6VAT | pdb_00006vat

Structure of the periplasmic domain of YejM from Salmonella typhimurium

External Resource: Annotation

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

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
F	SCOP2B Superfamily	Arylsulfatase, C-terminal domain-like	8092298	3002305	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Alkaline phosphatase-like	8092296	3001353	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Alkaline phosphatase-like	8092296	3001353	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Arylsulfatase, C-terminal domain-like	8092298	3002305	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Arylsulfatase, C-terminal domain-like	8092298	3002305	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Alkaline phosphatase-like	8092296	3001353	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Alkaline phosphatase-like	8092296	3001353	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Arylsulfatase, C-terminal domain-like	8092298	3002305	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Arylsulfatase, C-terminal domain-like	8092298	3002305	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Alkaline phosphatase-like	8092296	3001353	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Alkaline phosphatase-like	8092296	3001353	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Arylsulfatase, C-terminal domain-like	8092298	3002305	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
F	e6vatF1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F:	ECOD (v295.2)
E	e6vatE1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F:	ECOD (v295.2)
D	e6vatD1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F:	ECOD (v295.2)
C	e6vatC1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F:	ECOD (v295.2)
B	e6vatB1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F:	ECOD (v295.2)
A	e6vatA1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F:	ECOD (v295.2)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F	PF00884	Sulfatase (Sulfatase)	Sulfatase	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F	Periplasmic domain of the cardiolipin transporter protein YejM/PbgA	ion binding binding anion binding phosphatidylglycerol binding phospholipid binding lipid binding cardiolipin binding small molecule binding	membrane organization membrane biogenesis membrane assembly cellular component organization cellular component biogenesis cellular component assembly cellular process cellular component organization or biogenesis cell envelope organization Gram-negative-bacterium-type cell outer membrane assembly external encapsulating structure organization carbohydrate derivative catabolic process glycoprotein catabolic process catabolic process membrane organization membrane biogenesis membrane assembly cellular component organization cellular component biogenesis cellular component assembly cellular process cellular component organization or biogenesis cell envelope organization Gram-negative-bacterium-type cell outer membrane assembly external encapsulating structure organization carbohydrate derivative catabolic process glycoprotein catabolic process catabolic process heparan sulfate proteoglycan metabolic process carbohydrate derivative metabolic process primary metabolic process protein catabolic process glycoprotein metabolic process macromolecule catabolic process heparan sulfate proteoglycan catabolic process metabolic process protein metabolic process macromolecule metabolic process proteoglycan catabolic process proteoglycan metabolic process	cell periphery cellular anatomical structure plasma membrane membrane Gram-negative-bacterium-type cell wall external encapsulating structure extracellular region cell envelope cell wall peptidoglycan-based cell wall

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F	IPR000917	Sulfatase domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR012159	Inner membrane protein YejM-like	Family
A, B, C, D, E A, B, C, D, E, F	IPR047997	Inner membrane protein YejM, enterobacterales	Family
A, B, C, D, E A, B, C, D, E, F	IPR024588	Inner membrane protein YejM, N-terminal	Domain
A, B, C, D, E A, B, C, D, E, F	IPR017850	Alkaline-phosphatase-like, core domain superfamily	Homologous Superfamily

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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.