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P33590

- NIKA_ECOLI

UniProt

P33590 - NIKA_ECOLI

Protein

Nickel-binding periplasmic protein

Gene

nikA

Organism
Escherichia coli (strain K12)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 119 (01 Oct 2014)
      Sequence version 1 (01 Feb 1994)
      Previous versions | rss
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    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
    4. transporter activity Source: InterPro

    GO - Biological processi

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

    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: Chromosome, UP000000625: Chromosome

    Organism-specific databases

    EcoGeneiEG12075. nikA.

    Subcellular locationi

    Periplasm Curated

    GO - Cellular componenti

    1. periplasmic space Source: EcoliWiki

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

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    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.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiP33590.

    Family & Domainsi

    Sequence similaritiesi

    Keywords - Domaini

    Signal

    Phylogenomic databases

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

    Family and domain databases

    InterProiIPR011980. NikA_ABC_Ni-bd.
    IPR000914. SBP_bac_5.
    IPR023765. SBP_bac_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

    MLSTLRRTLF ALLACASFIV HAAAPDEITT AWPVNVGPLN PHLYTPNQMF    50
    AQSMVYEPLV KYQADGSVIP WLAKSWTHSE DGKTWTFTLR DDVKFSNGEP 100
    FDAEAAAENF RAVLDNRQRH AWLELANQIV DVKALSKTEL QITLKSAYYP 150
    FLQELALPRP FRFIAPSQFK NHETMNGIKA PIGTGPWILQ ESKLNQYDVF 200
    VRNENYWGEK PAIKKITFNV IPDPTTRAVA FETGDIDLLY GNEGLLPLDT 250
    FARFSQNPAY HTQLSQPIET VMLALNTAKA PTNELAVREA LNYAVNKKSL 300
    IDNALYGTQQ VADTLFAPSV PYANLGLKPS QYDPQKAKAL LEKAGWTLPA 350
    GKDIREKNGQ PLRIELSFIG TDALSKSMAE IIQADMRQIG ADVSLIGEEE 400
    SSIYARQRDG RFGMIFHRTW GAPYDPHAFL SSMRVPSHAD FQAQQGLADK 450
    PLIDKEIGEV LATHDETQRQ ALYRDILTRL HDEAVYLPIS YISMMVVSKP 500
    ELGNIPYAPI ATEIPFEQIK PVKP 524
    Length:524
    Mass (Da):58,719
    Last modified:February 1, 1994 - v1
    Checksum:iCB2E3C1CDCE42396
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    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:
    EMBL
    GenBank
    DDBJ
    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 .
    PIRi S39594.
    RefSeqi NP_417933.1. NC_000913.3.
    YP_491958.1. NC_007779.1.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    1UIU X-ray 1.85 A/B 23-524 [» ]
    1UIV X-ray 1.95 A/B 23-524 [» ]
    1ZLQ X-ray 1.80 A/B 23-524 [» ]
    2NOO X-ray 1.65 A 23-524 [» ]
    3DP8 X-ray 2.50 A/B/C 23-524 [» ]
    3E3K X-ray 2.80 A/B/C 23-524 [» ]
    3MVW X-ray 1.79 A/B 23-524 [» ]
    3MVX X-ray 1.70 A/B 23-524 [» ]
    3MVY X-ray 2.50 A/B 23-524 [» ]
    3MVZ X-ray 1.70 A/B 23-524 [» ]
    3MW0 X-ray 2.30 A/B 23-524 [» ]
    3MZ9 X-ray 1.80 A/B 23-524 [» ]
    3MZB X-ray 1.70 A/B 23-523 [» ]
    3QIM X-ray 2.10 A/B 23-524 [» ]
    4DCX X-ray 2.00 A/B 23-524 [» ]
    4DCY X-ray 2.00 A/B 23-524 [» ]
    4I8C X-ray 2.50 A/B/C 23-524 [» ]
    4I9D X-ray 1.70 A/B 23-524 [» ]
    ProteinModelPortali P33590.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    DIPi DIP-10340N.
    IntActi P33590. 1 interaction.
    MINTi MINT-1272849.
    STRINGi 511145.b3476.

    Protein family/group databases

    TCDBi 3.A.1.5.3. the atp-binding cassette (abc) superfamily.

    Proteomic databases

    PaxDbi P33590.
    PRIDEi P33590.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AAC76501 ; AAC76501 ; b3476 .
    BAE77817 ; BAE77817 ; BAE77817 .
    GeneIDi 12933497.
    947981.
    KEGGi ecj:Y75_p3702.
    eco:b3476.
    PATRICi 32122396. VBIEscCol129921_3575.

    Organism-specific databases

    EchoBASEi EB2000.
    EcoGenei EG12075. nikA.

    Phylogenomic databases

    eggNOGi COG0747.
    HOGENOMi HOG000125740.
    KOi K15584.
    OMAi GKNQINI.
    OrthoDBi EOG6KHFZ2.
    PhylomeDBi P33590.

    Enzyme and pathway databases

    BioCyci EcoCyc:NIKA-MONOMER.
    ECOL316407:JW3441-MONOMER.
    MetaCyc:NIKA-MONOMER.

    Miscellaneous databases

    EvolutionaryTracei P33590.
    PROi P33590.

    Gene expression databases

    Genevestigatori P33590.

    Family and domain databases

    InterProi IPR011980. NikA_ABC_Ni-bd.
    IPR000914. SBP_bac_5.
    IPR023765. SBP_bac_5_CS.
    [Graphical view ]
    Pfami PF00496. SBP_bac_5. 1 hit.
    [Graphical view ]
    TIGRFAMsi TIGR02294. nickel_nikA. 1 hit.
    PROSITEi PS01040. SBP_BACTERIAL_5. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    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(1993) [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(1994) [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(2006) [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(2003) [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: October 1, 2014
    This is version 119 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