6LYR

Structure of the BAM complex

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: 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	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	8052273	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)
A	SCOP2B Superfamily	POTRA domain-like	8052275	3002100	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	TPR-like	8058058	3001345	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	BLIP repeat-like	8092082	3000321	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	PF01103	e6lyrA3	A: beta barrels	X: Outer membrane meander beta-barrels	H: Porins	T: Porin	F: PF01103	ECOD (1.6)
A	PF07244	e6lyrA4	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: PF07244	ECOD (1.6)
B	PF13360	e6lyrB1	A: beta duplicates or obligate multimers	X: beta-propeller-like	H: beta-propeller	T: 7-bladed	F: PF13360	ECOD (1.6)
D	PF13525	e6lyrD1	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: PF13525	ECOD (1.6)
E	PF04355	e6lyrE1	A: a+b two layers	X: BLIP-like	H: beta-lactamase-inhibitor protein, BLIP (From Topology)	T: beta-lactamase-inhibitor protein, BLIP	F: PF04355	ECOD (1.6)

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	PF13360	PQQ-like domain (PQQ_2)	PQQ-like domain	-	Repeat
B	PF01011	PQQ enzyme repeat (PQQ)	PQQ enzyme repeat	-	Repeat
C	PF06804	NlpB/DapX lipoprotein (Lipoprotein_18)	NlpB/DapX lipoprotein	-	Family
D	PF13525	Outer membrane lipoprotein (YfiO)	Outer membrane lipoprotein	-	Repeat
E	PF04355	SmpA / OmlA family (SmpA_OmlA)	SmpA / OmlA family	-	Family
F [auth P]	PF01389	OmpA-like transmembrane domain (OmpA_membrane)	OmpA-like transmembrane domain	The structure of OmpA transmembrane domain shows that it consists of an eight stranded beta barrel [1]. This family includes some other distantly related outer membrane proteins with low scores.	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 BamB	identical protein binding protein binding 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 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	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	Outer membrane protein assembly factor BamC	identical protein binding protein binding 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 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 surface cellular anatomical entity membrane protein-containing complex periplasmic side of cell outer membrane membrane protein complex side of membrane Bam protein complex cell periphery cell outer membrane external encapsulating structure cell envelope outer membrane
D	Outer membrane protein assembly factor BamD	-	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	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
E	Outer membrane protein assembly factor BamE	protein-macromolecule adaptor activity molecular adaptor activity identical protein binding protein binding 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 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 response to stimulus response to chemical response to antibiotic	membrane cellular anatomical entity protein-containing complex periplasmic side of cell outer membrane membrane protein complex side of membrane Bam protein complex cell periphery cell outer membrane external encapsulating structure cell envelope outer membrane
F [auth P]	Peptide from Outer membrane protein A	wide pore channel activity passive transmembrane transporter activity channel activity porin activity transporter activity transmembrane transporter activity monoatomic ion transmembrane transporter activity identical protein binding protein binding binding	cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process localization transport monoatomic ion transport establishment of localization biological process involved in interspecies interaction between organisms response to other organism detection of virus response to external stimulus cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process localization transport monoatomic ion transport establishment of localization biological process involved in interspecies interaction between organisms response to other organism detection of virus response to external stimulus response to external biotic stimulus response to virus response to biotic stimulus symbiont entry into host cell viral process symbiont entry into host viral life cycle biological process involved in interaction with host biological process involved in symbiotic interaction	membrane cellular anatomical entity outer membrane protein-containing complex outer membrane protein complex membrane protein complex outer membrane-bounded periplasmic space cell envelope periplasmic space pore complex cell periphery cell outer membrane external encapsulating structure

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	IPR018391	Pyrrolo-quinoline quinone beta-propeller repeat	Repeat
B	IPR011047	Quinoprotein alcohol dehydrogenase-like superfamily	Homologous Superfamily
B	IPR017687	Outer membrane protein assembly factor BamB	Family
B	IPR002372	Pyrrolo-quinoline quinone repeat	Repeat
B	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily
C	IPR010653	NlpB/DapX lipoprotein	Family
C	IPR042268	Outer membrane protein assembly factor BamC, C-terminal	Homologous Superfamily
C	IPR014524	Outer membrane protein assembly factor BamC	Family
D	IPR039565	Outer membrane lipoprotein BamD-like	Domain
D	IPR011990	Tetratricopeptide-like helical domain superfamily	Homologous Superfamily
D	IPR017689	Outer membrane protein assembly factor BamD	Family
E	IPR037873	BamE-like	Homologous Superfamily
E	IPR026592	Outer membrane protein assembly factor BamE	Family
E	IPR007450	Lipoprotein SmpA/OmlA	Domain
F [auth P]	IPR006664	Outer membrane protein, bacterial	Domain
F [auth P]	IPR000498	Outer membrane protein OmpA-like, transmembrane domain	Domain
F [auth P]	IPR006690	Outer membrane protein, OmpA-like, conserved site	Conserved Site
F [auth P]	IPR036737	OmpA-like domain superfamily	Homologous Superfamily
F [auth P]	IPR011250	Outer membrane protein/outer membrane enzyme PagP, beta-barrel	Homologous Superfamily
F [auth P]	IPR006665	OmpA-like domain	Domain
F [auth P]	IPR002368	Outer membrane protein, OmpA	Family

Membrane Protein Annotation: OPM OPM Database Homepage

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