8C0V | pdb_00008c0v

Structure of the peroxisomal Pex1/Pex6 ATPase complex bound to a substrate in single seam state

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D		e8c0vD1	A: alpha bundles	X: RNase A-like	H: RNase A-like	T: RNase A-like	F:	ECOD (develop294)
D		e8c0vD4	A: alpha bundles	X: RNase A-like	H: RNase A-like	T: RNase A-like	F:	ECOD (develop294)
D	Flavodoxin_2	e8c0vD6	A: alpha bundles	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Flavodoxin_2	ECOD (develop294)
B		e8c0vB02	A: alpha bundles	X: Rossmann-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F:	ECOD (develop294)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B, D, F	PF23111	PEX6 N1 domain (N1_PEX6)	PEX6 N1 domain	This entry represents a domain found at the N-terminal, described as N1 domain in [1], of a set of PEX6 proteins from Saccharomycetes, including PEX6 from S.cerevisiae. PEX6 is a component of the PEX1-PEX6 AAA ATPase complex, involved in peroxisome b ...	This entry represents a domain found at the N-terminal, described as N1 domain in [1], of a set of PEX6 proteins from Saccharomycetes, including PEX6 from S.cerevisiae. PEX6 is a component of the PEX1-PEX6 AAA ATPase complex, involved in peroxisome biogenesis, as they are required for the import of folded proteins into the peroxisomal matrix [1]. PEX6 proteins have tandem N-terminal domains, N1 and N2, which are a unique feature. According to structure predictions, the N1 domain may adopt a double-psi barrel fold.	Domain
B, D, F	PF17862	AAA+ lid domain (AAA_lid_3)	AAA+ lid domain	This entry represents the alpha helical AAA+ lid domain that is found to the C-terminus of AAA domains.	Domain
B, D, F	PF23315	PEX6 fourth domain (PEX6_4th)	PEX6 fourth domain	This domain is found in the yeast Peroxisomal ATPase PEX6 and related proteins. PEX6 is a component of the PEX1-PEX6 AAA ATPase complex, a protein dislocase complex that mediates the ATP-dependent extraction of the PEX5 receptor from peroxisomal memb ...	This domain is found in the yeast Peroxisomal ATPase PEX6 and related proteins. PEX6 is a component of the PEX1-PEX6 AAA ATPase complex, a protein dislocase complex that mediates the ATP-dependent extraction of the PEX5 receptor from peroxisomal membranes, an essential step for PEX5 recycling [1,2]. The domain represented in this entry is predicted to adopt a globular structure with some topological similarity to AAA ATPase p97.	Domain
B, D, F	PF00004	ATPase family associated with various cellular activities (AAA) (AAA)	ATPase family associated with various cellular activities (AAA)	AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes [2].	Domain
A, C, E	PF17862	AAA+ lid domain (AAA_lid_3)	AAA+ lid domain	This entry represents the alpha helical AAA+ lid domain that is found to the C-terminus of AAA domains.	Domain
A, C, E	PF00004	ATPase family associated with various cellular activities (AAA) (AAA)	ATPase family associated with various cellular activities (AAA)	AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes [2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B, D, F	Peroxisomal ATPase PEX6	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding protein transporter activity transporter activity pyrophosphatase activity ATP hydrolysis activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity ATP-dependent activity	cellular process protein unfolding cellular localization establishment of protein localization protein localization to peroxisome protein transmembrane import into intracellular organelle transport peroxisomal membrane transport cellular component organization localization peroxisome organization protein transmembrane transport establishment of localization in cell receptor metabolic process cellular process protein unfolding cellular localization establishment of protein localization protein localization to peroxisome protein transmembrane import into intracellular organelle transport peroxisomal membrane transport cellular component organization localization peroxisome organization protein transmembrane transport establishment of localization in cell receptor metabolic process cellular component organization or biogenesis intracellular protein localization protein import into peroxisome matrix, receptor recycling establishment of protein localization to peroxisome intracellular protein transmembrane transport intracellular transport protein import into peroxisome matrix establishment of localization receptor recycling peroxisomal transport transmembrane transport organelle organization establishment of protein localization to organelle protein transport protein localization to organelle macromolecule localization metabolic process macromolecule metabolic process intracellular protein transport	ATPase complex protein-containing complex catalytic complex membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure organelle peroxisome microbody cytoplasm intracellular membrane-bounded organelle cytosol membrane ATPase complex protein-containing complex catalytic complex membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure organelle peroxisome microbody cytoplasm intracellular membrane-bounded organelle cytosol membrane microbody membrane bounding membrane of organelle peroxisomal membrane organelle membrane
G [auth R]	unknown peptide	-	-	-
A, C, E	Peroxisomal ATPase PEX1	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding protein transporter activity transporter activity pyrophosphatase activity ATP hydrolysis activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity ATP-dependent activity	cellular process protein unfolding cellular localization establishment of protein localization protein localization to peroxisome protein transmembrane import into intracellular organelle transport peroxisomal membrane transport cellular component organization localization peroxisome organization protein transmembrane transport establishment of localization in cell receptor metabolic process cellular process protein unfolding cellular localization establishment of protein localization protein localization to peroxisome protein transmembrane import into intracellular organelle transport peroxisomal membrane transport cellular component organization localization peroxisome organization protein transmembrane transport establishment of localization in cell receptor metabolic process cellular component organization or biogenesis intracellular protein localization protein import into peroxisome matrix, receptor recycling establishment of protein localization to peroxisome intracellular protein transmembrane transport intracellular transport protein import into peroxisome matrix establishment of localization receptor recycling peroxisomal transport transmembrane transport organelle organization establishment of protein localization to organelle protein transport protein localization to organelle macromolecule localization metabolic process macromolecule metabolic process intracellular protein transport	ATPase complex protein-containing complex catalytic complex membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure organelle peroxisome microbody cytoplasm intracellular membrane-bounded organelle cytosol membrane ATPase complex protein-containing complex catalytic complex membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure organelle peroxisome microbody cytoplasm intracellular membrane-bounded organelle cytosol membrane microbody membrane bounding membrane of organelle peroxisomal membrane organelle membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B, D, F	IPR041569	AAA ATPase, AAA+ lid domain	Domain
B, D, F	IPR056995	Peroxisomal ATPase PEX6, fourth domain	Domain
B, D, F	IPR050168	AAA ATPase domain-containing protein	Family
B, D, F	IPR003960	ATPase, AAA-type, conserved site	Conserved Site
B, D, F	IPR003593	AAA+ ATPase domain	Domain
B, D, F	IPR003959	ATPase, AAA-type, core	Domain
B, D, F	IPR047533	Peroxisomal biogenesis factor 6, second ATPase domain	Domain
B, D, F	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A, C, E	IPR029067	CDC48 domain 2-like superfamily	Homologous Superfamily
A, C, E	IPR041569	AAA ATPase, AAA+ lid domain	Domain
A, C, E	IPR050168	AAA ATPase domain-containing protein	Family
A, C, E	IPR003960	ATPase, AAA-type, conserved site	Conserved Site
A, C, E	IPR003593	AAA+ ATPase domain	Domain
A, C, E	IPR003959	ATPase, AAA-type, core	Domain
A, C, E	IPR015342	Peroxisomal ATPase PEX1, N-terminal C-lobe	Domain
A, C, E	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.