All structure family : Multidrug-efflux Transporter Regulator; Chain: A; Domain 2
 
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Entry Information
Entry status  (1)
REL
(55)
 
Experimental methods  (2)
X-ray diffraction
(50)
Solution NMR
(5)
 
Authors  (158)
Brennan RG
(11)
Schumacher MA
(10)
Mondragon A
(8)
Mondragón A
(8)
Newberry KJ
(8)
O'Halloran TV
(8)
Bachas S
(6)
Changela A
(6)
Chen K
(6)
Eginton C
(6)
Gunio D
(6)
Gunio G
(6)
Holschen J
(6)
Outten CE
(6)
Wade H
(6)
Xue Y
(6)
Dunham TD
(5)
Funnell BE
(5)
Neyfakh AA
(5)
Xu W
(5)
Clubb RT
(4)
Huffman JL
(4)
Johnson RC
(4)
Miller MC
(4)
Sam MD
(4)
Vazquez-Laslop N
(4)
Burley SK
(3)
Cascio D
(3)
Chang CW
(3)
Chen NH
(3)
Chinnam NB
(3)
Counago RM
(3)
Couñago RM
(3)
Cuthbert B
(3)
Djoko KY
(3)
Kobe B
(3)
Lee J
(3)
McEwan AG
(3)
New York SGX Research Center for Structural Genomics (NYSGXRC)
(3)
Papagiannis CV
(3)
Tonthat NK
(3)
Whitfill T
(3)
Abbani MA
(2)
Acton TB
(2)
Canalizo-Hernandez M
(2)
Elias-Arnanz M
(2)
Elías-Arnanz M
(2)
Heldwein EE
(2)
Kita A
(2)
Kobayashi K
(2)
Miki K
(2)
Montelione GT
(2)
Northeast Structural Genomics Consortium (NESG)
(2)
Padmanabhan S
(2)
Palani K
(2)
Philips SJ
(2)
Schatz GC
(2)
Swaminathan S
(2)
Watanabe S
(2)
Xiao R
(2)
Yildirim I
(2)
Zeng W
(2)
Zheleznova-Heldwein EE
(2)
Allan MG
(1)
Almo SC
(1)
Anderson WF
(1)
Baranova NN
(1)
Berntsson RP
(1)
Berntsson RP-A
(1)
Center for Structural Genomics of Infectious Diseases (CSGID)
(1)
Chen PY
(1)
Connolly KM
(1)
Corselli L
(1)
Cygler M
(1)
Drennan CL
(1)
Ekiel I
(1)
Everett J
(1)
Everett JK
(1)
Fernandez-Zapata J
(1)
Fernández-Zapata J
(1)
Funnell B
(1)
Godsey MH
(1)
Gonzalez C
(1)
González C
(1)
Grzesiek S
(1)
Gu M
(1)
Haggard-Ljungquist E
(1)
Haggård-Ljungquist E
(1)
Hamilton K
(1)
Hogbom M
(1)
Högbom M
(1)
Iwahara J
(1)
Janjua H
(1)
Jimenez M
(1)
Jimenez MA
(1)
Jiménez MA
(1)
Joachimiak A
(1)
Jost M
(1)
Kang G
(1)
Kleinhaus I
(1)
 
More...
 
Homo / hetero assembly  (2)
hetero
(29)
homo
(26)
 
Assembly composition  (3)
DNA/protein complex
(28)
protein structure
(26)
protein/protein complex
(1)
 
Assembly polymer count  (6)
tetramer
(25)
dimer
(17)
monomer
(8)
hexamer
(3)
pentamer
(1)
trimer
(1)
 
Resolution distribution
1.5 - 2
(9)
2.0 - 2.5
(12)
2.5 - 3
(23)
3.0 - 3.5
(5)
3.5 - 4
(1)
 
Release year distribution
2000 - 2005
(14)
2005 - 2010
(20)
2010 - 2015
(18)
2015 - 2020
(11)
 
Journal  (11)
Proc Natl Acad Sci U S A
(9)
Science
(8)
To be published
(8)
J Biol Chem
(7)
Nucleic Acids Res
(6)
EMBO J
(5)
J Mol Biol
(4)
Genes Dev
(3)
Nature
(3)
Eur J Biochem
(1)
Mol Microbiol
(1)
 
Macromolecules
Organism superkingdom  (2)
Bacteria
(48)
Viruses
(6)
 
Organism name  (22)
Bacillus subtilis
(15)
Escherichia coli
(9)
Escherichia virus Lambda
(4)
Bacillus subtilis subsp. subtilis str. 168
(3)
Escherichia coli K-12
(3)
Haemophilus influenzae Rd KW20
(3)
Priestia megaterium WSH-002
(2)
Salmonella enterica subsp. enterica serovar Newport str. SL317
(2)
Bacillus cereus ATCC 14579
(1)
Escherichia coli DH5[alpha]
(1)
Escherichia virus HK022
(1)
Escherichia virus P2
(1)
Klebsiella pneumoniae 342
(1)
Klebsiella pneumoniae subsp. pneumoniae MGH 78578
(1)
Listeria monocytogenes EGD-e
(1)
Listeria monocytogenes serotype 4b str. F2365
(1)
Myxococcus xanthus DK 1622
(1)
Streptomyces lividans
(1)
Synechococcus elongatus PCC 6301
(1)
Thermus thermophilus HB27
(1)
[Bacillus thuringiensis] serovar konkukian
(1)
synthetic construct
(1)
 
Molecule name  (28)
Multidrug-efflux transporter 1 regulator
(14)
Excisionase
(6)
Copper efflux regulator
(5)
Copper export regulator
(5)
HTH-type transcriptional regulator CueR
(5)
HTH merR-type domain-containing protein
(3)
HTH-type transcriptional regulator ZntR
(3)
Plasmid partition protein A
(3)
Transcriptional regulator, MerR family
(3)
Uncharacterized HTH-type transcriptional regulator HI_0186
(3)
Zn(II)-responsive regulator of zntA
(3)
Chromosome-anchoring protein RacA
(2)
HTH-type transcriptional activator mta
(2)
HTH-type transcriptional regulator TnrA
(2)
Multidrug transporter activation protein
(2)
ParA
(2)
Redox-sensitive transcriptional activator SoxR
(2)
TnrA
(2)
Transcriptional nitrogen regulatory protein A
(2)
B12 binding domain/transcriptional regulator, MerR family
(1)
Chaperone-modulator protein CbpM
(1)
DUF2237 domain-containing protein
(1)
HTH-type transcriptional activator TipA
(1)
HTH-type transcriptional regulator GlnR
(1)
Lmo0526 protein
(1)
Probable transcriptional regulator
(1)
Regulatory protein cox
(1)
Uncharacterized protein
(1)
 
Molecule type  (1)
Protein
(55)
 
Gene names  (40)
BSU24020
(14)
bmr1R
(14)
bmrR
(14)
JW0476
(5)
b0487
(5)
copR
(5)
cueR
(5)
xis
(5)
ybbI
(5)
HI_0186
(3)
JW3254
(3)
b3292
(3)
parA
(3)
yhdM
(3)
zntR
(3)
BMWSH_3277
(2)
BSU36600
(2)
BSU37030
(2)
JW4024
(2)
b4063
(2)
marC
(2)
mta
(2)
racA
(2)
soxR
(2)
tnrA
(2)
ywkC
(2)
ywnD
(2)
BC_0953
(1)
BSU17450
(1)
BT9727_1615
(1)
KPK_5158
(1)
KPN_01377
(1)
MXAN_0903
(1)
TT_P0056
(1)
cbpM
(1)
cox
(1)
glnR
(1)
lmo0526
(1)
syc0711_d
(1)
tipA
(1)
 
Interacting Molecules  (34)
23 bp promoter DNA
(3)
BMR promoter DNA
(3)
DNA (5'-D(*AP*CP*CP*CP*TP*CP*CP*CP*CP*TP*TP*AP*GP*GP*GP*GP*AP*GP*GP*GP*T)-3')
(2)
DNA (5'-D(*CP*GP*TP*GP*TP*AP*AP*GP*GP*AP*AP*TP*TP*CP*TP*GP*AP*CP*AP*CP*G)-3')
(2)
15-mer DNA
(1)
19-mer DNA
(1)
23 bp BmrR promoter DNA
(1)
23 bp promoter
(1)
26-MER
(1)
26-mer DNA segment containing the CarH operator sequence (antisense strand)
(1)
26-mer DNA segment containing the CarH operator sequence (sense strand)
(1)
34-mer DNA
(1)
5'-D(*AP*AP*AP*CP*AP*GP*AP*CP*TP*AP*CP*AP*TP*AP*AP*TP*AP*C)-3'
(1)
5'-D(*CP*TP*AP*TP*GP*TP*AP*GP*TP*CP*TP*GP*TP*TP*G)-3'
(1)
5'-D(*CP*TP*CP*CP*TP*CP*AP*CP*GP*TP *CP*AP*CP*GP*TP*GP*AP*GP*GP*TP*G)-3'
(1)
5'-D(*CP*TP*TP*AP*GP*AP*GP*TP*GP*CP*AP*CP*TP*CP*TP*AP*AP*G)-3'
(1)
5'-D(*GP*AP*CP*CP*CP*TP*CP*CP*CP*CP*TP*TP*AP*GP*GP*GP*GP*AP*GP*GP*GP*TP*C)-3'
(1)
5'-D(*GP*TP*AP*TP*TP*AP*TP*GP*TP*AP*GP*TP*CP*TP*GP*TP*TP*T)-3'
(1)
5'-D(P*CP*AP*AP*CP*AP*GP*AP*CP*TP*AP*CP*AP*TP*AP*G)-3'
(1)
BmrR promoter DNA
(1)
COPA PROMOTER DNA NON-TEMPLATE STRAND
(1)
COPA PROMOTER DNA NON-TEMPLATE STRAND (ALTERNATE CONFORMATION)
(1)
COPA PROMOTER DNA TEMPLATE STRAND
(1)
COPA PROMOTER DNA TEMPLATE STRAND (ALTERNATE CONFORMATION)
(1)
Curved DNA-binding protein
(1)
DNA (5'-D(*AP*TP*TP*CP*TP*GP*AP*CP*A)-3')
(1)
DNA (5'-D(*CP*TP*TP*AP*GP*AP*GP*TP*GP*AP*AP*CP*TP*CP*TP*AP*AP*G)-3')
(1)
DNA (5'-D(*CP*TP*TP*AP*GP*AP*GP*TP*TP*CP*AP*CP*TP*CP*TP*AP*AP*G)-3')
(1)
DNA (5'-D(*DGP*DCP*DCP*DTP*DCP*DAP*DAP*DGP*DTP*DTP*DAP*DAP*DCP*DTP*DTP*DGP*DAP*DGP*DGP*DC)-3')
(1)
DNA (5'-D(*TP*GP*AP*CP*GP*CP*CP*GP*GP*CP*GP*TP*CP*A)-3')
(1)
DNA (5'-D(*TP*GP*TP*CP*AP*GP*TP*A)-3')
(1)
DNA NON-TEMPLATE STRAND (5-D(*DGP*DAP*DCP*DCP *DTP*DTP*DCP*DCP*DCP*DCP*DTP*DTP*DGP*DCP*DTP*DGP*DGP*DAP *DAP*DGP*DGP*DTP*DC)-3
(1)
DNA TEMPLATE STRAND (5-D(*DGP*DAP*DCP*DCP*DTP *DTP*DCP*DCP*DAP*DGP*DCP*DAP*DAP*DGP*DGP*DGP*DGP*DAP*DAP *DGP*DGP*DTP*DC)-3
(1)
Multidrug-efflux transporter 1 regulator
(1)
 
Interacting ligands  (31)
GOL : GLYCEROL
(10)
ZN : ZINC ION
(6)
SO4 : SULFATE ION
(4)
IMD : IMIDAZOLE
(3)
MG : MAGNESIUM ION
(3)
ADP : ADENOSINE-5'-DIPHOSPHATE
(2)
AG : SILVER ION
(2)
DTT : 2,3-DIHYDROXY-1,4-DITHIOBUTANE
(2)
FES : FE2/S2 (INORGANIC) CLUSTER
(2)
P4P : TETRAPHENYLPHOSPHONIUM
(2)
118 : TETRAPHENYLANTIMONIUM ION
(1)
5AD : 5'-DEOXYADENOSINE
(1)
ACH : ACETYLCHOLINE
(1)
AU : GOLD ION
(1)
B12 : COBALAMIN
(1)
BER : BERBERINE
(1)
CU1 : COPPER (I) ION
(1)
CXS : 3-CYCLOHEXYL-1-PROPYLSULFONIC ACID
(1)
EPE : 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
(1)
ET : ETHIDIUM
(1)
ETF : TRIFLUOROETHANOL
(1)
FLC : CITRATE ANION
(1)
KAN : KANAMYCIN A
(1)
M4A : 2-methylquinolin-4-amine
(1)
MED : D-METHIONINE
(1)
NA : SODIUM ION
(1)
PGO : S-1,2-PROPANEDIOL
(1)
PO4 : PHOSPHATE ION
(1)
PUY : PUROMYCIN
(1)
RHQ : RHODAMINE 6G
(1)
TAC : TETRACYCLINE
(1)
 
Function and Biology
Biological function  (12)
DNA binding
(47)
DNA-binding transcription factor activity
(38)
identical protein binding
(9)
metal ion binding
(8)
DNA-binding transcription activator activity
(5)
cis-regulatory region sequence-specific DNA binding
(5)
copper ion binding
(5)
transcription cis-regulatory region binding
(5)
2 iron, 2 sulfur cluster binding
(2)
iron-sulfur cluster binding
(2)
cobalamin binding
(1)
protein binding
(1)
 
Biological process  (7)
regulation of DNA-templated transcription
(41)
DNA recombination
(5)
DNA-templated transcription
(5)
positive regulation of DNA-templated transcription
(5)
plasmid partitioning
(3)
response to oxidative stress
(2)
provirus excision
(1)
 
Biological cell component  (2)
cytoplasm
(7)
protein-DNA complex
(5)
 
Sequence and Structure classification
SCOP fold  (2)
Putative DNA-binding domain
(20)
Probable bacterial effector-binding domain
(7)
 
SCOP family  (3)
DNA-binding N-terminal domain of transcription activators
(15)
Multidrug-binding domain of transcription activator BmrR
(7)
Excisionase-like
(5)
 
CATH class  (3)
Mainly Alpha
(54)
Alpha Beta
(20)
Special
(2)
 
CATH topology  (5)
Multidrug-efflux Transporter Regulator; Chain: A; Domain 2
(55)
Single alpha-helices involved in coiled-coils or other helix-helix interfaces
(15)
Multidrug-efflux Transporter 1 Regulator Bmrr; Chain A
(14)
Rossmann fold
(6)
Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1
(1)
 
Pfam accession / name  (13)
PF00376 : MerR
(29)
PF06445 : GyrI-like
(14)
PF09278 : MerR-DNA-bind
(12)
PF13411 : MerR_1
(8)
PF07825 : Exc
(5)
PF13614 : AAA_31
(3)
PF18607 : HTH_54
(3)
PF02607 : B12-binding_2
(1)
PF06806 : DUF1233
(1)
PF07739 : TipAS
(1)
PF09996 : DUF2237
(1)
PF10743 : Phage_Cox
(1)
PF13591 : MerR_2
(1)
 
Experimental Information
Diffraction protocol  (2)
Single wavelength
(52)
MAD
(1)
 
Diffraction radiation source type  (2)
Synchrotron
(46)
Rotating anode
(4)
 
Diffraction source  (24)
ALS BEAMLINE 8.2.1
(7)
ALS BEAMLINE 8.3.1
(6)
SSRL BEAMLINE BL9-2
(6)
SSRL BEAMLINE BL9-1
(5)
APS BEAMLINE 5ID-B
(3)
APS BEAMLINE 21-ID-D
(2)
AUSTRALIAN SYNCHROTRON BEAMLINE MX2
(2)
NSLS BEAMLINE X29A
(2)
RIGAKU RU300
(2)
SLS BEAMLINE X06SA
(2)
ALS BEAMLINE 5.0.3
(1)
ALS BEAMLINE 8.2.2
(1)
APS BEAMLINE 19-ID
(1)
APS BEAMLINE 24-ID-C
(1)
CLSI BEAMLINE 08ID-1
(1)
ESRF BEAMLINE ID23-1
(1)
NSLS BEAMLINE X12C
(1)
NSLS BEAMLINE X8C
(1)
PHOTON FACTORY BEAMLINE AR-NW12A
(1)
RIGAKU FR-E+ SUPERBRIGHT
(1)
RIGAKU RU200
(1)
SPRING-8 BEAMLINE BL44B2
(1)
SSRL BEAMLINE BL11-1
(1)
SSRL BEAMLINE BL7-1
(1)
 
Synchrotron site  (10)
ALS
(15)
SSRL
(13)
APS
(7)
NSLS
(4)
Australian Synchrotron
(2)
SLS
(2)
CLSI
(1)
ESRF
(1)
Photon Factory
(1)
SPring-8
(1)
 
Diffraction detector type  (3)
CCD
(41)
Image plate
(8)
Pixel
(2)
 
Refinement software  (5)
CNS
(29)
REFMAC
(12)
PHENIX
(7)
BUSTER
(2)
TNT
(2)
 
NMR
NMR software packages  (22)
CYANA
(3)
AutoAssign
(2)
AutoStructure
(2)
CNS
(2)
NMRPipe
(2)
VnmrJ
(2)
XEASY
(2)
XwinNMR
(2)
AURELIA
(1)
CARA
(1)
DYANA
(1)
Discover
(1)
Felix
(1)
MOLMOL
(1)
NMRView
(1)
PINE
(1)
PROCHECK / PROCHECK-NMR
(1)
PROSA
(1)
PSVS
(1)
TALOS+
(1)
TopSpin
(1)
X-PLOR
(1)
 
NMR Field Strength
400.0 - 500
(2)
500.0 - 600
(5)
600.0 - 700
(5)
700.0 - 800
(2)
800.0 - 900
(1)
 
Representative Structures
Representative Structures
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Entries 1 to 10 of 55
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Complete dissection of B. subtilis nitrogen homeostatic circuitry
Schumacher MA
Genes Dev (2015) [PMID: 25691471  ]
Assembly composition: DNA/protein complex
Assembly name: HTH-type transcriptional regulator TnrA and DNA (Preferred)   search this complex
PDBe complex ID: PDB-CPX-118055 (Preferred)   search this ID
PDBe-KB: G2RUZ1   
X-ray diffraction
2.25Å resolution
Released: 4 Mar 2015
Model geometry
Fit model/data
4r24
4r24
4r24
Crystal structure of the metal-free (repressor) form of E. Coli CUER, a copper efflux regulator, bound to COPA promoter DNA
Philips SJ, Canalizo-Hernandez M, Mondragon A, O'Halloran TV
Science (2015) [PMID: 26293965  ]
Assembly composition: DNA/protein complex
Modified residues: MSE    MSE   
Assembly name: HTH-type transcriptional regulator CueR and DNA (Preferred)   search this complex
PDBe complex ID: PDB-CPX-118226 (Preferred)   search this ID
PDBe-KB: P0A9G4   
X-ray diffraction
2.105Å resolution
Released: 2 Sep 2015
Model geometry
Fit model/data
4wls
4wls
4wls
The N-terminal domain of MerR-like protein TipAL bound to promoter DNA
Allan MG, Stetefeld J, Schirmer T
To be published
Source organism: Streptomyces lividans  
Assembly composition: DNA/protein complex
Assembly name: HTH-type transcriptional activator TipA and DNA (Preferred)   search this complex
PDBe complex ID: PDB-CPX-115891 (Preferred)   search this ID
PDBe-KB: P0A4T9   
X-ray diffraction
2.9Å resolution
Released: 17 Nov 2009
Model geometry
Fit model/data
2vz4
2vz4
2vz4
Crystal structure of the complex between CBPA J-domain and CBPM
Shi R, Sarraf NS, Cygler M, Ekiel I, Montreal-Kingston Bacterial Structural Genomics Initiative (BSGI)
To be published
Assembly composition: protein/protein complex
Assembly name: Curved DNA-binding protein and Chaperone-modulator protein CbpM (Preferred)   search this complex
PDBe complex ID: PDB-CPX-110270 (Preferred)   search this ID
PDBe-KB: B5Y388    P36659   
X-ray diffraction
1.87Å resolution
Released: 3 Jul 2013
Model geometry
Fit model/data
3ucs
3ucs
3ucs
TnrA-DNA complex
Schumacher MA
Genes Dev (2015) [PMID: 25691471  ]
Assembly composition: DNA/protein complex
Assembly name: HTH-type transcriptional regulator TnrA and DNA (Preferred)   search this complex
PDBe complex ID: PDB-CPX-118054 (Preferred)   search this ID
PDBe-KB: G2RUZ1   
X-ray diffraction
2.6Å resolution
Released: 4 Mar 2015
Model geometry
Fit model/data
4r22
4r22
4r22
Structure of GlnR-DNA complex
Schumacher MA
Genes Dev (2015) [PMID: 25691471  ]
Assembly composition: DNA/protein complex
Bound ligands: CXS   
Assembly name: HTH-type transcriptional regulator GlnR and DNA (Preferred)   search this complex
PDBe complex ID: PDB-CPX-118071 (Preferred)   search this ID
PDBe-KB: P37582   
X-ray diffraction
2.57Å resolution
Released: 4 Mar 2015
Model geometry
Fit model/data
4r4e
4r4e
4r4e
CRYSTAL STRUCTURE OF THE AG(I) (ACTIVATOR) FORM OF E. COLI CUER, A COPPER EFFLUX REGULATOR, BOUND TO COPA PROMOTER DNA
Philips SJ, Canalizo-Hernandez M, Mondragon A, O'Halloran TV
Science (2015) [PMID: 26293965  ]
Assembly composition: DNA/protein complex
Bound ligands: AG    AG   
Modified residues: MSE    MSE   
Assembly name: HTH-type transcriptional regulator CueR and DNA (Preferred)   search this complex
PDBe complex ID: PDB-CPX-118227 (Preferred)   search this ID
PDBe-KB: P0A9G4   
X-ray diffraction
2.8Å resolution
Released: 2 Sep 2015
Model geometry
Fit model/data
4wlw
4wlw
4wlw
Crystal structure of HiNmlR, a MerR family regulator lacking the sensor domain, bound to palyndromic promoter DNA
Counago RM, Chang CW, Chen NH, Djoko KY, McEwan AG, Kobe B
Nucleic Acids Res (2016) [PMID: 27307602  ]
Assembly composition: DNA/protein complex
Assembly name: Uncharacterized HTH-type transcriptional regulator HI_0186 and DNA (Preferred)   search this complex
PDBe complex ID: PDB-CPX-118600 (Preferred)   search this ID
PDBe-KB: P44558   
X-ray diffraction
2.3Å resolution
Released: 29 Jun 2016
Model geometry
Fit model/data
5e01
5e01
5e01
Crystal structure of HiNmlR, a MerR family regulator lacking the sensor domain, bound to promoter DNA
Counago RM, Chang CW, Kobe B
Nucleic Acids Res (2016) [PMID: 27307602  ]
Assembly composition: protein only structure
Modified residues: MSE    MSE   
Assembly name: Uncharacterized HTH-type transcriptional regulator HI_0186 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-155187 (Preferred)   search this ID
PDBe-KB: P44558   
X-ray diffraction
2.3Å resolution
Released: 29 Jun 2016
Model geometry
Fit model/data
5d90
5d90
5d90
Crystal structure of HiNmlR, a MerR family regulator lacking the sensor domain, bound to promoter DNA
Counago RM, Chang CW, Chen NH, Djoko KY, McEwan AG, Kobe B
Nucleic Acids Res (2016) [PMID: 27307602  ]
Assembly composition: DNA/protein complex
Assembly name: Uncharacterized HTH-type transcriptional regulator HI_0186 and DNA (Preferred)   search this complex
PDBe complex ID: PDB-CPX-118543 (Preferred)   search this ID
PDBe-KB: P44558   
X-ray diffraction
2.25Å resolution
Released: 29 Jun 2016
Model geometry
Fit model/data
5d8c
5d8c
5d8c
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Entries 1 to 10 of 55
Entries 1 to 10 of 55