Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

Nickel-binding periplasmic protein

Gene

nikA

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Involved in a nickel transport system, probably represents the nickel binder.

GO - Molecular functioni

  1. heme binding Source: EcoliWiki
  2. nickel cation binding Source: EcoliWiki
  3. transition metal ion binding Source: EcoliWiki

GO - Biological processi

  1. negative chemotaxis Source: EcoliWiki
  2. nickel cation transport Source: InterPro
Complete GO annotation...

Keywords - Biological processi

Transport

Keywords - Ligandi

Nickel

Enzyme and pathway databases

BioCyciEcoCyc:NIKA-MONOMER.
ECOL316407:JW3441-MONOMER.
MetaCyc:NIKA-MONOMER.

Protein family/group databases

TCDBi3.A.1.5.3. the atp-binding cassette (abc) superfamily.

Names & Taxonomyi

Protein namesi
Recommended name:
Nickel-binding periplasmic protein
Gene namesi
Name:nikA
Ordered Locus Names:b3476, JW3441
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
ProteomesiUP000000318 Componenti: Chromosome UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG12075. nikA.

Subcellular locationi

Periplasm Curated

GO - Cellular componenti

  1. periplasmic space Source: EcoliWiki
Complete GO annotation...

Keywords - Cellular componenti

Periplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 2222Add
BLAST
Chaini23 – 524502Nickel-binding periplasmic proteinPRO_0000031800Add
BLAST

Proteomic databases

PaxDbiP33590.
PRIDEiP33590.

Expressioni

Gene expression databases

GenevestigatoriP33590.

Interactioni

Protein-protein interaction databases

DIPiDIP-10340N.
IntActiP33590. 1 interaction.
MINTiMINT-1272849.
STRINGi511145.b3476.

Structurei

Secondary structure

1
524
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi27 – 348Combined sources
Helixi46 – 483Combined sources
Helixi49 – 557Combined sources
Beta strandi59 – 624Combined sources
Beta strandi68 – 7811Combined sources
Beta strandi80 – 823Combined sources
Beta strandi84 – 896Combined sources
Beta strandi96 – 983Combined sources
Helixi103 – 11412Combined sources
Helixi115 – 1206Combined sources
Helixi124 – 1285Combined sources
Beta strandi129 – 1346Combined sources
Beta strandi136 – 14611Combined sources
Helixi151 – 1555Combined sources
Beta strandi157 – 1615Combined sources
Helixi166 – 1683Combined sources
Beta strandi170 – 1723Combined sources
Beta strandi173 – 1808Combined sources
Beta strandi184 – 19310Combined sources
Turni194 – 1963Combined sources
Beta strandi197 – 2026Combined sources
Beta strandi215 – 2206Combined sources
Helixi224 – 23310Combined sources
Beta strandi238 – 2425Combined sources
Turni243 – 2453Combined sources
Helixi248 – 2569Combined sources
Beta strandi260 – 2645Combined sources
Beta strandi270 – 2756Combined sources
Turni280 – 2834Combined sources
Helixi285 – 29410Combined sources
Helixi297 – 3048Combined sources
Turni305 – 3073Combined sources
Beta strandi309 – 3113Combined sources
Beta strandi313 – 3164Combined sources
Helixi334 – 34310Combined sources
Beta strandi363 – 3697Combined sources
Helixi373 – 38715Combined sources
Turni388 – 3903Combined sources
Beta strandi392 – 3987Combined sources
Helixi400 – 40910Combined sources
Beta strandi413 – 4186Combined sources
Turni422 – 4265Combined sources
Helixi427 – 4337Combined sources
Beta strandi435 – 4384Combined sources
Helixi439 – 4435Combined sources
Turni444 – 4463Combined sources
Helixi450 – 46213Combined sources
Helixi466 – 48217Combined sources
Beta strandi486 – 4916Combined sources
Beta strandi495 – 4984Combined sources
Helixi500 – 5023Combined sources
Helixi516 – 5183Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1UIUX-ray1.85A/B23-524[»]
1UIVX-ray1.95A/B23-524[»]
1ZLQX-ray1.80A/B23-524[»]
2NOOX-ray1.65A23-524[»]
3DP8X-ray2.50A/B/C23-524[»]
3E3KX-ray2.80A/B/C23-524[»]
3MVWX-ray1.79A/B23-524[»]
3MVXX-ray1.70A/B23-524[»]
3MVYX-ray2.50A/B23-524[»]
3MVZX-ray1.70A/B23-524[»]
3MW0X-ray2.30A/B23-524[»]
3MZ9X-ray1.80A/B23-524[»]
3MZBX-ray1.70A/B23-523[»]
3QIMX-ray2.10A/B23-524[»]
4DCXX-ray2.00A/B23-524[»]
4DCYX-ray2.00A/B23-524[»]
4I8CX-ray2.50A/B/C23-524[»]
4I9DX-ray1.70A/B23-524[»]
ProteinModelPortaliP33590.
SMRiP33590. Positions 25-522.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP33590.

Family & Domainsi

Sequence similaritiesi

Keywords - Domaini

Signal

Phylogenomic databases

eggNOGiCOG0747.
HOGENOMiHOG000125740.
InParanoidiP33590.
KOiK15584.
OMAiGKNQINI.
OrthoDBiEOG6KHFZ2.
PhylomeDBiP33590.

Family and domain databases

InterProiIPR011980. NikA_ABC_Ni-bd.
IPR000914. SBP_5.
IPR023765. SBP_5_CS.
[Graphical view]
PfamiPF00496. SBP_bac_5. 1 hit.
[Graphical view]
TIGRFAMsiTIGR02294. nickel_nikA. 1 hit.
PROSITEiPS01040. SBP_BACTERIAL_5. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P33590-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MLSTLRRTLF ALLACASFIV HAAAPDEITT AWPVNVGPLN PHLYTPNQMF
60 70 80 90 100
AQSMVYEPLV KYQADGSVIP WLAKSWTHSE DGKTWTFTLR DDVKFSNGEP
110 120 130 140 150
FDAEAAAENF RAVLDNRQRH AWLELANQIV DVKALSKTEL QITLKSAYYP
160 170 180 190 200
FLQELALPRP FRFIAPSQFK NHETMNGIKA PIGTGPWILQ ESKLNQYDVF
210 220 230 240 250
VRNENYWGEK PAIKKITFNV IPDPTTRAVA FETGDIDLLY GNEGLLPLDT
260 270 280 290 300
FARFSQNPAY HTQLSQPIET VMLALNTAKA PTNELAVREA LNYAVNKKSL
310 320 330 340 350
IDNALYGTQQ VADTLFAPSV PYANLGLKPS QYDPQKAKAL LEKAGWTLPA
360 370 380 390 400
GKDIREKNGQ PLRIELSFIG TDALSKSMAE IIQADMRQIG ADVSLIGEEE
410 420 430 440 450
SSIYARQRDG RFGMIFHRTW GAPYDPHAFL SSMRVPSHAD FQAQQGLADK
460 470 480 490 500
PLIDKEIGEV LATHDETQRQ ALYRDILTRL HDEAVYLPIS YISMMVVSKP
510 520
ELGNIPYAPI ATEIPFEQIK PVKP
Length:524
Mass (Da):58,719
Last modified:February 1, 1994 - v1
Checksum:iCB2E3C1CDCE42396
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X73143 Genomic DNA. Translation: CAA51659.1.
U00039 Genomic DNA. Translation: AAB18451.1.
U00096 Genomic DNA. Translation: AAC76501.1.
AP009048 Genomic DNA. Translation: BAE77817.1.
PIRiS39594.
RefSeqiNP_417933.1. NC_000913.3.
YP_491958.1. NC_007779.1.

Genome annotation databases

EnsemblBacteriaiAAC76501; AAC76501; b3476.
BAE77817; BAE77817; BAE77817.
GeneIDi12933497.
947981.
KEGGiecj:Y75_p3702.
eco:b3476.
PATRICi32122396. VBIEscCol129921_3575.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X73143 Genomic DNA. Translation: CAA51659.1.
U00039 Genomic DNA. Translation: AAB18451.1.
U00096 Genomic DNA. Translation: AAC76501.1.
AP009048 Genomic DNA. Translation: BAE77817.1.
PIRiS39594.
RefSeqiNP_417933.1. NC_000913.3.
YP_491958.1. NC_007779.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1UIUX-ray1.85A/B23-524[»]
1UIVX-ray1.95A/B23-524[»]
1ZLQX-ray1.80A/B23-524[»]
2NOOX-ray1.65A23-524[»]
3DP8X-ray2.50A/B/C23-524[»]
3E3KX-ray2.80A/B/C23-524[»]
3MVWX-ray1.79A/B23-524[»]
3MVXX-ray1.70A/B23-524[»]
3MVYX-ray2.50A/B23-524[»]
3MVZX-ray1.70A/B23-524[»]
3MW0X-ray2.30A/B23-524[»]
3MZ9X-ray1.80A/B23-524[»]
3MZBX-ray1.70A/B23-523[»]
3QIMX-ray2.10A/B23-524[»]
4DCXX-ray2.00A/B23-524[»]
4DCYX-ray2.00A/B23-524[»]
4I8CX-ray2.50A/B/C23-524[»]
4I9DX-ray1.70A/B23-524[»]
ProteinModelPortaliP33590.
SMRiP33590. Positions 25-522.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

DIPiDIP-10340N.
IntActiP33590. 1 interaction.
MINTiMINT-1272849.
STRINGi511145.b3476.

Protein family/group databases

TCDBi3.A.1.5.3. the atp-binding cassette (abc) superfamily.

Proteomic databases

PaxDbiP33590.
PRIDEiP33590.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC76501; AAC76501; b3476.
BAE77817; BAE77817; BAE77817.
GeneIDi12933497.
947981.
KEGGiecj:Y75_p3702.
eco:b3476.
PATRICi32122396. VBIEscCol129921_3575.

Organism-specific databases

EchoBASEiEB2000.
EcoGeneiEG12075. nikA.

Phylogenomic databases

eggNOGiCOG0747.
HOGENOMiHOG000125740.
InParanoidiP33590.
KOiK15584.
OMAiGKNQINI.
OrthoDBiEOG6KHFZ2.
PhylomeDBiP33590.

Enzyme and pathway databases

BioCyciEcoCyc:NIKA-MONOMER.
ECOL316407:JW3441-MONOMER.
MetaCyc:NIKA-MONOMER.

Miscellaneous databases

EvolutionaryTraceiP33590.
PROiP33590.

Gene expression databases

GenevestigatoriP33590.

Family and domain databases

InterProiIPR011980. NikA_ABC_Ni-bd.
IPR000914. SBP_5.
IPR023765. SBP_5_CS.
[Graphical view]
PfamiPF00496. SBP_bac_5. 1 hit.
[Graphical view]
TIGRFAMsiTIGR02294. nickel_nikA. 1 hit.
PROSITEiPS01040. SBP_BACTERIAL_5. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "The nik operon of Escherichia coli encodes a periplasmic binding-protein-dependent transport system for nickel."
    Navarro C., Wu L.-F., Mandrand-Berthelot M.-A.
    Mol. Microbiol. 9:1181-1191(1992) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: K12.
  2. "Analysis of the Escherichia coli genome. V. DNA sequence of the region from 76.0 to 81.5 minutes."
    Sofia H.J., Burland V., Daniels D.L., Plunkett G. III, Blattner F.R.
    Nucleic Acids Res. 22:2576-2586(1993) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / MG1655 / ATCC 47076.
  3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / MG1655 / ATCC 47076.
  4. "Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110."
    Hayashi K., Morooka N., Yamamoto Y., Fujita K., Isono K., Choi S., Ohtsubo E., Baba T., Wanner B.L., Mori H., Horiuchi T.
    Mol. Syst. Biol. 2:E1-E5(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
  5. "Crystal structures of the liganded and unliganded nickel-binding protein NikA from Escherichia coli."
    Heddle J., Scott D.J., Unzai S., Park S.Y., Tame J.R.
    J. Biol. Chem. 278:50322-50329(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (1.85 ANGSTROMS) OF 23-524.

Entry informationi

Entry nameiNIKA_ECOLI
AccessioniPrimary (citable) accession number: P33590
Secondary accession number(s): Q2M7D9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 1, 1994
Last sequence update: February 1, 1994
Last modified: March 4, 2015
This is version 123 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, 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

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.