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P33590

- NIKA_ECOLI

UniProt

P33590 - NIKA_ECOLI

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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

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
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: Chromosome, UP000000625: 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 – 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.
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_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

        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:
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.
SMRi P33590. Positions 25-522.
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.
InParanoidi P33590.
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

« 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(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 29, 2014
This is version 120 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