6TA6 | pdb_00006ta6

MexAB assembly of the Pseudomonas MexAB-OprM efflux pump reconstituted in nanodiscs

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
AMR Gene: CARD Annotation
AMR Gene Family: CARD Annotation
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)
I	SCOP2B Superfamily	Single hybrid motif	8055550	3001880	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	HlyD beta-barrel domain-like	8041312	3002000	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	HlyD beta-barrel domain-like	8041312	3002000	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	HlyD C-terminal domain-like	8092210	3002572	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	Single hybrid motif	8055550	3001880	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	HlyD C-terminal domain-like	8092210	3002572	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Single hybrid motif	8055550	3001880	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	HlyD beta-barrel domain-like	8041312	3002000	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Single hybrid motif	8055550	3001880	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	HlyD beta-barrel domain-like	8041312	3002000	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Single hybrid motif	8055550	3001880	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	HlyD beta-barrel domain-like	8041312	3002000	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Single hybrid motif	8055550	3001880	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	HlyD C-terminal domain-like	8092210	3002572	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	HlyD beta-barrel domain-like	8041312	3002000	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	HlyD C-terminal domain-like	8092210	3002572	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	HlyD beta-barrel domain-like	8041312	3002000	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Single hybrid motif	8055550	3001880	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	HlyD beta-barrel domain-like	8041312	3002000	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Single hybrid motif	8055550	3001880	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Single hybrid motif	8055550	3001880	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Single hybrid motif	8055550	3001880	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	HlyD beta-barrel domain-like	8041312	3002000	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	HlyD beta-barrel domain-like	8041312	3002000	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	HlyD C-terminal domain-like	8092210	3002572	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	HlyD C-terminal domain-like	8092210	3002572	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Single hybrid motif	8055550	3001880	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	HlyD beta-barrel domain-like	8041312	3002000	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Single hybrid motif	8055550	3001880	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	HlyD beta-barrel domain-like	8041312	3002000	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Outer membrane efflux proteins (OEP)	8043654	3000246	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Outer membrane efflux proteins (OEP)	8043654	3000246	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Outer membrane efflux proteins (OEP)	8043654	3000246	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)
L	Metallophos_2	e6ta6L1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Metallophos_2	ECOD (develop294)
K	Metallophos_2	e6ta6K1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Metallophos_2	ECOD (develop294)
J	Metallophos_2	e6ta6J1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Metallophos_2	ECOD (develop294)
I	Metallophos_2	e6ta6I1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Metallophos_2	ECOD (develop294)
H	Metallophos_2	e6ta6H1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Metallophos_2	ECOD (develop294)
G	Metallophos_2	e6ta6G1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Metallophos_2	ECOD (develop294)
F	Metallophos_2	e6ta6F2	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Metallophos_2	ECOD (develop294)
E	Metallophos_2	e6ta6E1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Metallophos_2	ECOD (develop294)
D	Metallophos_2	e6ta6D1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Metallophos_2	ECOD (develop294)
C	Metallophos_2	e6ta6C1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Metallophos_2	ECOD (develop294)
B	Metallophos_2	e6ta6B1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Metallophos_2	ECOD (develop294)
A	Metallophos_2	e6ta6A1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Metallophos_2	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
L	3.30.2090.10	Alpha Beta	2-Layer Sandwich	Multidrug efflux transporter AcrB TolC docking domain	DN and DC subdomains	CATH (utative)
K	3.30.2090.10	Alpha Beta	2-Layer Sandwich	Multidrug efflux transporter AcrB TolC docking domain	DN and DC subdomains	CATH (utative)
J	3.30.2090.10	Alpha Beta	2-Layer Sandwich	Multidrug efflux transporter AcrB TolC docking domain	DN and DC subdomains	CATH (utative)
G	1.10.287.470	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Helix hairpin bin	CATH (utative)
E	1.10.287.470	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Helix hairpin bin	CATH (utative)

AMR Gene: CARD Annotation CARD Database Homepage

Chains	Accession	Short Name	Description	Provenance Source (Version)
A, B, C	ARO:3000379	OprM	OprM is an outer membrane factor protein found in Pseudomonas aeruginosa and Burkholderia vietnamiensis. It is part of the MexAB-OprM, MexVW-OprM, MexXY-OprM and the AmrAB-OprM complex.	CARD (4.0.1)

AMR Gene Family: CARD Annotation CARD Database Homepage

Chains	Accession	Gene Family	Drug Class	Resistance Machanism	Provenance Source (Version)
A, B, C	ARO:0010004	resistance-nodulation-cell division (RND) antibiotic efflux pump	macrolide antibiotic, fluoroquinolone antibiotic, aminoglycoside antibiotic, carbapenem, cephalosporin, penicillin beta-lactam, tetracycline antibiotic, phenicol antibiotic, disinfecting agents and antiseptics	antibiotic efflux	CARD (4.0.1)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
J, K, L	PF00873	AcrB/AcrD/AcrF family (ACR_tran)	AcrB/AcrD/AcrF family	-	Family
D, E, F, G, H D, E, F, G, H, I	PF25876	RND MFP, alpha-helical hairpin domain (HH_MFP_RND)	RND MFP, alpha-helical hairpin domain	This domain is found in the periplasmic membrane fusion proteins (MFPs) that are components of the RND tripartite drug efflux pumps. MFPs bridge the outer membrane factor and an inner membrane transporter. The most characterized MFP AcrA connects the ...	This domain is found in the periplasmic membrane fusion proteins (MFPs) that are components of the RND tripartite drug efflux pumps. MFPs bridge the outer membrane factor and an inner membrane transporter. The most characterized MFP AcrA connects the outer membrane factor TolC and the resistance- nodulation-division-type efflux transporter AcrB, which is a major multidrug efflux pump in Escherichia coli [1]. The alpha -helical hairpin domain of AcrA shows conformational flexibility, which has potential mechanistic significance in coupling between AcrA conformations and TolC channel opening [1].	Domain
D, E, F, G, H D, E, F, G, H, I	PF25917	RND MFP, barrel-sandwich hybrid domain (BSH_RND)	RND MFP, barrel-sandwich hybrid domain	This domain is found in the periplasmic membrane fusion proteins (MFPs) that are components of the RND tripartite drug efflux pumps. MFPs bridge the outer membrane factor and an inner membrane transporter. The most characterized MFP AcrA connects the ...	This domain is found in the periplasmic membrane fusion proteins (MFPs) that are components of the RND tripartite drug efflux pumps. MFPs bridge the outer membrane factor and an inner membrane transporter. The most characterized MFP AcrA connects the outer membrane factor TolC and the resistance-nodulation-division-type efflux transporter AcrB, which is a major multidrug efflux pump in Escherichia coli [1]. The barrel-sandwich hybrid domain is an important structural feature found in membrane fusion proteins. This domain plays a crucial role in the assembly and function of tripartite drug efflux systems [2]. It is involved in interactions with the other components of the RND pumps.	Domain
D, E, F, G, H D, E, F, G, H, I	PF25967	RND MFPs, C-terminal permuted SH3 domain (RND-MFP_C)	RND MFPs, C-terminal permuted SH3 domain	This domain is found in the periplasmic membrane fusion proteins (MFPs) that are components of the RND tripartite drug efflux pumps. MFPs bridge the outer membrane factor and an inner membrane transporter. The most characterized MFP AcrA connects the ...	This domain is found in the periplasmic membrane fusion proteins (MFPs) that are components of the RND tripartite drug efflux pumps. MFPs bridge the outer membrane factor and an inner membrane transporter. The most characterized MFP AcrA connects the outer membrane factor TolC and the resistance- nodulation-division-type efflux transporter AcrB, which is a major multidrug efflux pump in Escherichia coli [1]. Another member MexA, a Pseudomonas aeruginosa homolog of AcrA, is a component of the tripartite multidrug efflux system MexAB-OprM which is a major factor for antibiotic resistance by exporting a large variety of antimicrobial compounds [2]. The domain represented by this entry folds into an open barrel with a circularly permuted topology of SH3-like barrels. This domain is involved in interactions with efflux pump membrane transporter.	Domain
D, E, F, G, H D, E, F, G, H, I	PF25944	RND MFPs, beta-barrel domain (Beta-barrel_RND)	RND MFPs, beta-barrel domain	This domain is found in the periplasmic membrane fusion proteins (MFPs) that are components of the RND tripartite drug efflux pumps. MFPs bridge the outer membrane factor and an inner membrane transporter. The most characterized MFP AcrA connects the ...	This domain is found in the periplasmic membrane fusion proteins (MFPs) that are components of the RND tripartite drug efflux pumps. MFPs bridge the outer membrane factor and an inner membrane transporter. The most characterized MFP AcrA connects the outer membrane factor TolC and the resistance- nodulation-division-type efflux transporter AcrB, which is a major multidrug efflux pump in Escherichia coli [1,2]. The domain represented in this entry folds into a six-stranded closed beta-barrel with a greek-key topology which has a structural similarity to the C-terminal domain of alanine racemase. This domain is interrupted by the barrel-sandwich hybrid domain which is inserted after the first beta-strand of the barrel. This model does not include the N-terminal strand.	Domain
A, B, C	PF02321	Outer membrane efflux protein (OEP)	Outer membrane efflux protein	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
J, K, L	Efflux pump membrane transporter	efflux transmembrane transporter activity transporter activity transmembrane transporter activity xenobiotic transmembrane transporter activity	xenobiotic transport response to stimulus transport detoxification export across cell outer membrane xenobiotic detoxification by transmembrane export across the cell outer membrane establishment of localization response to toxic substance transmembrane transport localization response to chemical cellular process response to antibiotic	cell periphery cellular anatomical structure plasma membrane membrane protein-containing complex efflux pump complex transmembrane transporter complex membrane protein complex transporter complex
D, E, F, G, H D, E, F, G, H, I	MexA family multidrug efflux RND transporter periplasmic adaptor subunit	efflux transmembrane transporter activity transporter activity transmembrane transporter activity identical protein binding protein binding binding	response to stimulus response to chemical response to antibiotic localization xenobiotic transport transport establishment of localization cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein complex oligomerization protein-containing complex assembly protein homooligomerization response to stimulus response to chemical response to antibiotic localization xenobiotic transport transport establishment of localization cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein complex oligomerization protein-containing complex assembly protein homooligomerization cellular process cellular component organization or biogenesis response to toxic substance	cell periphery cellular anatomical structure plasma membrane membrane
A, B, C	Outer membrane protein OprM	efflux transmembrane transporter activity transporter activity transmembrane transporter activity	xenobiotic transport response to stimulus transport detoxification export across cell outer membrane xenobiotic detoxification by transmembrane export across the cell outer membrane establishment of localization response to toxic substance transmembrane transport localization response to chemical cellular process response to antibiotic	cellular anatomical structure membrane protein-containing complex efflux pump complex transmembrane transporter complex membrane protein complex transporter complex cell periphery cell outer membrane external encapsulating structure cell envelope outer membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
J, K, L	IPR001036	Acriflavin resistance protein	Family
J, K, L	IPR004764	Multidrug resistance protein MdtF-like	Family
J, K, L	IPR027463	Multidrug efflux transporter AcrB TolC docking domain, DN/DC subdomains	Homologous Superfamily
D, E, F, G, H D, E, F, G, H, I	IPR058194	Multidrug resistance protein MexA	Family
D, E, F, G, H D, E, F, G, H, I	IPR058627	Multidrug resistance protein MdtA-like, C-terminal permuted SH3 domain	Domain
D, E, F, G, H D, E, F, G, H, I	IPR006143	RND efflux pump, membrane fusion protein	Family
D, E, F, G, H D, E, F, G, H, I	IPR058625	Multidrug resistance protein MdtA-like, barrel-sandwich hybrid domain	Domain
D, E, F, G, H D, E, F, G, H, I	IPR058626	Multidrug resistance protein MdtA-like, beta-barrel domain	Domain
D, E, F, G, H D, E, F, G, H, I	IPR058624	Multidrug resistance protein MdtA-like, alpha-helical hairpin domain	Domain
A, B, C	IPR003423	Outer membrane efflux protein	Family
A, B, C	IPR010131	Multidrug resistance outer membrane protein MdtP/Nodulation protein T-like	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, G, H, I, J, K, L	OPM	Transmembrane	Alpha-helical polytopic	Resistance-nodulation-cell division	Hydrophobe/amphiphile efflux-1 family

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	mpstruc	TRANSMEMBRANE PROTEINS: ALPHA-HELICAL	Multi-Drug Efflux Transporters	MexAB bacterial multi-drug efflux transporter in nanodisc