4pt2

Myxococcus xanthus encapsulin protein (EncA)

Method: ELECTRON MICROSCOPY D_max: 130.9 Å Quality: GOOD

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

Encapsulin protein

Myxococcus xanthus

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 homooligomer Homooligomer Protein × 180 PDB declaration: 180-MERIC（180） Consistent with protein copy count	Chain A； UniProt 8–294 Chain B； UniProt 8–294 Chain P； UniProt 8–294	Fragment：UNP residues 8-294	No other associated polymer	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
2	Protein homooligomer Homooligomer Protein × 3 PDB declaration: trimeric（3） Consistent with protein copy count	Chain A； UniProt 8–294 Chain B； UniProt 8–294 Chain P； UniProt 8–294	Fragment：UNP residues 8-294	No other associated polymer	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
3	Protein homooligomer Homooligomer Protein × 15 PDB declaration: pentadecameric（15） Consistent with protein copy count	Chain A； UniProt 8–294 Chain B； UniProt 8–294 Chain P； UniProt 8–294	Fragment：UNP residues 8-294	No other associated polymer	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
4	Protein homooligomer Homooligomer Protein × 18 PDB declaration: octadecameric（18） Consistent with protein copy count	Chain A； UniProt 8–294 Chain B； UniProt 8–294 Chain P； UniProt 8–294	Fragment：UNP residues 8-294	No other associated polymer	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
5	Protein homooligomer Homooligomer Protein × 3 PDB declaration: trimeric（3） Consistent with protein copy count	Chain A； UniProt 8–294 Chain B； UniProt 8–294 Chain P； UniProt 8–294	Fragment：UNP residues 8-294	No other associated polymer	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

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 4PT2	Assembly / Oligomeric State	Construct	Mutations and Modifications	Ligands, Ions and Non-polymers	Method and Experimental Conditions	Structure Quality
7S20 M. xanthus encapsulin shell protein EncA with T=3 symmetry Deposited 2021-09-02	Different construct 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 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 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 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 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 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 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 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 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 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 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 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 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 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 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 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 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 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 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 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 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 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 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 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 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 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 experimental conditions 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 experimental conditions 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 experimental conditions 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 experimental conditions 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 experimental conditions 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 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）	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 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）	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 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）	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 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）	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 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）	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
9BC8 Cargo-loaded Myxococcus xanthus EncA encapsulin engineered pore mutant with T=4 icosahedral symmetry Deposited 2024-04-08	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 480 PDB declaration: 480-meric	Chain A 1–287（287 aa） Chain B 1–287（287 aa） Chain C 1–287（287 aa） Chain D 1–287（287 aa）	Mutation：I203G, Y204G Mutation：I203G, Y204G Mutation：I203G, Y204G Mutation：I203G, Y204G	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 3.46 Å
9BC8 Cargo-loaded Myxococcus xanthus EncA encapsulin engineered pore mutant with T=4 icosahedral symmetry Deposited 2024-04-08	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 2 Protein heterocomplex Heteromer；Protein × 8 PDB declaration: octameric	Chain A 1–287（287 aa） Chain B 1–287（287 aa） Chain C 1–287（287 aa） Chain D 1–287（287 aa）	Mutation：I203G, Y204G Mutation：I203G, Y204G Mutation：I203G, Y204G Mutation：I203G, Y204G	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 3.46 Å
9BC8 Cargo-loaded Myxococcus xanthus EncA encapsulin engineered pore mutant with T=4 icosahedral symmetry Deposited 2024-04-08	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 3 Protein heterocomplex Heteromer；Protein × 40 PDB declaration: 40-meric	Chain A 1–287（287 aa） Chain B 1–287（287 aa） Chain C 1–287（287 aa） Chain D 1–287（287 aa）	Mutation：I203G, Y204G Mutation：I203G, Y204G Mutation：I203G, Y204G Mutation：I203G, Y204G	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 3.46 Å
9BC8 Cargo-loaded Myxococcus xanthus EncA encapsulin engineered pore mutant with T=4 icosahedral symmetry Deposited 2024-04-08	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 4 Protein heterocomplex Heteromer；Protein × 48 PDB declaration: 48-meric	Chain A 1–287（287 aa） Chain B 1–287（287 aa） Chain C 1–287（287 aa） Chain D 1–287（287 aa）	Mutation：I203G, Y204G Mutation：I203G, Y204G Mutation：I203G, Y204G Mutation：I203G, Y204G	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 3.46 Å
9BC8 Cargo-loaded Myxococcus xanthus EncA encapsulin engineered pore mutant with T=4 icosahedral symmetry Deposited 2024-04-08	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 5 Protein heterocomplex Heteromer；Protein × 8 PDB declaration: octameric	Chain A 1–287（287 aa） Chain B 1–287（287 aa） Chain C 1–287（287 aa） Chain D 1–287（287 aa）	Mutation：I203G, Y204G Mutation：I203G, Y204G Mutation：I203G, Y204G Mutation：I203G, Y204G	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 3.46 Å

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

View Construct and Data Evidence

UniProt name	Q1D6H4_MYXXD
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 1–287； UniProt 8–294 Author chain B； PDBConstruct 1–287； UniProt 8–294 Author chain P； PDBConstruct 1–287； UniProt 8–294

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	4pt2
Deposition date deposition_date	2014-03-10
Structure title title	Myxococcus xanthus encapsulin protein (EncA)
Keywords keywords	HK97 fold, Shell protein, 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	35.96 Å
Radius of gyration Rg (electron density) rg_electron	35.59 Å
Forward intensity I(0) i0	132801000.00
Molecular weight molecular_weight	91716.0 kDa
Excluded volume excluded_volume	114650 Å³
Envelope volume envelope_volume	160300 Å³
Hydration-shell volume shell_volume	39068 Å³
Envelope diameter envelope_diameter	141.0 Å
Shell Rg shell_rg	39.90 Å
Envelope Rg envelope_rg	36.16 Å
Shape Rg shape_rg	35.61 Å
Total Rg total_rg	35.87 Å
Total atoms total_atoms	6462
Residues n_residues	831
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	130.9 Å
Rg (real space) rg_real	36.03 Å
Rg uncertainty (real space) rg_real_error	1.41 Å
I(0) (real space) i0_real	1.3280e+08
I(0) uncertainty (real space) i0_real_error	2.0530e+06
Rg (reciprocal space) rg_reciprocal	35.99 Å
I(0) (reciprocal space) i0_reciprocal	132800000.0000
Solution quality estimate total_estimate	0.8577
Solution quality rating solution_quality	GOOD a GOOD solution
P(r) peaks n_peaks	2
Primary peak position r_peak_primary	44.6 Å
Skewness Skewness skewness	0.336
Kurtosis Kurtosis kurtosis	-0.370
Angular range angular_range	— – 0.2200 Å⁻¹
Current regularization parameter α current_alpha	0.0000
Highest regularization parameter α highest_alpha	22840000.0000
Real-space data points n_real_points	45
GNOM version gnom_version	4.1.3
Quality Criteria quality_criteria	AN1: 0.000; Oscil: 0.772; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.844; Smooth: 0.985

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5. Crystallography and Experiment 5. Crystallography & Experiment

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6. Entities and Polymers Entities & Polymers (1)

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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	1

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

Resolution resolution	4.600 Å
Low-resolution limit resolution_low	771.400 Å
R factor r_factor	0.3489
R_work r_work	0.3489
R_free r_free	—

Resolution resolution	4.60 Å
Resolution测定方法 resolution_method	reference based
颗粒数 num_particles	14000

Description description	Encapsulin protein
Molecular weight formula_weight	31692.0 kDa
Source method src_method	man
Copy count entity_count	3

Myxococcus xanthus encapsulin protein (EncA)

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

Encapsulin protein

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

Refinement Refinement

冷冻电镜 EM 3D

6. Entities and Polymers Entities & Polymers (1)

Entity 1 Entity 1 polymer

Polymer Polymer

来源 Source

8. Citations (1)

9. Files and Curves (10)

Files (7)

Curves (3)

Polymer type type	polypeptide(L)
Chain IDs strand_id	P,A,B
Atom count atom_count	6462

来源生物 organism	Myxococcus xanthus
NCBI Class编号 ncbi_taxonomy_id	246197
宿主生物 host_organism	Escherichia coli

fit	/app/data/saxs_computation/pt/4pt2/4pt2.fit
pddf	/app/data/pr_computation/pt/4pt2/4pt2.pr.out
profile	/app/data/saxs_computation/pt/4pt2/4pt2.dat