3D5K | pdb_00003d5k

Crystal structure of the OprM channel in a non-symmetrical space group

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
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: PDBTM
Membrane Protein Annotation: MemProtMD
Membrane Protein Annotation: mpstruc
Protein Modification Annotation

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d3d5ka_	Membrane and cell surface proteins and peptides	Outer membrane efflux proteins (OEP)	Outer membrane efflux proteins (OEP)	Outer membrane efflux proteins (OEP)	Outer membrane protein OprM	(Pseudomonas aeruginosa ) [TaxId: 287 ],	SCOPe (2.08)
B	d3d5kb_	Membrane and cell surface proteins and peptides	Outer membrane efflux proteins (OEP)	Outer membrane efflux proteins (OEP)	Outer membrane efflux proteins (OEP)	Outer membrane protein OprM	(Pseudomonas aeruginosa ) [TaxId: 287 ],	SCOPe (2.08)
C	d3d5kc_	Membrane and cell surface proteins and peptides	Outer membrane efflux proteins (OEP)	Outer membrane efflux proteins (OEP)	Outer membrane efflux proteins (OEP)	Outer membrane protein OprM	(Pseudomonas aeruginosa ) [TaxId: 287 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	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)
C	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)
A	OEP	e3d5kA1	A: a+b duplicates or obligate multimers	X: Outer membrane efflux proteins (OEP) (From Topology)	H: Outer membrane efflux proteins (OEP) (From Topology)	T: Outer membrane efflux proteins (OEP)	F: OEP	ECOD (1.6)
B	OEP	e3d5kB1	A: a+b duplicates or obligate multimers	X: Outer membrane efflux proteins (OEP) (From Topology)	H: Outer membrane efflux proteins (OEP) (From Topology)	T: Outer membrane efflux proteins (OEP)	F: OEP	ECOD (1.6)
C	OEP	e3d5kC1	A: a+b duplicates or obligate multimers	X: Outer membrane efflux proteins (OEP) (From Topology)	H: Outer membrane efflux proteins (OEP) (From Topology)	T: Outer membrane efflux proteins (OEP)	F: OEP	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.20.1600.10	Mainly Alpha	Up-down Bundle	Outer membrane efflux proteins (OEP)	Outer membrane efflux proteins (OEP)	CATH (4.3.0)
A	2.20.200.10	Mainly Beta	Single Sheet	Outer membrane efflux proteins (OEP)	Outer membrane efflux proteins (OEP)	CATH (4.3.0)
B	1.20.1600.10	Mainly Alpha	Up-down Bundle	Outer membrane efflux proteins (OEP)	Outer membrane efflux proteins (OEP)	CATH (4.3.0)
B	2.20.200.10	Mainly Beta	Single Sheet	Outer membrane efflux proteins (OEP)	Outer membrane efflux proteins (OEP)	CATH (4.3.0)
C	1.20.1600.10	Mainly Alpha	Up-down Bundle	Outer membrane efflux proteins (OEP)	Outer membrane efflux proteins (OEP)	CATH (4.3.0)
C	2.20.200.10	Mainly Beta	Single Sheet	Outer membrane efflux proteins (OEP)	Outer membrane efflux proteins (OEP)	CATH (4.3.0)

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
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
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
A, B, C	IPR003423	Outer membrane efflux protein	Family
A, B, C	IPR050737	Outer Membrane Factor (OMF)	Family
A, B, C	IPR010131	RND efflux system, outer membrane lipoprotein, NodT	Family

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

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

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

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

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
A, B, C	mpstruc	TRANSMEMBRANE PROTEINS: BETA-BARREL	Beta-Barrel Membrane Proteins: Monomeric/Dimeric	OprM drug discharge outer membrane protein

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
A, B, C	SCY	Parent Component: CYS RESID: AA0056 PSI-MOD : S-acetyl-L-cysteine MOD:00065

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), 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 R01GM157729.