Nickel-binding periplasmic protein precursor - Escherichia coli (strain K12)

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P33590 (NIKA_ECOLI) Reviewed, UniProtKB/Swiss-Prot

Last modified May 1, 2013. Version 108. History...

Clusters with 100%, 90%, 50% identity |

Documents (3) |

Third-party data

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Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents Customize order

Names and origin

Protein names

Recommended name:
Nickel-binding periplasmic protein

Gene names

Name:	nikA
Ordered Locus Names:	b3476, JW3441

Organism

Escherichia coli (strain K12) [Reference proteome] [HAMAP]

Taxonomic identifier

83333 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Gammaproteobacteria › Enterobacteriales › Enterobacteriaceae › Escherichia ›

Protein attributes

Sequence length	524 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Involved in a nickel transport system, probably represents the nickel binder.
Subcellular location	Periplasm Probable.
Sequence similarities	Belongs to the bacterial solute-binding protein 5 family.

Ontologies

Keywords
Biological process	Transport
Cellular component	Periplasm
Domain	Signal
Ligand	Nickel
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	negative chemotaxis Inferred from mutant phenotype PubMed 7867647. Source: EcoliWiki nickel cation transport Inferred from electronic annotation. Source: InterPro
Cellular_component	periplasmic space Inferred from direct assay PubMed 7867647. Source: EcoliWiki
Molecular_function	heme binding Inferred from direct assay PubMed 17411076. Source: EcoliWiki nickel cation binding Inferred from direct assay PubMed 7867647. Source: EcoliWiki transporter activity Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Signal peptide

1 – 22

Chain

23 – 524

502

Nickel-binding periplasmic protein

PRO_0000031800

Secondary structure

524

Helix Strand Turn

Details...

Sequences

Sequence

Length

Mass (Da)

Tools

P33590 [UniParc].

Last modified February 1, 1994. Version 1.
Checksum: CB2E3C1CDCE42396
Show »

FASTA

524

58,719

        10         20         30         40         50         60 
MLSTLRRTLF ALLACASFIV HAAAPDEITT AWPVNVGPLN PHLYTPNQMF AQSMVYEPLV 

        70         80         90        100        110        120 
KYQADGSVIP WLAKSWTHSE DGKTWTFTLR DDVKFSNGEP FDAEAAAENF RAVLDNRQRH 

       130        140        150        160        170        180 
AWLELANQIV DVKALSKTEL QITLKSAYYP FLQELALPRP FRFIAPSQFK NHETMNGIKA 

       190        200        210        220        230        240 
PIGTGPWILQ ESKLNQYDVF VRNENYWGEK PAIKKITFNV IPDPTTRAVA FETGDIDLLY 

       250        260        270        280        290        300 
GNEGLLPLDT FARFSQNPAY HTQLSQPIET VMLALNTAKA PTNELAVREA LNYAVNKKSL 

       310        320        330        340        350        360 
IDNALYGTQQ VADTLFAPSV PYANLGLKPS QYDPQKAKAL LEKAGWTLPA GKDIREKNGQ 

       370        380        390        400        410        420 
PLRIELSFIG TDALSKSMAE IIQADMRQIG ADVSLIGEEE SSIYARQRDG RFGMIFHRTW 

       430        440        450        460        470        480 
GAPYDPHAFL SSMRVPSHAD FQAQQGLADK PLIDKEIGEV LATHDETQRQ ALYRDILTRL 

       490        500        510        520 
HDEAVYLPIS YISMMVVSKP ELGNIPYAPI ATEIPFEQIK PVKP

« Hide

References

	« Hide 'large scale' referencesShow 'large scale' references »
[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]	"The complete genome sequence of Escherichia coli K-12." Blattner F.R., Plunkett G. III, Bloch C.A., Perna N.T., Burland V., Riley M., Collado-Vides J., Glasner J.D., Rode C.K., Mayhew G.F., Gregor J., Davis N.W., Kirkpatrick H.A., Goeden M.A., Rose D.J., Mau B., Shao Y. Science 277:1453-1474(1997) [PubMed] [Europe PMC] [Abstract] 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.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

X73143 Genomic DNA. Translation: CAA51659.1.
U00039 Genomic DNA. Translation: AAB18451.1.
U00096 Genomic DNA. Translation: AAC76501.1.
AP009048 Genomic DNA. Translation: BAE77817.1.

PIR

S39594.

RefSeq

NP_417933.1. NC_000913.2.
YP_491958.1. NC_007779.1.

3D structure databases

PDBe
RCSB PDB
PDBj

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	[»]

ProteinModelPortal

P33590.

SMR

P33590. Positions 24-521.

ModBase

Search...

Protein-protein interaction databases

DIP

DIP-10340N.

IntAct

P33590. 1 interaction.

MINT

MINT-1272849.

STRING

511145.b3476.

Protein family/group databases

TCDB

3.A.1.5.3. ATP-binding cassette (ABC) superfamily.

Proteomic databases

PaxDb

P33590.

PRIDE

P33590.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

EnsemblBacteria

AAC76501; AAC76501; b3476.
BAE77817; BAE77817; BAE77817.

GeneID

12933497.
947981.

KEGG

ecj:Y75_p3702.
eco:b3476.

PATRIC

32122396. VBIEscCol129921_3575.

Organism-specific databases

EchoBASE

EB2000.

EcoGene

EG12075. nikA.

Phylogenomic databases

eggNOG

COG0747.

HOGENOM

HOG000125740.

K15584.

OMA

ELAFIGT.

ProtClustDB

CLSK880677.

Enzyme and pathway databases

BioCyc

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

Gene expression databases

Genevestigator

P33590.

Family and domain databases

InterPro

IPR011980. NikA_ABC_Ni-bd.
IPR000914. SBP_bac_5.
IPR023765. SBP_bac_5_CS.
[Graphical view]

Pfam

PF00496. SBP_bac_5. 1 hit.
[Graphical view]

TIGRFAMs

TIGR02294. nickel_nikA. 1 hit.

PROSITE

PS01040. SBP_BACTERIAL_5. 1 hit.
[Graphical view]

ProtoNet

Search...

Other

EvolutionaryTrace

P33590.

Entry information

Entry name

NIKA_ECOLI

Accession

Primary (citable) accession number: P33590
Secondary accession number(s): Q2M7D9

Entry history

Integrated into UniProtKB/Swiss-Prot:	February 1, 1994
Last sequence update:	February 1, 1994
Last modified:	May 1, 2013
This is version 108 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program

Relevant documents

Escherichia coli

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

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

SIMILARITY comments

Index of protein domains and families

Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents

Preferred order of sections

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Sequence annotation (Features)

Molecule processing

Secondary structure

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

Protein family/group databases

Proteomic databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Enzyme and pathway databases

Gene expression databases

Family and domain databases

Other

Entry information

Relevant documents