4C4V

Structure of the outer membrane protein insertase BamA with one POTRA domain.

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: MemProtMD
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	Porins	8052233	3000224	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	POTRA domain-like	8052275	3002100	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	POTRA domain-like	8052275	3002100	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Porins	8052233	3000224	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	e4c4vA1	A: beta barrels	X: Outer membrane meander beta-barrels	H: Porins	T: Porin	F: Bac_surface_Ag	ECOD (1.6)
A	POTRA_5	e4c4vA2	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	e4c4vB1	A: beta barrels	X: Outer membrane meander beta-barrels	H: Porins	T: Porin	F: Bac_surface_Ag	ECOD (1.6)
B	POTRA_5	e4c4vB2	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)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.10.20.310	Alpha Beta	Roll	Ubiquitin-like (UB roll)	membrane protein fhac	CATH (4.3.0)
A	2.40.160.50	Mainly Beta	Beta Barrel	Porin	membrane protein fhac: a member of the omp85/tpsb transporter family	CATH (4.3.0)
B	3.10.20.310	Alpha Beta	Roll	Ubiquitin-like (UB roll)	membrane protein fhac	CATH (4.3.0)
B	2.40.160.50	Mainly Beta	Beta Barrel	Porin	membrane protein fhac: a member of the omp85/tpsb transporter family	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	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	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
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
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

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	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
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

InterPro: Protein Family Classification InterPro Database Homepage

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

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A, B	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	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

Chains	External Link	Comment
A, B	MemProtMD	Annotated as membrane protein by MemProtMD

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
A, B	mpstruc	TRANSMEMBRANE PROTEINS: BETA-BARREL	Omp85-TpsB Outer Membrane Transporter Superfamily	BamA with POTRA domain 5

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.