5NC5 | pdb_00005nc5

Crystal structure of AcrBZ in complex with antibiotic puromycin

External Resource: Annotation


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
ASCOP2B SuperfamilyMultidrug efflux transporter AcrB pore domain PN1, PN2, PC1 and PC2 subdomains 8042523 3000503 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyMultidrug efflux transporter AcrB pore domain PN1, PN2, PC1 and PC2 subdomains 8042528 3000503 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyMultidrug efflux transporter AcrB pore domain PN1, PN2, PC1 and PC2 subdomains 8042525 3000503 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyMultidrug efflux transporter AcrB TolC docking domain (DN and DC subdomains) 8042531 3000526 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyMultidrug efflux transporter AcrB transmembrane domain 8042534 3000769 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyMultidrug efflux transporter AcrB pore domain PN1, PN2, PC1 and PC2 subdomains 8042529 3000503 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyMultidrug efflux transporter AcrB pore domain PN1, PN2, PC1 and PC2 subdomains 8042529 3000503 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyMultidrug efflux transporter AcrB transmembrane domain 8042535 3000769 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyMultidrug efflux transporter AcrB pore domain PN1, PN2, PC1 and PC2 subdomains 8042525 3000503 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyMultidrug efflux transporter AcrB TolC docking domain (DN and DC subdomains) 8042533 3000526 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyMultidrug efflux transporter AcrB transmembrane domain 8042535 3000769 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyMultidrug efflux transporter AcrB transmembrane domain 8042534 3000769 SCOP2B (2022-06-29)
CSCOP2B SuperfamilyMultidrug efflux transporter AcrB pore domain PN1, PN2, PC1 and PC2 subdomains 8042523 3000503 SCOP2B (2022-06-29)
CSCOP2B SuperfamilyMultidrug efflux transporter AcrB transmembrane domain 8042535 3000769 SCOP2B (2022-06-29)
CSCOP2B SuperfamilyMultidrug efflux transporter AcrB pore domain PN1, PN2, PC1 and PC2 subdomains 8042525 3000503 SCOP2B (2022-06-29)
CSCOP2B SuperfamilyMultidrug efflux transporter AcrB pore domain PN1, PN2, PC1 and PC2 subdomains 8042529 3000503 SCOP2B (2022-06-29)
CSCOP2B SuperfamilyMultidrug efflux transporter AcrB pore domain PN1, PN2, PC1 and PC2 subdomains 8042529 3000503 SCOP2B (2022-06-29)
CSCOP2B SuperfamilyMultidrug efflux transporter AcrB transmembrane domain 8042535 3000769 SCOP2B (2022-06-29)
CSCOP2B SuperfamilyMultidrug efflux transporter AcrB pore domain PN1, PN2, PC1 and PC2 subdomains 8042525 3000503 SCOP2B (2022-06-29)
CSCOP2B SuperfamilyMultidrug efflux transporter AcrB transmembrane domain 8042534 3000769 SCOP2B (2022-06-29)
CSCOP2B SuperfamilyMultidrug efflux transporter AcrB TolC docking domain (DN and DC subdomains) 8042533 3000526 SCOP2B (2022-06-29)
CSCOP2B SuperfamilyMultidrug efflux transporter AcrB TolC docking domain (DN and DC subdomains) 8042531 3000526 SCOP2B (2022-06-29)
CSCOP2B SuperfamilyMultidrug efflux transporter AcrB transmembrane domain 8042534 3000769 SCOP2B (2022-06-29)
CSCOP2B SuperfamilyMultidrug efflux transporter AcrB pore domain PN1, PN2, PC1 and PC2 subdomains 8042528 3000503 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyMultidrug efflux transporter AcrB pore domain PN1, PN2, PC1 and PC2 subdomains 8042525 3000503 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyMultidrug efflux transporter AcrB TolC docking domain (DN and DC subdomains) 8042531 3000526 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyMultidrug efflux transporter AcrB TolC docking domain (DN and DC subdomains) 8042533 3000526 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyMultidrug efflux transporter AcrB pore domain PN1, PN2, PC1 and PC2 subdomains 8042528 3000503 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyMultidrug efflux transporter AcrB pore domain PN1, PN2, PC1 and PC2 subdomains 8042523 3000503 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyMultidrug efflux transporter AcrB pore domain PN1, PN2, PC1 and PC2 subdomains 8042525 3000503 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyMultidrug efflux transporter AcrB transmembrane domain 8042535 3000769 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyMultidrug efflux transporter AcrB transmembrane domain 8042534 3000769 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyMultidrug efflux transporter AcrB transmembrane domain 8042535 3000769 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyMultidrug efflux transporter AcrB pore domain PN1, PN2, PC1 and PC2 subdomains 8042529 3000503 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyMultidrug efflux transporter AcrB pore domain PN1, PN2, PC1 and PC2 subdomains 8042529 3000503 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyMultidrug efflux transporter AcrB transmembrane domain 8042534 3000769 SCOP2B (2022-06-29)
GSCOP2B SuperfamilyAcrZ-like 8090988 3002474 SCOP2B (2022-06-29)
HSCOP2B SuperfamilyAcrZ-like 8090988 3002474 SCOP2B (2022-06-29)
FSCOP2 FamilyAcrZ-like 8075668 4004543 SCOP2 (2022-06-29)
FSCOP2 SuperfamilyAcrZ-like 8090988 3002474 SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
AAldedhe5nc5A1 A: alpha bundlesX: Spectrin repeat-likeH: Spectrin repeatT: Spectrin repeatF: AldedhECOD (develop294)
CAldedhe5nc5C1 A: alpha bundlesX: Spectrin repeat-likeH: Spectrin repeatT: Spectrin repeatF: AldedhECOD (develop294)
BAldedhe5nc5B1 A: alpha bundlesX: Spectrin repeat-likeH: Spectrin repeatT: Spectrin repeatF: AldedhECOD (develop294)
GAldedhe5nc5G1 A: alpha bundlesX: Spectrin repeat-likeH: Spectrin repeatT: Spectrin repeatF: AldedhECOD (develop294)
HAldedhe5nc5H1 A: alpha bundlesX: Spectrin repeat-likeH: Spectrin repeatT: Spectrin repeatF: AldedhECOD (develop294)
FAldedhe5nc5F1 A: alpha bundlesX: Spectrin repeat-likeH: Spectrin repeatT: Spectrin repeatF: AldedhECOD (develop294)
DAldedhe5nc5D1 A: alpha bundlesX: Spectrin repeat-likeH: Spectrin repeatT: Spectrin repeatF: AldedhECOD (develop294)
EAldedhe5nc5E1 A: alpha bundlesX: Spectrin repeat-likeH: Spectrin repeatT: Spectrin repeatF: AldedhECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

ChainDomainClassArchitectureTopologyHomologyProvenance Source (Version)
A1.20.1640.10 Mainly Alpha Up-down Bundle Multidrug efflux transporter AcrB transmembrane fold Multidrug efflux transporter AcrB transmembrane domainCATH (4.3.0)
A3.30.70.1430 Alpha Beta 2-Layer Sandwich Alpha-Beta Plaits Multidrug efflux transporter AcrB pore domainCATH (4.3.0)
A3.30.70.1320 Alpha Beta 2-Layer Sandwich Alpha-Beta Plaits Multidrug efflux transporter AcrB pore domain likeCATH (4.3.0)
A3.30.2090.10 Alpha Beta 2-Layer Sandwich Multidrug efflux transporter AcrB TolC docking domain DN and DC subdomainsCATH (4.3.0)
A3.30.70.1440 Alpha Beta 2-Layer Sandwich Alpha-Beta Plaits Multidrug efflux transporter AcrB pore domainCATH (4.3.0)
C1.20.1640.10 Mainly Alpha Up-down Bundle Multidrug efflux transporter AcrB transmembrane fold Multidrug efflux transporter AcrB transmembrane domainCATH (4.3.0)
C3.30.70.1430 Alpha Beta 2-Layer Sandwich Alpha-Beta Plaits Multidrug efflux transporter AcrB pore domainCATH (4.3.0)
C3.30.70.1320 Alpha Beta 2-Layer Sandwich Alpha-Beta Plaits Multidrug efflux transporter AcrB pore domain likeCATH (4.3.0)
C3.30.2090.10 Alpha Beta 2-Layer Sandwich Multidrug efflux transporter AcrB TolC docking domain DN and DC subdomainsCATH (4.3.0)
C3.30.70.1440 Alpha Beta 2-Layer Sandwich Alpha-Beta Plaits Multidrug efflux transporter AcrB pore domainCATH (4.3.0)
B1.20.1640.10 Mainly Alpha Up-down Bundle Multidrug efflux transporter AcrB transmembrane fold Multidrug efflux transporter AcrB transmembrane domainCATH (4.3.0)
B3.30.70.1430 Alpha Beta 2-Layer Sandwich Alpha-Beta Plaits Multidrug efflux transporter AcrB pore domainCATH (4.3.0)
B3.30.70.1320 Alpha Beta 2-Layer Sandwich Alpha-Beta Plaits Multidrug efflux transporter AcrB pore domain likeCATH (4.3.0)
B3.30.2090.10 Alpha Beta 2-Layer Sandwich Multidrug efflux transporter AcrB TolC docking domain DN and DC subdomainsCATH (4.3.0)
B3.30.70.1440 Alpha Beta 2-Layer Sandwich Alpha-Beta Plaits Multidrug efflux transporter AcrB pore domainCATH (4.3.0)
D1.25.40.20 Mainly Alpha Alpha Horseshoe Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat Ankyrin repeat-containing domainCATH (4.3.0)
E1.25.40.20 Mainly Alpha Alpha Horseshoe Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat Ankyrin repeat-containing domainCATH (4.3.0)

AMR Gene: CARD Annotation CARD Database Homepage

ChainsAccessionShort NameDescriptionProvenance Source (Version)
A, B, C
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, B, C
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, B, C
PF00873AcrB/AcrD/AcrF family (ACR_tran)AcrB/AcrD/AcrF family- Family
F, G, H
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, B, C
Multidrug efflux pump subunit AcrB
F, G, H
Multidrug efflux pump accessory protein AcrZ
D, E
DARPin---

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
A, B, C
IPR027463Multidrug efflux transporter AcrB TolC docking domain, DN/DC subdomainsHomologous Superfamily
A, B, C
IPR001036Acriflavin resistance proteinFamily
A, B, C
IPR004764Multidrug resistance protein MdtF-likeFamily
F, G, H
IPR053730Multidrug Efflux Pump Accessory AcrZHomologous Superfamily
F, G, H
IPR019702Multidrug efflux pump accessory protein AcrZFamily

Membrane Protein Annotation: OPM OPM Database Homepage

ChainsExternal LinkTypeClassSuperfamilyFamily
A, B, C, F, G
OPMTransmembraneAlpha-helical polytopicResistance-nodulation-cell divisionHydrophobe/amphiphile efflux-1 family

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

ChainsExternal LinkComment
A, B, C, F, G
PDBTMAnnotated as membrane protein by PDBTM

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

ChainsExternal LinkComment
A, B, C, F, G
MemProtMDAnnotated as membrane protein by MemProtMD

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

ChainsResource LinkGroupSubgroupProtein
A, B, C, F, G
mpstrucTRANSMEMBRANE PROTEINS: ALPHA-HELICALMulti-Drug Efflux TransportersAcrABZ-TolC tripartite multi drug efflux pump with bound puromycin (asymmetric structure)