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Rule : Nickel-responsive transcriptional regulator NikR (NIKR)

Rule Description

ID NRULE_0331
Rule name NIKR
Created 2014-10-09
Protein name
Protein name
Full
Nickel-responsive transcriptional regulator NikR
Gene name nikR
Rule Trigger HAMAP; MF_00476; hit=1
Cross Reference
Gene Ontology
GO
GO:0003677, F:DNA binding, IDA:EcoCyc
GO:0016151, F:nickel cation binding, TAS:EcoCyc
GO:0003700, F:sequence-specific DNA binding transcription factor activity, IEA:UniProtKB-HAMAP
GO:0006355, P:regulation of transcription, DNA-templated, IMP:EcoCyc
GO:0010045, P:response to nickel cation, IEA:InterPro
GO:0006351, P:transcription, DNA-templated, IEA:UniProtKB-KW
Phylogenomic databases
eggNOG
COG0864, -
HOGENOM
HOG000102781, -
KO
K07722, -
Family and domain databases
HAMAP
MF_00476, NikR, 1
InterPro
IPR013321, Arc_rbn_hlx_hlx
IPR002145, CopG
IPR022988, Ni_resp_reg_NikR
IPR014160, Nickel_NikR_proteobac
IPR010985, Ribbon_hlx_hlx
IPR014864, TF_NikR_Ni-bd_C
Pfam
PF08753, NikR_C, 1
PF01402, RHH_1, 1
TIGRFAMs
TIGR02793, nikR, 1
Feature
P0A6Z6 Escherichia coli (strain K12).
METAL76Nickel.
METAL87Nickel.
METAL89Nickel.
METAL95Nickel.
General annotation
Function
Transcriptional repressor of the nik operon (encodes nickel ion transporter). Is active in the presence of excessive concentrations of intracellular nickel
Cofactor
Binds 1 nickel ion per subunit
Subunit structure
Homotetramer
Sequence similarities
Belongs to the transcriptional regulatory CopG/NikR family
Reference
P0A6Z6 Escherichia coli (strain K12).
9882686
Isolation and characterization of the nikR gene encoding a nickel-responsive regulator in Escherichia coli. (J Bacteriol. 1999)
10787413
Regulation of high affinity nickel uptake in bacteria. Ni2+-Dependent interaction of NikR with wild-type and mutant operator sites. (J Biol Chem. 2000)
12970756
Crystal structure of the nickel-responsive transcription factor NikR. (Nat Struct Biol. 2003)



Related Function

Function name
Metal-binding protein

CDS

Data Download
Scientific name NBRC No. CDS Product name
Acetobacter aceti14818AaceN1_010100011743CopG family transcriptional regulator
Acetobacter pasteurianus105190APA32_13960Transcriptional regulator CopG
Acetobacter pasteurianus101655APT_1341transcriptional regulator CopG
Archaeoglobus profundus100127Arcpr_0927transcriptional regulator NikR, CopG family
Bergeyella zoohelcum16014HMPREF9699_01683nickel-responsive transcriptional regulator NikR
Bradyrhizobium diazoefficiens14792bll0699nickel responsive regulator
Caldanaerobacter subterraneus subsp. tengcongensis100824TTE0250predicted Transcriptional regulator containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain
Candidatus Korarchaeum cryptofilumKcr_1107putative transcriptional regulator, CopG family
Candidatus Solibacter usitatusAcid_6713transcriptional regulator, CopG family
Chlorobaculum tepidum103806CT0472conserved hypothetical protein
Chlorobium limicola103803Clim_2003putative transcriptional regulator, CopG family
Coraliomargarita akajimensisCaka_2078transcriptional regulator NikR, CopG family
Deferribacter desulfuricans101012DEFDS_1941nickel responsive regulator
Desulfovibrio magneticus104933DMR_31750NikR family transcriptional regulator
Desulfovibrio vulgaris subsp. vulgaris104121DVU_2891nickel responsive regulator
Dictyoglomus turgidumDtur_1768putative transcriptional regulator, CopG family
Edwardsiella tarda105688ET1_14_02460nik operon transcriptional repressor
Enterobacter aerogenes13534EAE_05740nickel responsive regulator
Escherichia coli3972EcolC_0235putative transcriptional regulator, CopG family
Escherichia coli13500WFL_18280nickel responsive regulator
Escherichia coli12713Y75_3741DNA-binding transcriptional regulator, Ni-binding
Escherichia fergusonii102419EFER_3468DNA-binding transcriptional repressor, Ni-binding
Escherichia hermannii105704EH105704_06_01910nickel-responsive regulator
Gemmata obscuriglobusGEMOB_RS41295nickel-responsive regulator
Haloarcula vallismortis14741C437_02717CopG family transcriptional regulator
C437_03246nickel responsive regulator
Halobacterium sp.VNG_0147Cconserved hypothetical protein
Holophaga foetidaHOLFODRAFT_RS0205800NAD+ synthetase
Klebsiella pneumoniae14438KPR_5062
Klebsiella pneumoniae subsp. rhinoscleromatis105682HMPREF0484_0812nickel-responsive transcriptional regulator NikR
Methanocaldococcus jannaschii100440MJ_0549conserved hypothetical protein
Methanocella paludicola101707MCP_1072putative nickel-responsive regulator
MCP_1074putative nickel-responsive regulator
Methanococcus maripaludis101832MMP0020conserved hypothetical protein
Methanococcus maripaludisMmarC5_1664transcriptional regulator, CopG family
Methanopyrus kandleriMK1502Predicted transcriptional regulator containing the CopG/Arc/MetJ DNA-binding domain and a 3H domain
Methylobacterium radiotolerans15690Mrad2831_4064putative transcriptional regulator, CopG family
Mrad2831_6071putative transcriptional regulator, CopG family
Nitrososphaera viennensisNVIE_014970putative nickel-responsive regulator
Pelobacter propionicus103807Ppro_2090transcriptional regulator, CopG family
Pseudomonas putida100650PP_3341conserved hypothetical protein
Pyrococcus horikoshii100139PH0601nickel responsive regulator
Rhizobium tropici15247RTCIAT899_PC07025nickel-responsive transcriptional regulator NikR
Shimwellia blattae105725EB105725_23_00130nickel-responsive regulator
Sphingobium japonicum101211SJA_C2-01360CopG-family transcriptional regulator
Sphingomonas echinoides15742SechA1_010100013956NAD+ synthetase
Thermococcus sp.GQS_04445nickel responsive regulator
Thermodesulfobacterium communeHL41_03370nickel-responsive regulator