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Protein

Nickel-responsive regulator

Gene

nikR

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Transcriptional repressor of the nikABCDE operon. Is active in the presence of excessive concentrations of intracellular nickel.

Cofactori

Ni2+Note: Binds 1 nickel ion per subunit.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi76Nickel1
Metal bindingi87Nickel1
Metal bindingi89Nickel1
Metal bindingi95Nickel1

GO - Molecular functioni

  • bacterial-type RNA polymerase transcriptional repressor activity, sequence-specific DNA binding Source: CollecTF
  • DNA binding Source: EcoCyc
  • nickel cation binding Source: EcoCyc
  • sequence-specific DNA binding Source: CollecTF
  • transcription regulatory region sequence-specific DNA binding Source: CollecTF

GO - Biological processi

  • regulation of transcription, DNA-templated Source: EcoCyc
  • response to nickel cation Source: InterPro
  • transcription, DNA-templated Source: UniProtKB-KW

Keywordsi

Molecular functionDNA-binding, Repressor
Biological processTranscription, Transcription regulation
LigandMetal-binding, Nickel

Enzyme and pathway databases

BioCyciEcoCyc:EG11519-MONOMER

Names & Taxonomyi

Protein namesi
Recommended name:
Nickel-responsive regulator
Gene namesi
Name:nikR
Synonyms:yhhG
Ordered Locus Names:b3481, JW3446
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG11519 nikR

Subcellular locationi

GO - Cellular componenti

  • protein-DNA complex Source: CollecTF

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi3R → A: Loss of DNA-binding. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001392741 – 133Nickel-responsive regulatorAdd BLAST133

Proteomic databases

PaxDbiP0A6Z6
PRIDEiP0A6Z6

Expressioni

Gene expression databases

CollecTFiEXPREG_00000790

Interactioni

Subunit structurei

Homotetramer.

Binary interactionsi

Show more details

Protein-protein interaction databases

BioGridi4262509, 16 interactors
DIPiDIP-48066N
IntActiP0A6Z6, 15 interactors
STRINGi316385.ECDH10B_3655

Structurei

Secondary structure

1133
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi2 – 8Combined sources7
Helixi10 – 22Combined sources13
Helixi28 – 45Combined sources18
Beta strandi46 – 49Combined sources4
Beta strandi51 – 61Combined sources11
Helixi65 – 77Combined sources13
Helixi79 – 81Combined sources3
Beta strandi82 – 89Combined sources8
Beta strandi91 – 104Combined sources14
Helixi105 – 116Combined sources12
Beta strandi118 – 120Combined sources3
Beta strandi122 – 130Combined sources9

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1Q5VX-ray2.30A/B/C/D1-133[»]
1Q5YX-ray1.40A/B/C/D49-133[»]
2HZAX-ray2.10A/B1-133[»]
2HZVX-ray3.10A/B/C/D/E/F/G/H1-133[»]
3BKFX-ray1.90A48-133[»]
3BKTX-ray1.50A/B/C/D48-133[»]
3BKUX-ray2.10A/B/C/D48-133[»]
3OD2X-ray2.60A/B1-133[»]
ProteinModelPortaliP0A6Z6
SMRiP0A6Z6
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP0A6Z6

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiENOG4105MRR Bacteria
COG0864 LUCA
HOGENOMiHOG000102781
InParanoidiP0A6Z6
KOiK07722
OMAiHLDHDNC
PhylomeDBiP0A6Z6

Family and domain databases

Gene3Di1.10.1220.10, 1 hit
3.30.70.1150, 1 hit
HAMAPiMF_00476 NikR, 1 hit
InterProiView protein in InterPro
IPR027271 Acetolactate_synth/TF_NikR_C
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
PfamiView protein in Pfam
PF08753 NikR_C, 1 hit
PF01402 RHH_1, 1 hit
SUPFAMiSSF47598 SSF47598, 1 hit
TIGRFAMsiTIGR02793 nikR, 1 hit

Sequencei

Sequence statusi: Complete.

P0A6Z6-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MQRVTITLDD DLLETLDSLS QRRGYNNRSE AIRDILRSAL AQEATQQHGT
60 70 80 90 100
QGFAVLSYVY EHEKRDLASR IVSTQHHHHD LSVATLHVHI NHDDCLEIAV
110 120 130
LKGDMGDVQH FADDVIAQRG VRHGHLQCLP KED
Length:133
Mass (Da):15,094
Last modified:June 7, 2005 - v1
Checksum:i9A9E9F838D3FFEF1
GO

Sequence cautioni

The sequence BAA04676 differs from that shown. Reason: Erroneous initiation.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti131 – 132KE → EGRLSLLLGPLVN in BAA04676 (PubMed:7764507).Curated2

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Y08952 Genomic DNA Translation: CAA70150.1
L02370 Genomic DNA Translation: AAC61882.1
U00039 Genomic DNA Translation: AAB18456.1
U00096 Genomic DNA Translation: AAC76506.1
AP009048 Genomic DNA Translation: BAE77812.1
D21140 Genomic DNA Translation: BAA04676.1 Different initiation.
PIRiS47700
RefSeqiNP_417938.1, NC_000913.3
WP_001190062.1, NZ_LN832404.1

Genome annotation databases

EnsemblBacteriaiAAC76506; AAC76506; b3481
BAE77812; BAE77812; BAE77812
GeneIDi947995
KEGGiecj:JW3446
eco:b3481
PATRICifig|1411691.4.peg.3244

Similar proteinsi

Entry informationi

Entry nameiNIKR_ECOLI
AccessioniPrimary (citable) accession number: P0A6Z6
Secondary accession number(s): P28910, Q2M7E4, Q47559
Entry historyiIntegrated into UniProtKB/Swiss-Prot: June 7, 2005
Last sequence update: June 7, 2005
Last modified: April 25, 2018
This is version 110 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families

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