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Protein

Metal-binding protein ZinT

Gene

zinT

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

Functioni

May function as a periplasmic zinc chaperone or mediate direct transport of zinc from the periplasm to the cytoplasm under zinc-limited conditions. Binds zinc with high affinity, and can also bind cadmium, mercury or nickel. Preferentially binds Zn2+ over Cd2+. Contains one high affinity metal binding site, and can bind additional metal ions at other sites.2 Publications

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi167 – 1671Zinc 13 Publications
Metal bindingi176 – 1761Zinc 13 Publications
Metal bindingi176 – 1761Zinc 23 Publications
Metal bindingi178 – 1781Zinc 13 Publications
Metal bindingi212 – 2121Zinc 23 Publications
Metal bindingi216 – 2161Zinc 23 Publications

GO - Molecular functioni

  • cadmium ion binding Source: EcoCyc
  • zinc ion binding Source: EcoCyc

GO - Biological processi

  • cellular response to zinc ion starvation Source: EcoCyc
  • response to cadmium ion Source: EcoCyc
Complete GO annotation...

Keywords - Ligandi

Cadmium, Metal-binding, Nickel, Zinc

Enzyme and pathway databases

BioCyciEcoCyc:G7061-MONOMER.
ECOL316407:JW1956-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Metal-binding protein ZinT
Alternative name(s):
Cadmium-induced protein ZinT
Gene namesi
Name:zinT
Synonyms:yodA
Ordered Locus Names:b1973, JW1956
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG14049. zinT.

Subcellular locationi

  • Cytoplasm 1 Publication
  • Periplasm 1 Publication

  • Note: Cytoplasmic in nonstressed cells, and exported to the periplasm upon exposure to cadmium.

GO - Cellular componenti

  • cytoplasm Source: EcoCyc
  • outer membrane-bounded periplasmic space Source: EcoCyc
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Periplasm

Pathology & Biotechi

Disruption phenotypei

Mutant shows a growth defect and a lowered cellular Zn2+ level under Zn2+ limitation. Mutant does not bind cadmium.3 Publications

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 23231 PublicationAdd
BLAST
Chaini24 – 216193Metal-binding protein ZinTPRO_0000013865Add
BLAST

Proteomic databases

PaxDbiP76344.

2D gel databases

SWISS-2DPAGEP76344.

Expressioni

Inductioni

Repressed by Zur. Up-regulated in response to extreme Zn2+ deprivation. Also induced by cadmium and hydrogen peroxide.3 Publications

Interactioni

Protein-protein interaction databases

BioGridi4260387. 36 interactions.
IntActiP76344. 15 interactions.
STRINGi511145.b1973.

Structurei

Secondary structure

1
216
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi35 – 417Combined sources
Helixi47 – 493Combined sources
Helixi55 – 584Combined sources
Beta strandi60 – 656Combined sources
Helixi66 – 705Combined sources
Turni71 – 744Combined sources
Helixi75 – 8410Combined sources
Helixi90 – 10112Combined sources
Beta strandi104 – 1118Combined sources
Beta strandi114 – 1196Combined sources
Beta strandi122 – 1265Combined sources
Beta strandi129 – 1379Combined sources
Beta strandi143 – 1508Combined sources
Beta strandi160 – 1656Combined sources
Beta strandi175 – 18410Combined sources
Helixi186 – 1905Combined sources
Beta strandi198 – 2014Combined sources
Helixi206 – 21510Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1OEEX-ray2.10A24-216[»]
1OEJX-ray1.81A24-216[»]
1OEKX-ray2.40A24-216[»]
1S7DX-ray2.17A1-216[»]
1TXLX-ray1.70A2-216[»]
5AQ6X-ray1.79A24-216[»]
ProteinModelPortaliP76344.
SMRiP76344. Positions 29-216.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP76344.

Family & Domainsi

Sequence similaritiesi

Belongs to the calycin superfamily. ZinT family.Curated

Keywords - Domaini

Signal

Phylogenomic databases

eggNOGiENOG4108MEK. Bacteria.
COG3443. LUCA.
HOGENOMiHOG000219533.
InParanoidiP76344.
OMAiVQFSDHT.
OrthoDBiEOG6K9QKM.
PhylomeDBiP76344.

Family and domain databases

Gene3Di2.40.128.20. 1 hit.
InterProiIPR012674. Calycin.
IPR011038. Calycin-like.
IPR015304. ZinT_dom.
[Graphical view]
PfamiPF09223. ZinT. 1 hit.
[Graphical view]
SUPFAMiSSF50814. SSF50814. 1 hit.

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P76344-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAIRLYKLAV ALGVFIVSAP AFSHGHHSHG KPLTEVEQKA ANGVFDDANV
60 70 80 90 100
QNRTLSDWDG VWQSVYPLLQ SGKLDPVFQK KADADKTKTF AEIKDYYHKG
110 120 130 140 150
YATDIEMIGI EDGIVEFHRN NETTSCKYDY DGYKILTYKS GKKGVRYLFE
160 170 180 190 200
CKDPESKAPK YIQFSDHIIA PRKSSHFHIF MGNDSQQSLL NEMENWPTYY
210
PYQLSSEEVV EEMMSH
Length:216
Mass (Da):24,762
Last modified:February 1, 1997 - v1
Checksum:iEBEE9DC73513B9C2
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00096 Genomic DNA. Translation: AAC75039.1.
AP009048 Genomic DNA. Translation: BAE76561.1.
PIRiA64962.
RefSeqiNP_416482.1. NC_000913.3.
WP_001007805.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAC75039; AAC75039; b1973.
BAE76561; BAE76561; BAE76561.
GeneIDi946480.
KEGGiecj:JW1956.
eco:b1973.
PATRICi32119277. VBIEscCol129921_2053.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00096 Genomic DNA. Translation: AAC75039.1.
AP009048 Genomic DNA. Translation: BAE76561.1.
PIRiA64962.
RefSeqiNP_416482.1. NC_000913.3.
WP_001007805.1. NZ_LN832404.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1OEEX-ray2.10A24-216[»]
1OEJX-ray1.81A24-216[»]
1OEKX-ray2.40A24-216[»]
1S7DX-ray2.17A1-216[»]
1TXLX-ray1.70A2-216[»]
5AQ6X-ray1.79A24-216[»]
ProteinModelPortaliP76344.
SMRiP76344. Positions 29-216.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4260387. 36 interactions.
IntActiP76344. 15 interactions.
STRINGi511145.b1973.

2D gel databases

SWISS-2DPAGEP76344.

Proteomic databases

PaxDbiP76344.

Protocols and materials databases

DNASUi946480.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC75039; AAC75039; b1973.
BAE76561; BAE76561; BAE76561.
GeneIDi946480.
KEGGiecj:JW1956.
eco:b1973.
PATRICi32119277. VBIEscCol129921_2053.

Organism-specific databases

EchoBASEiEB3802.
EcoGeneiEG14049. zinT.

Phylogenomic databases

eggNOGiENOG4108MEK. Bacteria.
COG3443. LUCA.
HOGENOMiHOG000219533.
InParanoidiP76344.
OMAiVQFSDHT.
OrthoDBiEOG6K9QKM.
PhylomeDBiP76344.

Enzyme and pathway databases

BioCyciEcoCyc:G7061-MONOMER.
ECOL316407:JW1956-MONOMER.

Miscellaneous databases

EvolutionaryTraceiP76344.
PROiP76344.

Family and domain databases

Gene3Di2.40.128.20. 1 hit.
InterProiIPR012674. Calycin.
IPR011038. Calycin-like.
IPR015304. ZinT_dom.
[Graphical view]
PfamiPF09223. ZinT. 1 hit.
[Graphical view]
SUPFAMiSSF50814. SSF50814. 1 hit.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / MG1655 / ATCC 47076.
  2. "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.
  3. "The cadmium-stress stimulon of Escherichia coli K-12."
    Ferianc P., Farewell A., Nystroem T.
    Microbiology 144:1045-1050(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: PROTEIN SEQUENCE OF 24-33.
  4. "Regulation of yodA encoding a novel cadmium-induced protein in Escherichia coli."
    Puskarova A., Ferianc P., Kormanec J., Homerova D., Farewell A., Nystroem T.
    Microbiology 148:3801-3811(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: INDUCTION, SUBCELLULAR LOCATION.
    Strain: K12 / MC4100 / ATCC 35695 / DSM 6574.
  5. "Zinc dependence of zinT (yodA) mutants and binding of zinc, cadmium and mercury by ZinT."
    Kershaw C.J., Brown N.L., Hobman J.L.
    Biochem. Biophys. Res. Commun. 364:66-71(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, METAL-BINDING, DISRUPTION PHENOTYPE.
    Strain: K12 / MG1655 / ATCC 47076.
  6. "Function of a novel cadmium-induced yodA protein in Escherichia coli."
    Stojnev T., Harichova J., Ferianc P., Nystrom T.
    Curr. Microbiol. 55:99-104(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: CADMIUM-BINDING, DISRUPTION PHENOTYPE.
    Strain: K12 / MC4100 / ATCC 35695 / DSM 6574.
  7. "Severe zinc depletion of Escherichia coli: roles for high affinity zinc binding by ZinT, zinc transport and zinc-independent proteins."
    Graham A.I., Hunt S., Stokes S.L., Bramall N., Bunch J., Cox A.G., McLeod C.W., Poole R.K.
    J. Biol. Chem. 284:18377-18389(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, INDUCTION, DISRUPTION PHENOTYPE, ZINC-BINDING, CADMIUM-BINDING.
    Strain: K12 / MG1655 / ATCC 47076.
  8. Cited for: INDUCTION.
    Strain: BW21135.
  9. "YodA from Escherichia coli is a metal-binding, lipocalin-like protein."
    David G., Blondeau K., Schiltz M., Penel S., Lewit-Bentley A.
    J. Biol. Chem. 278:43728-43735(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (1.81 ANGSTROMS) OF 24-216 IN COMPLEX WITH ZINC; CADMIUM AND NICKEL.
  10. "Crystal structure of refined tetragonal crystal of YodA from Escherichia coli."
    Berkeley structural genomics center (BSGC)
    Submitted (FEB-2009) to the PDB data bank
    Cited for: X-RAY CRYSTALLOGRAPHY (2.17 ANGSTROMS) IN COMPLEX WITH ZINC.
  11. "Crystal structure of a hypothetical protein YodA."
    New York structural genomix research consortium (NYSGXRC)
    Submitted (FEB-2009) to the PDB data bank
    Cited for: X-RAY CRYSTALLOGRAPHY (1.7 ANGSTROMS) OF 2-216 IN COMPLEX WITH ZINC.

Entry informationi

Entry nameiZINT_ECOLI
AccessioniPrimary (citable) accession number: P76344
Secondary accession number(s): Q2MAZ5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 15, 1998
Last sequence update: February 1, 1997
Last modified: March 16, 2016
This is version 121 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, Direct protein sequencing, 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.