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Protein

Nickel import ATP-binding protein NikD

Gene

nikD

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

Part of the ABC transporter complex NikABCDE involved in nickel import. Responsible for energy coupling to the transport system.UniRule annotation

Catalytic activityi

ATP + H2O + Ni2+(Out) = ADP + phosphate + Ni2+(In).UniRule annotation

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi36 – 43ATPUniRule annotation8

GO - Molecular functioni

Complete GO annotation...

Keywords - Molecular functioni

Hydrolase

Keywords - Biological processi

Ion transport, Nickel transport, Transport

Keywords - Ligandi

ATP-binding, Nickel, Nucleotide-binding

Enzyme and pathway databases

BioCyciEcoCyc:NIKD-MONOMER.
ECOL316407:JW3444-MONOMER.
MetaCyc:NIKD-MONOMER.

Protein family/group databases

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

Names & Taxonomyi

Protein namesi
Recommended name:
Nickel import ATP-binding protein NikDUniRule annotation (EC:3.6.3.24UniRule annotation)
Gene namesi
Name:nikDUniRule annotation
Ordered Locus Names:b3479, JW3444
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG12078. nikD.

Subcellular locationi

  • Cell inner membrane UniRule annotation; Peripheral membrane protein UniRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cell inner membrane, Cell membrane, Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000926201 – 254Nickel import ATP-binding protein NikDAdd BLAST254

Proteomic databases

PaxDbiP33593.
PRIDEiP33593.

Interactioni

Subunit structurei

The complex is composed of two ATP-binding proteins (NikD and NikE), two transmembrane proteins (NikB and NikC) and a solute-binding protein (NikA).UniRule annotation

Protein-protein interaction databases

BioGridi4262507. 16 interactors.
DIPiDIP-10343N.
IntActiP33593. 11 interactors.
MINTiMINT-1262144.
STRINGi511145.b3479.

Structurei

3D structure databases

ProteinModelPortaliP33593.
SMRiP33593.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini2 – 241ABC transporterUniRule annotationAdd BLAST240

Sequence similaritiesi

Belongs to the ABC transporter superfamily. Nickel importer (TC 3.A.1.5.3) family. [View classification]UniRule annotation
Contains 1 ABC transporter domain.UniRule annotation

Phylogenomic databases

eggNOGiENOG4106665. Bacteria.
COG0444. LUCA.
InParanoidiP33593.
KOiK15587.
OMAiCHLLAND.
PhylomeDBiP33593.

Family and domain databases

Gene3Di3.40.50.300. 1 hit.
InterProiIPR003593. AAA+_ATPase.
IPR003439. ABC_transporter-like.
IPR017871. ABC_transporter_CS.
IPR015857. ABC_transpr_NikD.
IPR014138. Nickel_NikD.
IPR027417. P-loop_NTPase.
[Graphical view]
PfamiPF00005. ABC_tran. 1 hit.
[Graphical view]
SMARTiSM00382. AAA. 1 hit.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 1 hit.
TIGRFAMsiTIGR02770. nickel_nikD. 1 hit.
PROSITEiPS00211. ABC_TRANSPORTER_1. 1 hit.
PS50893. ABC_TRANSPORTER_2. 1 hit.
PS51247. NIKD. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P33593-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MPQQIELRNI ALQAAQPLVH GVSLTLQRGR VLALVGGSGS GKSLTCAATL
60 70 80 90 100
GILPAGVRQT AGEILADGKP VSPCALRGIK IATIMQNPRS AFNPLHTMHT
110 120 130 140 150
HARETCLALG KPADDATLTA AIEAVGLENA ARVLKLYPFE MSGGMLQRMM
160 170 180 190 200
IAMAVLCESP FIIADEPTTD LDVVAQARIL DLLESIMQKQ APGMLLVTHD
210 220 230 240 250
MGVVARLADD VAVMSDGKIV EQGDVETLFN APKHTVTRSL VSAHLALYGM

ELAS
Length:254
Mass (Da):26,820
Last modified:August 29, 2003 - v2
Checksum:iB954C5027BFBAD99
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti177 – 198ARILD…MLLVT → GGASSICWKHYAKQCGNAAG D in CAA51662 (PubMed:7934931).CuratedAdd BLAST22
Sequence conflicti239S → T in CAA51662 (PubMed:7934931).Curated1
Sequence conflicti251E → D in CAA51662 (PubMed:7934931).Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X73143 Genomic DNA. Translation: CAA51662.1.
U00039 Genomic DNA. Translation: AAB18454.1.
U00096 Genomic DNA. Translation: AAC76504.1.
AP009048 Genomic DNA. Translation: BAE77814.1.
PIRiS47698.
RefSeqiNP_417936.1. NC_000913.3.
WP_001136229.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAC76504; AAC76504; b3479.
BAE77814; BAE77814; BAE77814.
GeneIDi947989.
KEGGiecj:JW3444.
eco:b3479.
PATRICi32122402. VBIEscCol129921_3578.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X73143 Genomic DNA. Translation: CAA51662.1.
U00039 Genomic DNA. Translation: AAB18454.1.
U00096 Genomic DNA. Translation: AAC76504.1.
AP009048 Genomic DNA. Translation: BAE77814.1.
PIRiS47698.
RefSeqiNP_417936.1. NC_000913.3.
WP_001136229.1. NZ_LN832404.1.

3D structure databases

ProteinModelPortaliP33593.
SMRiP33593.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4262507. 16 interactors.
DIPiDIP-10343N.
IntActiP33593. 11 interactors.
MINTiMINT-1262144.
STRINGi511145.b3479.

Protein family/group databases

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

Proteomic databases

PaxDbiP33593.
PRIDEiP33593.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC76504; AAC76504; b3479.
BAE77814; BAE77814; BAE77814.
GeneIDi947989.
KEGGiecj:JW3444.
eco:b3479.
PATRICi32122402. VBIEscCol129921_3578.

Organism-specific databases

EchoBASEiEB2003.
EcoGeneiEG12078. nikD.

Phylogenomic databases

eggNOGiENOG4106665. Bacteria.
COG0444. LUCA.
InParanoidiP33593.
KOiK15587.
OMAiCHLLAND.
PhylomeDBiP33593.

Enzyme and pathway databases

BioCyciEcoCyc:NIKD-MONOMER.
ECOL316407:JW3444-MONOMER.
MetaCyc:NIKD-MONOMER.

Miscellaneous databases

PROiP33593.

Family and domain databases

Gene3Di3.40.50.300. 1 hit.
InterProiIPR003593. AAA+_ATPase.
IPR003439. ABC_transporter-like.
IPR017871. ABC_transporter_CS.
IPR015857. ABC_transpr_NikD.
IPR014138. Nickel_NikD.
IPR027417. P-loop_NTPase.
[Graphical view]
PfamiPF00005. ABC_tran. 1 hit.
[Graphical view]
SMARTiSM00382. AAA. 1 hit.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 1 hit.
TIGRFAMsiTIGR02770. nickel_nikD. 1 hit.
PROSITEiPS00211. ABC_TRANSPORTER_1. 1 hit.
PS50893. ABC_TRANSPORTER_2. 1 hit.
PS51247. NIKD. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiNIKD_ECOLI
AccessioniPrimary (citable) accession number: P33593
Secondary accession number(s): Q2M7E2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 1, 1994
Last sequence update: August 29, 2003
Last modified: November 2, 2016
This is version 144 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. 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.