2F1M | pdb_00002f1m

Conformational flexibility in the multidrug efflux system protein AcrA

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Membrane Protein Annotation: mpstruc

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
D	d2f1md_	Membrane and cell surface proteins and peptides	HlyD-like secretion proteins	HlyD-like secretion proteins	automated matches	automated matches	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
C	d2f1mc_	Membrane and cell surface proteins and peptides	HlyD-like secretion proteins	HlyD-like secretion proteins	automated matches	automated matches	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
B	d2f1mb_	Membrane and cell surface proteins and peptides	HlyD-like secretion proteins	HlyD-like secretion proteins	automated matches	automated matches	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
A	d2f1ma_	Membrane and cell surface proteins and peptides	HlyD-like secretion proteins	HlyD-like secretion proteins	automated matches	automated matches	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D	HlyD_D23_C_1	e2f1mD2	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: HlyD_D23_C_1	ECOD (1.6)
D	HlyD_2nd	e2f1mD1	A: alpha bundles	X: helical hairpin of HlyD-like secretion proteins (From Topology)	H: helical hairpin of HlyD-like secretion proteins (From Topology)	T: helical hairpin of HlyD-like secretion proteins	F: HlyD_2nd	ECOD (1.6)
D	HlyD_1st	e2f1mD3	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: HlyD_1st	ECOD (1.6)
C	HlyD_D23_C_1	e2f1mC3	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: HlyD_D23_C_1	ECOD (1.6)
C	HlyD_2nd	e2f1mC2	A: alpha bundles	X: helical hairpin of HlyD-like secretion proteins (From Topology)	H: helical hairpin of HlyD-like secretion proteins (From Topology)	T: helical hairpin of HlyD-like secretion proteins	F: HlyD_2nd	ECOD (1.6)
C	HlyD_1st	e2f1mC1	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: HlyD_1st	ECOD (1.6)
B	HlyD_D23_C_1	e2f1mB1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: HlyD_D23_C_1	ECOD (1.6)
B	HlyD_2nd	e2f1mB3	A: alpha bundles	X: helical hairpin of HlyD-like secretion proteins (From Topology)	H: helical hairpin of HlyD-like secretion proteins (From Topology)	T: helical hairpin of HlyD-like secretion proteins	F: HlyD_2nd	ECOD (1.6)
B	HlyD_1st	e2f1mB2	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: HlyD_1st	ECOD (1.6)
A	HlyD_D23_C_1	e2f1mA4	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: HlyD_D23_C_1	ECOD (1.6)
A	HlyD_2nd	e2f1mA5	A: alpha bundles	X: helical hairpin of HlyD-like secretion proteins (From Topology)	H: helical hairpin of HlyD-like secretion proteins (From Topology)	T: helical hairpin of HlyD-like secretion proteins	F: HlyD_2nd	ECOD (1.6)
A	HlyD_1st	e2f1mA6	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: HlyD_1st	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	2.40.30.170	Mainly Beta	Beta Barrel	Elongation Factor Tu (Ef-tu)	domain 3	CATH (4.2.0)
D	2.40.50.100	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain	CATH (4.2.0)
D	1.10.287.470	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Helix hairpin bin	CATH (4.2.0)
C	2.40.30.170	Mainly Beta	Beta Barrel	Elongation Factor Tu (Ef-tu)	domain 3	CATH (4.2.0)
C	2.40.50.100	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain	CATH (4.2.0)
C	1.10.287.470	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Helix hairpin bin	CATH (4.2.0)
B	2.40.30.170	Mainly Beta	Beta Barrel	Elongation Factor Tu (Ef-tu)	domain 3	CATH (4.2.0)
B	2.40.50.100	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain	CATH (4.2.0)
B	1.10.287.470	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Helix hairpin bin	CATH (4.2.0)
A	2.40.30.170	Mainly Beta	Beta Barrel	Elongation Factor Tu (Ef-tu)	domain 3	CATH (4.2.0)
A	2.40.50.100	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain	CATH (4.2.0)
A	1.10.287.470	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Helix hairpin bin	CATH (4.2.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	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
A, B, C, D	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
A, B, C, D	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

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	Acriflavine resistance protein A	alkane transmembrane transporter activity transporter activity transmembrane transporter activity lipid transporter activity lipid transmembrane transporter activity monocarboxylic acid transmembrane transporter activity carboxylic acid transmembrane transporter activity bile acid transmembrane transporter activity identical protein binding protein binding binding	response to stimulus response to chemical response to xenobiotic stimulus xenobiotic transport 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 cellular process organic anion transport response to stimulus response to chemical response to xenobiotic stimulus xenobiotic transport 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 cellular process organic anion transport carboxylic acid transport lipid localization lipid transport organic acid transport monocarboxylic acid transport fatty acid transport macromolecule localization alkane transport response to antibiotic bile acid and bile salt transport organic hydroxy compound transport	protein-containing complex cellular anatomical structure efflux pump complex transmembrane transporter complex membrane membrane protein complex transporter complex cell periphery plasma membrane cell surface periplasmic side of plasma membrane external side of plasma membrane side of membrane outer membrane-bounded periplasmic space protein-containing complex cellular anatomical structure efflux pump complex transmembrane transporter complex membrane membrane protein complex transporter complex cell periphery plasma membrane cell surface periplasmic side of plasma membrane external side of plasma membrane side of membrane outer membrane-bounded periplasmic space cell envelope periplasmic space

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR006143	RND efflux pump, membrane fusion protein	Family
A, B, C, D	IPR043602	CusB-like_dom_1	Unknown
A, B, C, D	IPR051160	MFP_Efflux	Unknown
A, B, C, D	IPR032317	CusB_D23	Unknown

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
A, B, C, D	mpstruc	TRANSMEMBRANE PROTEINS: ALPHA-HELICAL	Multi-Drug Efflux Transporters	AcrA fusion protein

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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.