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6ap1

Vps4p-Vta1p complex with peptide binding to the central pore of Vps4p

Method: ELECTRON MICROSCOPY
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1. Protein Identity and Related Structures Protein Identity & Related Structures

Vacuolar protein sorting-associated protein 4,Protein hcp1

Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)

UniProt P52917

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Insufficient information Heteromer Protein 19 ACE-ASP-GLU-ILE-VAL-ASN-LYS-VAL-LEU-NH2 × 1 Vacuolar protein sorting-associated protein VTA1 × 12 （Q06263） ADENOSINE-5'-DIPHOSPHATE × 5 BERYLLIUM TRIFLUORIDE ION × 3 MAGNESIUM ION × 4 Consistent with protein count

Other States of the Same Protein in the Database

Monomer
2qp9 2qpa 2qpa 2qpa 2rko 3eie 3eih 3eih 3eih 9bl8

10 assemblies

Homodimer
2rko

1 assemblies

Homotetramer

None

Other homooligomers
5xmi

1 assemblies

Heteromeric or nucleic-acid complex
2v6x 3mhv 4niq 4niq 5fvk 5fvk 5fvl 5fvl 5uie 5xmk 6ap1 6bmf

14 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name VPS4_YEAST
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 2–338； UniProt 101–437 Author chain B； PDBConstruct 2–338； UniProt 101–437 Author chain C； PDBConstruct 2–338； UniProt 101–437 Author chain D； PDBConstruct 2–338； UniProt 101–437 Author chain E； PDBConstruct 2–338； UniProt 101–437 Author chain F； PDBConstruct 2–338； UniProt 101–437

Vacuolar protein sorting-associated protein 4,Protein hcp1

Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)

UniProt Q9I747

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Insufficient information Heteromer Protein 19 ACE-ASP-GLU-ILE-VAL-ASN-LYS-VAL-LEU-NH2 × 1 Vacuolar protein sorting-associated protein VTA1 × 12 （Q06263） ADENOSINE-5'-DIPHOSPHATE × 5 BERYLLIUM TRIFLUORIDE ION × 3 MAGNESIUM ION × 4 Consistent with protein count

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers
1y12 1y12

2 assemblies

Heteromeric or nucleic-acid complex
6ap1 7o42

2 assemblies

View Construct and Data Evidence
UniProt name HCP1_PSEAE
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 357–518； UniProt 1–162 Author chain B； PDBConstruct 357–518； UniProt 1–162 Author chain C； PDBConstruct 357–518； UniProt 1–162 Author chain D； PDBConstruct 357–518； UniProt 1–162 Author chain E； PDBConstruct 357–518； UniProt 1–162 Author chain F； PDBConstruct 357–518； UniProt 1–162

Vacuolar protein sorting-associated protein VTA1

Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

UniProt Q06263

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Insufficient information Heteromer Protein 19 Vacuolar protein sorting-associated protein 4,Protein hcp1 × 6 （P52917,Q9I747） ACE-ASP-GLU-ILE-VAL-ASN-LYS-VAL-LEU-NH2 × 1 ADENOSINE-5'-DIPHOSPHATE × 5 BERYLLIUM TRIFLUORIDE ION × 3 MAGNESIUM ION × 4 Consistent with protein count

Other States of the Same Protein in the Database

Monomer

None

Homodimer
2rkk 2rkl 2rkl 2rkl

4 assemblies

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
2luh 3mhv 5h7p 5uie 5xmk 6ap1 6oo2

7 assemblies

View Construct and Data Evidence
UniProt name VTA1_YEAST
Isoform —
PDB entities 3
Chains and sequence ranges Author chain H； PDBConstruct 1–330； UniProt 1–330 Author chain I； PDBConstruct 1–330； UniProt 1–330 Author chain J； PDBConstruct 1–330； UniProt 1–330 Author chain K； PDBConstruct 1–330； UniProt 1–330 Author chain L； PDBConstruct 1–330； UniProt 1–330 Author chain M； PDBConstruct 1–330； UniProt 1–330 Author chain N； PDBConstruct 1–330； UniProt 1–330 Author chain O； PDBConstruct 1–330； UniProt 1–330 Author chain P； PDBConstruct 1–330； UniProt 1–330 Author chain Q； PDBConstruct 1–330； UniProt 1–330 Author chain R； PDBConstruct 1–330； UniProt 1–330 Author chain S； PDBConstruct 1–330； UniProt 1–330

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.

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2. Structure Basics 2. Structure Basics

Entry ID entry_id6ap1
Deposition date deposition_date2017-08-16
Structure title titleVps4p-Vta1p complex with peptide binding to the central pore of Vps4p
Keywords keywordsVps4, ESCRT, Vta1, AAA ATPase, TRANSPORT PROTEIN; TRANSPORT PROTEIN
Experimental Method methodELECTRON MICROSCOPY
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3. Official assembly/model SAXS Official SAXS Profiles

This page reads only the latest assembly calculations. Every curve maps to an explicit PDB entry, official biological assembly and coordinate model.

6ap1__assembly_1__model_1

Assembly 1 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

6ap1__assembly_1__model_1 | I(q)

10-2 10-1 106 107 108 109 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

6ap1__assembly_1__model_1 | P(r) · Pending

The new assembly/model P(r) has not been calculated yet This placeholder does not display legacy data r (Angstrom) P(r)
P(r) will be calculated and displayed separately for the same assembly/model.
Rg（Guinier）49.37 Å
Rg (electron density)49.19 Å
Total Rg49.44 Å
Atom count18838
Residues2404
Excluded volume336630 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 6ap1__assembly_1__model_1 nonadecameric （19） Success 4.1.3-1-20251215 (887e7ef) View Download
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4. Crystallography and Experiment 4. Crystallography & Experiment

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5. Entities and Polymers Entities & Polymers (6)

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6. Fold Classification (SCOP + CATH) 24 domains

CATH v4.4 (24 domains)

Domain ID domain_id6ap1A01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily300 — P-loop containing nucleotide triphosphate hydrolases
Domain ID domain_id6ap1A02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology8 — Helicase, Ruva Protein; domain 3
Homologous superfamily homologous superfamily60 —
Domain ID domain_id6ap1B01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily300 — P-loop containing nucleotide triphosphate hydrolases
Domain ID domain_id6ap1B02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology8 — Helicase, Ruva Protein; domain 3
Homologous superfamily homologous superfamily60 —
Domain ID domain_id6ap1C01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily300 — P-loop containing nucleotide triphosphate hydrolases
Domain ID domain_id6ap1C02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology8 — Helicase, Ruva Protein; domain 3
Homologous superfamily homologous superfamily60 —
Domain ID domain_id6ap1D01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily300 — P-loop containing nucleotide triphosphate hydrolases
Domain ID domain_id6ap1D02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology8 — Helicase, Ruva Protein; domain 3
Homologous superfamily homologous superfamily60 —
Domain ID domain_id6ap1E01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily300 — P-loop containing nucleotide triphosphate hydrolases
Domain ID domain_id6ap1E02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology8 — Helicase, Ruva Protein; domain 3
Homologous superfamily homologous superfamily60 —
Domain ID domain_id6ap1F01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily300 — P-loop containing nucleotide triphosphate hydrolases
Domain ID domain_id6ap1F02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology8 — Helicase, Ruva Protein; domain 3
Homologous superfamily homologous superfamily60 —
Domain ID domain_id6ap1H00
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology5 — Single alpha-helices involved in coiled-coils or other helix-helix interfaces
Homologous superfamily homologous superfamily420 — Immunoglobulin FC, subunit C
Domain ID domain_id6ap1I00
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology5 — Single alpha-helices involved in coiled-coils or other helix-helix interfaces
Homologous superfamily homologous superfamily420 — Immunoglobulin FC, subunit C
Domain ID domain_id6ap1J00
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology5 — Single alpha-helices involved in coiled-coils or other helix-helix interfaces
Homologous superfamily homologous superfamily420 — Immunoglobulin FC, subunit C
Domain ID domain_id6ap1K00
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology5 — Single alpha-helices involved in coiled-coils or other helix-helix interfaces
Homologous superfamily homologous superfamily420 — Immunoglobulin FC, subunit C
Domain ID domain_id6ap1L00
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology5 — Single alpha-helices involved in coiled-coils or other helix-helix interfaces
Homologous superfamily homologous superfamily420 — Immunoglobulin FC, subunit C
Domain ID domain_id6ap1M00
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology5 — Single alpha-helices involved in coiled-coils or other helix-helix interfaces
Homologous superfamily homologous superfamily420 — Immunoglobulin FC, subunit C
Domain ID domain_id6ap1N00
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology5 — Single alpha-helices involved in coiled-coils or other helix-helix interfaces
Homologous superfamily homologous superfamily420 — Immunoglobulin FC, subunit C
Domain ID domain_id6ap1O00
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology5 — Single alpha-helices involved in coiled-coils or other helix-helix interfaces
Homologous superfamily homologous superfamily420 — Immunoglobulin FC, subunit C
Domain ID domain_id6ap1P00
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology5 — Single alpha-helices involved in coiled-coils or other helix-helix interfaces
Homologous superfamily homologous superfamily420 — Immunoglobulin FC, subunit C
Domain ID domain_id6ap1Q00
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology5 — Single alpha-helices involved in coiled-coils or other helix-helix interfaces
Homologous superfamily homologous superfamily420 — Immunoglobulin FC, subunit C
Domain ID domain_id6ap1R00
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology5 — Single alpha-helices involved in coiled-coils or other helix-helix interfaces
Homologous superfamily homologous superfamily420 — Immunoglobulin FC, subunit C
Domain ID domain_id6ap1S00
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology5 — Single alpha-helices involved in coiled-coils or other helix-helix interfaces
Homologous superfamily homologous superfamily420 — Immunoglobulin FC, subunit C
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7. Citations (1)