYXXD
Isoform	—
PDB entities	2
Chains and sequence ranges	Author chain E； PDBConstruct 1–12； UniProt 119–130 Author chain F； PDBConstruct 1–12； UniProt 119–130 Author chain G； PDBConstruct 1–12； UniProt 119–130 Author chain H； PDBConstruct 1–12； UniProt 119–130

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

P(r) Distance Distribution P(r) Distribution

Download Download SAXS (.dat) P(r) (.pr.out) CIF

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2. Structure Basics 2. Structure Basics

Entry ID entry_id	9bc8
Deposition date deposition_date	2024-04-08
最后修订 last_revision	2024-10-30
Structure title title	Cargo-loaded Myxococcus xanthus EncA encapsulin engineered pore mutant with T=4 icosahedral symmetry
Keywords keywords	encapsulin, nanocompartment, pore mutant, VIRUS LIKE PARTICLE; VIRUS LIKE PARTICLE
Experimental Method method	ELECTRON MICROSCOPY

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3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

Radius of gyration Rg (Guinier) rg_guinier	42.85 Å
Radius of gyration Rg (electron density) rg_electron	42.95 Å
Forward intensity I(0) i0	238702000.00
Molecular weight molecular_weight	124090.0 kDa
Excluded volume excluded_volume	154880 Å³
Envelope volume envelope_volume	222810 Å³
Hydration-shell volume shell_volume	46736 Å³
Envelope diameter envelope_diameter	166.2 Å
Shell Rg shell_rg	43.10 Å
Envelope Rg envelope_rg	43.82 Å
Shape Rg shape_rg	42.97 Å
Total Rg total_rg	42.92 Å
Total atoms total_atoms	8740
Residues n_residues	1128
Spherical-harmonic order n_harmonics	20
q range q_range	— – 0.5000 Å⁻¹
Data points n_points	101
Shell type shell_type	directional
Solvent electron density solvent_density	0.3340 e/Å³
Shell contrast contrast_shell	0.0300 e/Å³
CRYSOL version crysol_version	4.1.3

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4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax	159.1 Å
Rg (real space) rg_real	43.08 Å
Rg uncertainty (real space) rg_real_error	1.90 Å
I(0) (real space) i0_real	2.3870e+08
I(0) uncertainty (real space) i0_real_error	4.6220e+06
Rg (reciprocal space) rg_reciprocal	42.86 Å
I(0) (reciprocal space) i0_reciprocal	238600000.0000
Solution quality estimate total_estimate	0.8307
Solution quality rating solution_quality	GOOD a GOOD solution
P(r) peaks n_peaks	2
Primary peak position r_peak_primary	38.7 Å
Skewness Skewness skewness	0.393
Kurtosis Kurtosis kurtosis	-0.425
Angular range angular_range	— – 0.1850 Å⁻¹
Current regularization parameter α current_alpha	0.0000
Highest regularization parameter α highest_alpha	24680000.0000
Real-space data points n_real_points	38
GNOM version gnom_version	4.1.3
Quality Criteria quality_criteria	AN1: 0.000; Oscil: 0.700; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.732; Smooth: 0.962

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5. Crystallography and Experiment 5. Crystallography & Experiment

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6. Entities and Polymers Entities & Polymers (2)

Entity 1 Entity 1 polymer

Description description	Type 1 encapsulin shell protein EncA
Molecular weight formula_weight	30901.0 kDa
Mutation mutation	I203G, Y204G
Source method src_method	man
Copy count entity_count	4

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,B,C,D
Atom count atom_count	8740

MPDFLGHAENPLREEEWARLNETVIQVARRSLVGRRILDIYGPLGAGVQTVPYDEFQGVSPGAVDIVGEQETAMVFTDARKFKTIPIIYKDFLLHWRDIEAARTHNMPLDVSAAAGAAALCAQQEDELIFYGDARLGYEGLMTANGRLTVPLGDWTSPGGGFQAIVEATRKLNEQGHFGPYAVVLSPRLYSQLHRGGEIETIRQLASDGVYQSNRLRGESGVVVSTGRENMDLAVSMDMVAAYLGASRMNHPFRVLEALLLRIKHPDAICTLEGAGATERR

来源 Source

来源生物 organism	Myxococcus xanthus DK 1622
NCBI Class编号 ncbi_taxonomy_id	246197
宿主生物 host_organism	Escherichia coli BL21(DE3)

Entity 2 Entity 2 polymer

Description description	Encapsulin nanocompartment cargo protein EncC
Molecular weight formula_weight	1415.7 kDa
Source method src_method	man
Copy count entity_count	4

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	E,F,G,H

PEKRLTVGSLRR

来源 Source

来源生物 organism	Myxococcus xanthus DK 1622
NCBI Class编号 ncbi_taxonomy_id	246197
宿主生物 host_organism	Escherichia coli BL21(DE3)

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8. Citations (1)

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Unit-cell length a length_a	1.000 Å
Unit-cell length b length_b	1.000 Å
Unit-cell length c length_c	1.000 Å
Unit-cell angle α angle_alpha	90.00 °
Unit-cell angle β angle_beta	90.00 °
Unit-cell angle γ angle_gamma	90.00 °
Molecules per unit cell Z z_pdb	—

Space group space_group	P 1
Space-group number int_tables_number	1
Crystal system crystal_system	—

Resolution resolution	3.46 Å
Resolution测定方法 resolution_method	—
颗粒数 num_particles	4386

fit	/app/data/saxs_computation/bc/9bc8/9bc8.fit
pddf	/app/data/pr_computation/bc/9bc8/9bc8.pr.out
profile	/app/data/saxs_computation/bc/9bc8/9bc8.dat

Cargo-loaded Myxococcus xanthus EncA encapsulin engineered pore mutant with T=4 icosahedral symmetry

1. Protein Identity and Related Structures Protein Identity & Related Structures

Type 1 encapsulin shell protein EncA

State in the Current Structure

Other States of the Same Protein in the Database

Encapsulin nanocompartment cargo protein EncC

State in the Current Structure

Other States of the Same Protein in the Database

SAXS scattering curve SAXS Profile

P(r) Distance Distribution P(r) Distribution

2. Structure Basics 2. Structure Basics

3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

5. Crystallography and Experiment 5. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

冷冻电镜 EM 3D

6. Entities and Polymers Entities & Polymers (2)

Entity 1 Entity 1 polymer

Polymer Polymer

来源 Source

Entity 2 Entity 2 polymer

Polymer Polymer

来源 Source

8. Citations (1)

9. Files and Curves (10)

Files (7)

Curves (3)