5ABB | pdb_00005abb

Visualization of a polytopic membrane protein during SecY-mediated membrane insertion

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Membrane Protein Annotation: PDBTM

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2 Family	Protein translocase subunit SecE-like	8047944	4005885	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	Protein translocase subunit SecE-like	8053311	3002174	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	SSL_OB	e5abbA1	A: alpha bundles	X: Sigma2 domain-like	H: Bacterial enterotoxins	T: Bacterial enterotoxins	F: SSL_OB	ECOD (develop294)
B	SSL_OB	e5abbB1	A: alpha bundles	X: Sigma2 domain-like	H: Bacterial enterotoxins	T: Bacterial enterotoxins	F: SSL_OB	ECOD (develop294)
C [auth Z]	polyprenyl_synt	e5abbZ01	A: alpha bundles	X: Rossmann-like	H: P-loop domains-related	T: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase	F: polyprenyl_synt	ECOD (develop294)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00344	SecY (SecY)	SecY	-	Family
B	PF00584	SecE/Sec61-gamma subunits of protein translocation complex (SecE)	SecE/Sec61-gamma subunits of protein translocation complex	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	PROTEIN TRANSLOCASE SUBUNIT SECY	macromolecule transmembrane transporter activity protein transporter activity protein transmembrane transporter activity transporter activity transmembrane transporter activity signal sequence binding binding peptide binding	cellular localization establishment of protein localization transport intracellular transport establishment of localization localization protein transport establishment of localization in cell macromolecule localization cellular process intracellular protein localization intracellular protein transport intracellular protein transmembrane transport transmembrane transport cellular localization establishment of protein localization transport intracellular transport establishment of localization localization protein transport establishment of localization in cell macromolecule localization cellular process intracellular protein localization intracellular protein transport intracellular protein transmembrane transport transmembrane transport protein transmembrane transport protein transport by the Sec complex protein targeting SRP-dependent cotranslational protein targeting to membrane cotranslational protein targeting to membrane establishment of protein localization to endoplasmic reticulum establishment of protein localization to membrane localization within membrane protein targeting to membrane establishment of protein localization to organelle SRP-dependent cotranslational protein targeting to membrane, translocation protein targeting to ER	cellular anatomical structure membrane cell periphery plasma membrane protein-containing complex cell envelope Sec protein transport complex intracellular protein-containing complex
B	PROTEIN TRANSLOCASE SUBUNIT SECE	macromolecule transmembrane transporter activity protein transporter activity protein transmembrane transporter activity transporter activity transmembrane transporter activity	establishment of protein localization transport protein transport by the Sec complex establishment of localization transmembrane transport localization protein transmembrane transport protein transport macromolecule localization cellular process intracellular protein localization protein targeting secretion establishment of protein localization to extracellular region establishment of protein localization transport protein transport by the Sec complex establishment of localization transmembrane transport localization protein transmembrane transport protein transport macromolecule localization cellular process intracellular protein localization protein targeting secretion establishment of protein localization to extracellular region export from cell protein secretion protein localization to extracellular region secretion by cell cellular localization intracellular protein transmembrane transport intracellular transport establishment of localization in cell intracellular protein transport	cell periphery cellular anatomical structure plasma membrane membrane
C [auth Z]	GREEN-LIGHT ABSORBING PROTEORHODOPSIN	passive transmembrane transporter activity monoatomic ion channel activity channel activity monoatomic ion transmembrane transporter activity transporter activity light-activated monoatomic ion channel activity transmembrane transporter activity molecular transducer activity photoreceptor activity signaling receptor activity	monoatomic cation transmembrane transport transmembrane transport localization transport proton transmembrane transport monoatomic ion transmembrane transport monoatomic ion transport cellular process monoatomic cation transport establishment of localization phototransduction cellular response to stimulus detection of light stimulus response to light stimulus monoatomic cation transmembrane transport transmembrane transport localization transport proton transmembrane transport monoatomic ion transmembrane transport monoatomic ion transport cellular process monoatomic cation transport establishment of localization phototransduction cellular response to stimulus detection of light stimulus response to light stimulus detection of external stimulus regulation of biological process regulation of cellular process response to stimulus signaling biological regulation response to external stimulus detection of abiotic stimulus cell communication detection of stimulus response to abiotic stimulus response to radiation signal transduction	cell periphery cellular anatomical structure plasma membrane membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR002208	SecY/SEC61-alpha family	Family
A	IPR030659	SecY conserved site	Conserved Site
A	IPR023201	SecY domain superfamily	Homologous Superfamily
A	IPR026593	Protein translocase subunit SecY	Family
B	IPR005807	SecE subunit of protein translocation complex, bacterial-like	Family
B	IPR001901	Protein translocase complex, SecE/Sec61-gamma subunit	Family
B	IPR038379	SecE superfamily	Homologous Superfamily
C [auth Z]	IPR017402	Proteorhodopsin	Family
C [auth Z]	IPR018229	Rhodopsin, retinal binding site	Binding Site
C [auth Z]	IPR001425	Archaeal/bacterial/fungal rhodopsins	Family

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A, B, C [auth Z]	PDBTM	Annotated as membrane protein by PDBTM

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.

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