9V53 | pdb_00009v53

Structure of TolC, YbjP, and AcrABZ complex


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
A [auth C1]SCOP2B SuperfamilyOuter membrane efflux proteins (OEP) 8037933 3000246 SCOP2B (2022-06-29)
B [auth C2]SCOP2B SuperfamilyOuter membrane efflux proteins (OEP) 8037933 3000246 SCOP2B (2022-06-29)
C [auth C3]SCOP2B SuperfamilyOuter membrane efflux proteins (OEP) 8037933 3000246 SCOP2B (2022-06-29)
M [auth BL]SCOP2B SuperfamilyMultidrug efflux transporter AcrB transmembrane domain 8042535 3000769 SCOP2B (2022-06-29)
M [auth BL]SCOP2B SuperfamilyMultidrug efflux transporter AcrB pore domain PN1, PN2, PC1 and PC2 subdomains 8042528 3000503 SCOP2B (2022-06-29)
M [auth BL]SCOP2B SuperfamilyMultidrug efflux transporter AcrB TolC docking domain (DN and DC subdomains) 8042533 3000526 SCOP2B (2022-06-29)
M [auth BL]SCOP2B SuperfamilyMultidrug efflux transporter AcrB transmembrane domain 8042534 3000769 SCOP2B (2022-06-29)
M [auth BL]SCOP2B SuperfamilyMultidrug efflux transporter AcrB pore domain PN1, PN2, PC1 and PC2 subdomains 8042529 3000503 SCOP2B (2022-06-29)
M [auth BL]SCOP2B SuperfamilyMultidrug efflux transporter AcrB pore domain PN1, PN2, PC1 and PC2 subdomains 8042529 3000503 SCOP2B (2022-06-29)
M [auth BL]SCOP2B SuperfamilyMultidrug efflux transporter AcrB transmembrane domain 8042534 3000769 SCOP2B (2022-06-29)
M [auth BL]SCOP2B SuperfamilyMultidrug efflux transporter AcrB transmembrane domain 8042535 3000769 SCOP2B (2022-06-29)
M [auth BL]SCOP2B SuperfamilyMultidrug efflux transporter AcrB pore domain PN1, PN2, PC1 and PC2 subdomains 8042525 3000503 SCOP2B (2022-06-29)
M [auth BL]SCOP2B SuperfamilyMultidrug efflux transporter AcrB pore domain PN1, PN2, PC1 and PC2 subdomains 8042525 3000503 SCOP2B (2022-06-29)
M [auth BL]SCOP2B SuperfamilyMultidrug efflux transporter AcrB TolC docking domain (DN and DC subdomains) 8042531 3000526 SCOP2B (2022-06-29)
M [auth BL]SCOP2B SuperfamilyMultidrug efflux transporter AcrB pore domain PN1, PN2, PC1 and PC2 subdomains 8042523 3000503 SCOP2B (2022-06-29)
O [auth BT]SCOP2B SuperfamilyMultidrug efflux transporter AcrB transmembrane domain 8042534 3000769 SCOP2B (2022-06-29)
O [auth BT]SCOP2B SuperfamilyMultidrug efflux transporter AcrB pore domain PN1, PN2, PC1 and PC2 subdomains 8042525 3000503 SCOP2B (2022-06-29)
O [auth BT]SCOP2B SuperfamilyMultidrug efflux transporter AcrB transmembrane domain 8042534 3000769 SCOP2B (2022-06-29)
O [auth BT]SCOP2B SuperfamilyMultidrug efflux transporter AcrB transmembrane domain 8042535 3000769 SCOP2B (2022-06-29)
O [auth BT]SCOP2B SuperfamilyMultidrug efflux transporter AcrB TolC docking domain (DN and DC subdomains) 8042531 3000526 SCOP2B (2022-06-29)
O [auth BT]SCOP2B SuperfamilyMultidrug efflux transporter AcrB transmembrane domain 8042535 3000769 SCOP2B (2022-06-29)
O [auth BT]SCOP2B SuperfamilyMultidrug efflux transporter AcrB pore domain PN1, PN2, PC1 and PC2 subdomains 8042529 3000503 SCOP2B (2022-06-29)
O [auth BT]SCOP2B SuperfamilyMultidrug efflux transporter AcrB TolC docking domain (DN and DC subdomains) 8042533 3000526 SCOP2B (2022-06-29)
O [auth BT]SCOP2B SuperfamilyMultidrug efflux transporter AcrB pore domain PN1, PN2, PC1 and PC2 subdomains 8042523 3000503 SCOP2B (2022-06-29)
O [auth BT]SCOP2B SuperfamilyMultidrug efflux transporter AcrB pore domain PN1, PN2, PC1 and PC2 subdomains 8042525 3000503 SCOP2B (2022-06-29)
O [auth BT]SCOP2B SuperfamilyMultidrug efflux transporter AcrB pore domain PN1, PN2, PC1 and PC2 subdomains 8042528 3000503 SCOP2B (2022-06-29)
O [auth BT]SCOP2B SuperfamilyMultidrug efflux transporter AcrB pore domain PN1, PN2, PC1 and PC2 subdomains 8042529 3000503 SCOP2B (2022-06-29)
Q [auth BO]SCOP2B SuperfamilyMultidrug efflux transporter AcrB pore domain PN1, PN2, PC1 and PC2 subdomains 8042523 3000503 SCOP2B (2022-06-29)
Q [auth BO]SCOP2B SuperfamilyMultidrug efflux transporter AcrB pore domain PN1, PN2, PC1 and PC2 subdomains 8042525 3000503 SCOP2B (2022-06-29)
Q [auth BO]SCOP2B SuperfamilyMultidrug efflux transporter AcrB transmembrane domain 8042535 3000769 SCOP2B (2022-06-29)
Q [auth BO]SCOP2B SuperfamilyMultidrug efflux transporter AcrB pore domain PN1, PN2, PC1 and PC2 subdomains 8042525 3000503 SCOP2B (2022-06-29)
Q [auth BO]SCOP2B SuperfamilyMultidrug efflux transporter AcrB TolC docking domain (DN and DC subdomains) 8042533 3000526 SCOP2B (2022-06-29)
Q [auth BO]SCOP2B SuperfamilyMultidrug efflux transporter AcrB pore domain PN1, PN2, PC1 and PC2 subdomains 8042529 3000503 SCOP2B (2022-06-29)
Q [auth BO]SCOP2B SuperfamilyMultidrug efflux transporter AcrB transmembrane domain 8042534 3000769 SCOP2B (2022-06-29)
Q [auth BO]SCOP2B SuperfamilyMultidrug efflux transporter AcrB pore domain PN1, PN2, PC1 and PC2 subdomains 8042528 3000503 SCOP2B (2022-06-29)
Q [auth BO]SCOP2B SuperfamilyMultidrug efflux transporter AcrB transmembrane domain 8042535 3000769 SCOP2B (2022-06-29)
Q [auth BO]SCOP2B SuperfamilyMultidrug efflux transporter AcrB TolC docking domain (DN and DC subdomains) 8042531 3000526 SCOP2B (2022-06-29)
Q [auth BO]SCOP2B SuperfamilyMultidrug efflux transporter AcrB transmembrane domain 8042534 3000769 SCOP2B (2022-06-29)
Q [auth BO]SCOP2B SuperfamilyMultidrug efflux transporter AcrB pore domain PN1, PN2, PC1 and PC2 subdomains 8042529 3000503 SCOP2B (2022-06-29)

AMR Gene: CARD Annotation CARD Database Homepage

ChainsAccessionShort NameDescriptionProvenance Source (Version)
A [auth C1],
B [auth C2],
C [auth C3]
ARO:3000237TolCTolC is a protein subunit of many multidrug efflux complexes in Gram negative bacteria. It is an outer membrane efflux protein and is constitutively open. Regulation of efflux activity is often at its periplasmic entrance by other components of the efflux complex.CARD (4.0.1)
ARO:3004043Escherichia coli acrAAcrA is a subunit of the AcrAB-TolC multidrug efflux system found in E. coli.CARD (4.0.1)
M [auth BL],
O [auth BT],
Q [auth BO]
ARO:3000216acrBProtein subunit of AcrA-AcrB-TolC multidrug efflux complex. AcrB functions as a herterotrimer which forms the inner membrane component and is primarily responsible for substrate recognition and energy transduction by acting as a drug/proton antiporter.CARD (4.0.1)

AMR Gene Family: CARD Annotation CARD Database Homepage

ChainsAccessionGene FamilyDrug Class Resistance MachanismProvenance Source (Version)
A [auth C1],
B [auth C2],
C [auth C3]
ARO:0010004resistance-nodulation-cell division (RND) antibiotic efflux pumpmacrolide antibiotic, fluoroquinolone antibiotic, aminoglycoside antibiotic, carbapenem, cephalosporin, glycylcycline, penicillin beta-lactam, tetracycline antibiotic, peptide antibiotic, aminocoumarin antibiotic, rifamycin antibiotic, phenicol antibiotic, disinfecting agents and antisepticsantibiotic effluxCARD (4.0.1)
A [auth C1],
B [auth C2],
C [auth C3]
ARO:0010004resistance-nodulation-cell division (RND) antibiotic efflux pumpmacrolide antibiotic, fluoroquinolone antibiotic, aminoglycoside antibiotic, carbapenem, cephalosporin, glycylcycline, penicillin beta-lactam, tetracycline antibiotic, peptide antibiotic, aminocoumarin antibiotic, rifamycin antibiotic, phenicol antibiotic, disinfecting agents and antisepticsantibiotic effluxCARD (4.0.1)
A [auth C1],
B [auth C2],
C [auth C3]
ARO:0010004resistance-nodulation-cell division (RND) antibiotic efflux pumpmacrolide antibiotic, fluoroquinolone antibiotic, aminoglycoside antibiotic, carbapenem, cephalosporin, glycylcycline, penicillin beta-lactam, tetracycline antibiotic, peptide antibiotic, aminocoumarin antibiotic, rifamycin antibiotic, phenicol antibiotic, disinfecting agents and antisepticsantibiotic effluxCARD (4.0.1)
ARO:0010004resistance-nodulation-cell division (RND) antibiotic efflux pumpfluoroquinolone antibiotic, cephalosporin, glycylcycline, penicillin beta-lactam, tetracycline antibiotic, rifamycin antibiotic, phenicol antibiotic, disinfecting agents and antisepticsantibiotic effluxCARD (4.0.1)
ARO:0010004resistance-nodulation-cell division (RND) antibiotic efflux pumpfluoroquinolone antibiotic, cephalosporin, glycylcycline, penicillin beta-lactam, tetracycline antibiotic, rifamycin antibiotic, phenicol antibiotic, disinfecting agents and antisepticsantibiotic effluxCARD (4.0.1)
ARO:0010004resistance-nodulation-cell division (RND) antibiotic efflux pumpfluoroquinolone antibiotic, cephalosporin, glycylcycline, penicillin beta-lactam, tetracycline antibiotic, rifamycin antibiotic, phenicol antibiotic, disinfecting agents and antisepticsantibiotic effluxCARD (4.0.1)
M [auth BL],
O [auth BT],
Q [auth BO]
ARO:0010004resistance-nodulation-cell division (RND) antibiotic efflux pumpfluoroquinolone antibiotic, cephalosporin, glycylcycline, penicillin beta-lactam, tetracycline antibiotic, rifamycin antibiotic, phenicol antibiotic, disinfecting agents and antisepticsantibiotic effluxCARD (4.0.1)
M [auth BL],
O [auth BT],
Q [auth BO]
ARO:0010004resistance-nodulation-cell division (RND) antibiotic efflux pumpfluoroquinolone antibiotic, cephalosporin, glycylcycline, penicillin beta-lactam, tetracycline antibiotic, rifamycin antibiotic, phenicol antibiotic, disinfecting agents and antisepticsantibiotic effluxCARD (4.0.1)
M [auth BL],
O [auth BT],
Q [auth BO]
ARO:0010004resistance-nodulation-cell division (RND) antibiotic efflux pumpfluoroquinolone antibiotic, cephalosporin, glycylcycline, penicillin beta-lactam, tetracycline antibiotic, rifamycin antibiotic, phenicol antibiotic, disinfecting agents and antisepticsantibiotic effluxCARD (4.0.1)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
A [auth C1],
B [auth C2],
C [auth C3]
PF02321Outer membrane efflux protein (OEP)Outer membrane efflux protein- Family
D [auth P1],
E [auth P2],
F [auth P3]
PF12883Protein of unknown function (DUF3828) (DUF3828)Protein of unknown function (DUF3828)This is a family of bacterial proteins of unknown function. Domain
PF25876RND MFP, alpha-helical hairpin domain (HH_MFP_RND)RND MFP, alpha-helical hairpin domainThis 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
PF25917RND MFP, barrel-sandwich hybrid domain (BSH_RND)RND MFP, barrel-sandwich hybrid domainThis 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
PF25967RND MFPs, C-terminal permuted SH3 domain (RND-MFP_C)RND MFPs, C-terminal permuted SH3 domainThis 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
PF25944RND MFPs, beta-barrel domain (Beta-barrel_RND)RND MFPs, beta-barrel domainThis 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
M [auth BL],
O [auth BT],
Q [auth BO]
PF00873AcrB/AcrD/AcrF family (ACR_tran)AcrB/AcrD/AcrF family- Family
N [auth ZL],
P [auth ZT],
R [auth ZO]
PF10766Multidrug efflux pump-associated protein AcrZ (AcrZ)Multidrug efflux pump-associated protein AcrZ- Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A [auth C1],
B [auth C2],
C [auth C3]
Outer membrane protein TolC
D [auth P1],
E [auth P2],
F [auth P3]
Uncharacterized lipoprotein YbjP- -
Multidrug efflux pump subunit AcrA
M [auth BL],
O [auth BT],
Q [auth BO]
Multidrug efflux pump subunit AcrB
N [auth ZL],
P [auth ZT],
R [auth ZO]
Multidrug efflux pump accessory protein AcrZ

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
A [auth C1],
B [auth C2],
C [auth C3]
IPR010130Type I secretion outer membrane protein, TolCFamily
A [auth C1],
B [auth C2],
C [auth C3]
IPR051906Outer membrane protein TolC-likeFamily
A [auth C1],
B [auth C2],
C [auth C3]
IPR003423Outer membrane efflux proteinFamily
D [auth P1],
E [auth P2],
F [auth P3]
IPR024289Domain of unknown function DUF3828Domain
IPR006143RND efflux pump, membrane fusion proteinFamily
IPR043602CusB-like_dom_1Unknown
IPR051160MFP_EffluxUnknown
IPR032317CusB_D23Unknown
M [auth BL],
O [auth BT],
Q [auth BO]
IPR027463Multidrug efflux transporter AcrB TolC docking domain, DN/DC subdomainsHomologous Superfamily
M [auth BL],
O [auth BT],
Q [auth BO]
IPR001036Acriflavin resistance proteinFamily
M [auth BL],
O [auth BT],
Q [auth BO]
IPR004764Multidrug resistance protein MdtF-likeFamily
N [auth ZL],
P [auth ZT],
R [auth ZO]
IPR053730Multidrug Efflux Pump Accessory AcrZHomologous Superfamily
N [auth ZL],
P [auth ZT],
R [auth ZO]
IPR019702Multidrug efflux pump accessory protein AcrZFamily