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nikA Ni(2(+)) ABC transporter periplasmic binding protein [ Escherichia coli str. K-12 substr. MG1655 ]

Gene ID: 947981, updated on 19-Sep-2024

Summary

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Official Symbol
nikA
Official Full Name
Ni(2(+)) ABC transporter periplasmic binding protein
Primary source
ECOCYC:EG12075
Locus tag
b3476
See related
ASAP:ABE-0011354
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Escherichia coli str. K-12 substr. MG1655 (strain: K-12, substrain: MG1655)
Lineage
Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Escherichia
Also known as
ECK3460; hydC; hydD
Summary
NikA binds hemin and protoporphyrin IX (Shepherd, 2007). [More information is available at EcoGene: EG12075]. NikA is the periplasmic binding component of the nickel ABC transporter in Escherichia coli. [More information is available at EcoCyc: EG12075].
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Genomic context

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Sequence:
NC_000913.3 (3613667..3615241)

NC_000913.3Genomic Context describing neighboring genes Neighboring gene putative transporter YhhT Neighboring gene holo-[acyl carrier protein] synthase 2 Neighboring gene Ni(2(+)) ABC transporter membrane subunit NikB Neighboring gene Ni(2(+)) ABC transporter membrane subunit NikC Neighboring gene Ni(2(+)) ABC transporter ATP binding subunit NikD Neighboring gene Ni(2(+)) ABC transporter ATP binding subunit NikE

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_000913.3

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Nickel binding to NikA: an additional binding site reconciles spectroscopy, calorimetry and crystallography. Addy C, et al. Acta Crystallogr D Biol Crystallogr, 2007 Feb. PMID 17242515
  2. Crystal structures of the liganded and unliganded nickel-binding protein NikA from Escherichia coli. Heddle J, et al. J Biol Chem, 2003 Dec 12. PMID 12960164
  3. Backbone 1H, 13C, and 15N assignments of a 56 kDa E. coli nickel binding protein NikA. Rajesh S, et al. J Biomol NMR, 2005 Jun. PMID 16034673
  4. Specific binding of the NikA protein to one arm of 17-base-pair inverted repeat sequences within the oriT region of plasmid R64. Furuya N, et al. J Bacteriol, 1995 Jan. PMID 7798148, Free PMC Article
  5. Nickel deficiency gives rise to the defective hydrogenase phenotype of hydC and fnr mutants in Escherichia coli. Wu LF, et al. Mol Microbiol, 1989 Dec. PMID 2695744

See all (34) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Six "NikA/iron complex" hybrids have been characterized by X-ray crystallography, and their interactions and solution properties have been studied.
    Title: The structure of the periplasmic nickel-binding protein NikA provides insights for artificial metalloenzyme design.
  2. crystal structure of the H416I NikA mutant; results confirm the essential role of His416 in nickel transport by NikA
    Title: Histidine 416 of the periplasmic binding protein NikA is essential for nickel uptake in Escherichia coli.
  3. the NikA ribbon-helix-helix domain has a role in initiating bacterial conjugation
    Title: Structural basis of the role of the NikA ribbon-helix-helix domain in initiating bacterial conjugation.
  4. N-terminus verified by Edman degradation on mature peptide
    Title: Purification and characterization of the periplasmic nickel-binding protein NikA of Escherichia coli K12.
  5. The crystal structure of a binding-site mutant with nickel bound has been solved and it is found that nickel is bound to two histidine residues at a position distant from the previously characterized binding site
    Title: Nickel binding to NikA: an additional binding site reconciles spectroscopy, calorimetry and crystallography.
Submit: New GeneRIF Correction

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Homology

Gene Ontology Provided by EcoCyc

Function Evidence Code Pubs
enables heme binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables heme binding IEA
Inferred from Electronic Annotation
more info
  
enables metal cluster binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables nickel cation binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables nickel cation binding IEA
Inferred from Electronic Annotation
more info
  
enables peptide transmembrane transporter activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables transition metal ion binding IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
involved_in negative chemotaxis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in nickel cation import across plasma membrane NAS
Non-traceable Author Statement
more info
 PubMed 
involved_in nickel cation transport IEA
Inferred from Electronic Annotation
more info
  
involved_in nickel cation transport ISS
Inferred from Sequence or Structural Similarity
more info
 PubMed 
involved_in peptide transport IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in transmembrane transport IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
part_of ATP-binding cassette (ABC) transporter complex IEA
Inferred from Electronic Annotation
more info
  
part_of ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing NAS
Non-traceable Author Statement
more info
 PubMed 
located_in membrane NAS
Non-traceable Author Statement
more info
 PubMed 
is_active_in outer membrane-bounded periplasmic space IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in outer membrane-bounded periplasmic space IDA
Inferred from Direct Assay
more info
 PubMed 
located_in outer membrane-bounded periplasmic space IEA
Inferred from Electronic Annotation
more info
  
located_in outer membrane-bounded periplasmic space ISM
Inferred from Sequence Model
more info
 PubMed 
located_in periplasmic space IDA
Inferred from Direct Assay
more info
 PubMed 
located_in periplasmic space IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
Ni(2(+)) ABC transporter periplasmic binding protein

NCBI Reference Sequences (RefSeq)

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Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

  1. NC_000913.3 Reference assembly

    Range
    3613667..3615241
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NP_417933.1 Ni(2(+)) ABC transporter periplasmic binding protein [Escherichia coli str. K-12 substr. MG1655]

    See identical proteins and their annotated locations for NP_417933.1

    Status: PROVISIONAL

    UniProtKB/TrEMBL
    A0A6N8NF58
    Conserved Domains (1) summary
    TIGR02294
    Location:21 → 520
    nickel_nikA; nickel ABC transporter, nickel/metallophore periplasmic binding protein
Nucleotide Protein
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