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Protein

Nickel-binding periplasmic protein

Gene

nikA

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

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

GO - Molecular functioni

  • heme binding Source: EcoliWiki
  • nickel cation binding Source: EcoliWiki
  • peptide transporter activity Source: GO_Central
  • transition metal ion binding Source: EcoliWiki

GO - Biological processi

  • negative chemotaxis Source: EcoliWiki
  • nickel cation transport Source: InterPro
  • transmembrane 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 lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG12075. nikA.

Subcellular locationi

GO - Cellular componenti

  • ATP-binding cassette (ABC) transporter complex Source: InterPro
  • outer membrane-bounded periplasmic space Source: EcoCyc
  • periplasmic space Source: EcoliWiki
Complete GO annotation...

Keywords - Cellular componenti

Periplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 22Add BLAST22
ChainiPRO_000003180023 – 524Nickel-binding periplasmic proteinAdd BLAST502

Proteomic databases

PaxDbiP33590.
PRIDEiP33590.

Interactioni

Protein-protein interaction databases

BioGridi4262491. 27 interactors.
DIPiDIP-10340N.
IntActiP33590. 1 interactor.
MINTiMINT-1272849.
STRINGi511145.b3476.

Structurei

Secondary structure

1524
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi27 – 34Combined sources8
Helixi46 – 48Combined sources3
Helixi49 – 55Combined sources7
Beta strandi59 – 62Combined sources4
Beta strandi68 – 78Combined sources11
Beta strandi80 – 82Combined sources3
Beta strandi84 – 89Combined sources6
Beta strandi96 – 98Combined sources3
Helixi103 – 114Combined sources12
Helixi115 – 120Combined sources6
Helixi124 – 128Combined sources5
Beta strandi129 – 134Combined sources6
Beta strandi136 – 146Combined sources11
Helixi151 – 155Combined sources5
Beta strandi157 – 161Combined sources5
Helixi166 – 168Combined sources3
Beta strandi170 – 172Combined sources3
Beta strandi173 – 180Combined sources8
Beta strandi184 – 193Combined sources10
Turni194 – 196Combined sources3
Beta strandi197 – 202Combined sources6
Beta strandi215 – 220Combined sources6
Helixi224 – 233Combined sources10
Beta strandi238 – 242Combined sources5
Turni243 – 245Combined sources3
Helixi248 – 256Combined sources9
Beta strandi260 – 264Combined sources5
Beta strandi270 – 275Combined sources6
Turni280 – 283Combined sources4
Helixi285 – 294Combined sources10
Helixi297 – 304Combined sources8
Turni305 – 307Combined sources3
Beta strandi309 – 311Combined sources3
Beta strandi313 – 316Combined sources4
Helixi334 – 343Combined sources10
Beta strandi363 – 369Combined sources7
Helixi373 – 387Combined sources15
Turni388 – 390Combined sources3
Beta strandi392 – 398Combined sources7
Helixi400 – 409Combined sources10
Beta strandi413 – 418Combined sources6
Turni422 – 426Combined sources5
Helixi427 – 433Combined sources7
Beta strandi435 – 438Combined sources4
Helixi439 – 443Combined sources5
Turni444 – 446Combined sources3
Helixi450 – 462Combined sources13
Helixi466 – 482Combined sources17
Beta strandi486 – 491Combined sources6
Beta strandi495 – 498Combined sources4
Helixi500 – 502Combined sources3
Helixi516 – 518Combined sources3

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB 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.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP33590.

Family & Domainsi

Sequence similaritiesi

Keywords - Domaini

Signal

Phylogenomic databases

eggNOGiENOG4107RNA. Bacteria.
COG0747. LUCA.
HOGENOMiHOG000125740.
InParanoidiP33590.
KOiK15584.
OMAiFTRHEGY.
PhylomeDBiP33590.

Family and domain databases

CDDicd08489. PBP2_NikA. 1 hit.
InterProiIPR011980. NikA_ABC_Ni-bd.
IPR030678. Peptide/Ni-bd.
IPR023765. SBP_5_CS.
IPR000914. SBP_5_dom.
[Graphical view]
PfamiPF00496. SBP_bac_5. 1 hit.
[Graphical view]
PIRSFiPIRSF002741. MppA. 1 hit.
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.
WP_000953361.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAC76501; AAC76501; b3476.
BAE77817; BAE77817; BAE77817.
GeneIDi947981.
KEGGiecj:JW3441.
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.
WP_000953361.1. NZ_LN832404.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB 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.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4262491. 27 interactors.
DIPiDIP-10340N.
IntActiP33590. 1 interactor.
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.
GeneIDi947981.
KEGGiecj:JW3441.
eco:b3476.
PATRICi32122396. VBIEscCol129921_3575.

Organism-specific databases

EchoBASEiEB2000.
EcoGeneiEG12075. nikA.

Phylogenomic databases

eggNOGiENOG4107RNA. Bacteria.
COG0747. LUCA.
HOGENOMiHOG000125740.
InParanoidiP33590.
KOiK15584.
OMAiFTRHEGY.
PhylomeDBiP33590.

Enzyme and pathway databases

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

Miscellaneous databases

EvolutionaryTraceiP33590.
PROiP33590.

Family and domain databases

CDDicd08489. PBP2_NikA. 1 hit.
InterProiIPR011980. NikA_ABC_Ni-bd.
IPR030678. Peptide/Ni-bd.
IPR023765. SBP_5_CS.
IPR000914. SBP_5_dom.
[Graphical view]
PfamiPF00496. SBP_bac_5. 1 hit.
[Graphical view]
PIRSFiPIRSF002741. MppA. 1 hit.
TIGRFAMsiTIGR02294. nickel_nikA. 1 hit.
PROSITEiPS01040. SBP_BACTERIAL_5. 1 hit.
[Graphical view]
ProtoNetiSearch...

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: November 2, 2016
This is version 136 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

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 one 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.