6T1W

Structure of E. coli BamA in complex with lipoprotein RcsF

External Resource: Annotation

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

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	POTRA domain-like	8052272	3002100	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	POTRA domain-like	8052271	3002100	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	POTRA domain-like	8052275	3002100	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	POTRA domain-like	8052274	3002100	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Porins	8052233	3000224	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	POTRA domain-like	8052274	3002100	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Porins	8052233	3000224	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	YbjQ-like	8090693	3001160	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	YbjQ-like	8090693	3001160	SCOP2B (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	Bac_surface_Ag	e6t1wA6	A: beta barrels	X: Outer membrane meander beta-barrels	H: Porins	T: Porin	F: Bac_surface_Ag	ECOD (1.6)
A	POTRA	e6t1wA3	A: a+b duplicates or obligate multimers	X: Polypeptide transport-associated (POTRA) domain (From Topology)	H: Polypeptide transport-associated (POTRA) domain (From Topology)	T: Polypeptide transport-associated (POTRA) domain	F: POTRA	ECOD (1.6)
A	POTRA_4	e6t1wA4	A: a+b duplicates or obligate multimers	X: Polypeptide transport-associated (POTRA) domain (From Topology)	H: Polypeptide transport-associated (POTRA) domain (From Topology)	T: Polypeptide transport-associated (POTRA) domain	F: POTRA_4	ECOD (1.6)
A	POTRA_5	e6t1wA2	A: a+b duplicates or obligate multimers	X: Polypeptide transport-associated (POTRA) domain (From Topology)	H: Polypeptide transport-associated (POTRA) domain (From Topology)	T: Polypeptide transport-associated (POTRA) domain	F: POTRA_5	ECOD (1.6)
B	Bac_surface_Ag	e6t1wB2	A: beta barrels	X: Outer membrane meander beta-barrels	H: Porins	T: Porin	F: Bac_surface_Ag	ECOD (1.6)
B	POTRA	e6t1wB1	A: a+b duplicates or obligate multimers	X: Polypeptide transport-associated (POTRA) domain (From Topology)	H: Polypeptide transport-associated (POTRA) domain (From Topology)	T: Polypeptide transport-associated (POTRA) domain	F: POTRA	ECOD (1.6)
C	RcsF	e6t1wC1	A: a+b two layers	X: Dodecin subunit-like	H: YbjQ-like (From Topology)	T: YbjQ-like	F: RcsF	ECOD (1.6)
D	RcsF	e6t1wD1	A: a+b two layers	X: Dodecin subunit-like	H: YbjQ-like (From Topology)	T: YbjQ-like	F: RcsF	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C	3.30.110.70	Alpha Beta	2-Layer Sandwich	Translation Initiation Factor IF3	Hypothetical protein apc22750. Chain B	CATH (utative)
D	3.30.110.70	Alpha Beta	2-Layer Sandwich	Translation Initiation Factor IF3	Hypothetical protein apc22750. Chain B	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF07244	Surface antigen variable number repeat (POTRA)	Surface antigen variable number repeat	This family is found primarily in bacterial surface antigens, normally as variable number repeats at the N-terminus. The C-terminus of these proteins is normally represented by Pfam:PF01103. The alignment centres on a -GY- or -GF- motif. Some members ...	This family is found primarily in bacterial surface antigens, normally as variable number repeats at the N-terminus. The C-terminus of these proteins is normally represented by Pfam:PF01103. The alignment centres on a -GY- or -GF- motif. Some members of this family are found in the mitochondria. It is predicted to have a mixed alpha/beta secondary structure.	Domain
A, B	PF01103	Omp85 superfamily domain (Omp85)	Omp85 superfamily domain	The Omp85 protein superfamily contains bacterial outer membrane proteins, which can function as protein translocases or as membrane protein assembly factors [1]. The family includes the membrane bound beta barrel of proteins such as BamA and TamA fro ...	The Omp85 protein superfamily contains bacterial outer membrane proteins, which can function as protein translocases or as membrane protein assembly factors [1]. The family includes the membrane bound beta barrel of proteins such as BamA and TamA from E. coli.	Domain
C, D	PF16358	RcsF lipoprotein (RcsF)	RcsF lipoprotein	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Outer membrane protein assembly factor BamA	-	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 protein localization cellular localization establishment of protein localization 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 protein localization cellular localization establishment of protein localization establishment of protein localization to membrane localization within membrane protein localization to membrane establishment of localization localization cellular macromolecule localization macromolecule localization protein insertion into membrane cell adhesion	membrane cellular anatomical entity cell periphery cell outer membrane external encapsulating structure cell envelope outer membrane protein-containing complex periplasmic side of cell outer membrane membrane protein complex side of membrane Bam protein complex
C, D	Outer membrane lipoprotein RcsF	-	cellular response to stimulus cellular response to stress response to stimulus response to stress cellular process cellular response to cell envelope stress positive regulation of cell communication regulation of cellular process positive regulation of signal transduction signaling positive regulation of biological process regulation of signal transduction intracellular signal transduction cell communication cellular response to stimulus cellular response to stress response to stimulus response to stress cellular process cellular response to cell envelope stress positive regulation of cell communication regulation of cellular process positive regulation of signal transduction signaling positive regulation of biological process regulation of signal transduction intracellular signal transduction cell communication regulation of phosphorelay signal transduction system positive regulation of response to stimulus regulation of intracellular signal transduction positive regulation of phosphorelay signal transduction system signal transduction positive regulation of cellular process regulation of biological process regulation of signaling phosphorelay signal transduction system biological regulation positive regulation of intracellular signal transduction regulation of response to stimulus regulation of cell communication positive regulation of signaling	protein-containing complex outer membrane protein complex membrane membrane protein complex cellular anatomical entity outer membrane-bounded periplasmic space cell envelope periplasmic space cell periphery cell outer membrane external encapsulating structure outer membrane periplasmic side of cell outer membrane side of membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR039910	Surface antigen D15-like	Family
A, B	IPR034746	POTRA domain	Domain
A, B	IPR000184	Bacterial surface antigen (D15)	Domain
A, B	IPR010827	POTRA domain, BamA/TamA-like	Domain
A, B	IPR023707	Outer membrane protein assembly factor BamA	Family
C, D	IPR030852	Outer membrane lipoprotein RcsF	Family

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A, B, C, D	OPM	Transmembrane	Beta-barrel transmembrane	Omp85-TpsB transporters (n=16,S=20,22)	OMP insertion (Bam complex) porin (n=16,S=22)

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A, B, C, D	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
A, B, C, D	mpstruc	TRANSMEMBRANE PROTEINS: BETA-BARREL	Omp85-TpsB Outer Membrane Transporter Superfamily	BamA in complex with RcsF

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.