Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

3'-5' ssDNA/RNA exonuclease TatD

Gene

tatD

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

Functioni

3'-5' exonuclease that prefers single-stranded DNA and RNA. May play a role in the H2O(2)-induced DNA damage repair.UniRule annotation2 Publications

Catalytic activityi

Exonucleolytic cleavage in the 3'- to 5'-direction to yield nucleoside 5'-phosphates.UniRule annotation1 Publication

Cofactori

Mg2+UniRule annotation2 Publications, Mn2+1 PublicationNote: No activity in the presence of Ca2+ or Zn2+.1 Publication

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi91 – 911Divalent metal cationUniRule annotationBy similarity
Metal bindingi127 – 1271Divalent metal cationUniRule annotationBy similarity
Metal bindingi152 – 1521Divalent metal cationUniRule annotationBy similarity

GO - Molecular functioni

  • 3'-5'-exoribonuclease activity Source: EcoCyc
  • deoxyribonuclease activity Source: EcoCyc
  • endodeoxyribonuclease activity, producing 5'-phosphomonoesters Source: InterPro
  • magnesium ion binding Source: UniProtKB-HAMAP
  • metal ion binding Source: EcoliWiki
  • single-stranded DNA 3'-5' exodeoxyribonuclease activity Source: EcoCyc

GO - Biological processi

  • DNA catabolic process, exonucleolytic Source: EcoCyc
  • response to hydrogen peroxide Source: EcoCyc
  • RNA phosphodiester bond hydrolysis Source: EcoCyc
  • RNA phosphodiester bond hydrolysis, exonucleolytic Source: GOC
Complete GO annotation...

Keywords - Molecular functioni

Exonuclease, Hydrolase, Nuclease

Keywords - Ligandi

Magnesium, Manganese, Metal-binding

Enzyme and pathway databases

BioCyciEcoCyc:EG11481-MONOMER.
ECOL316407:JW5931-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
3'-5' ssDNA/RNA exonuclease TatDUniRule annotationCurated (EC:3.1.11.-UniRule annotation1 Publication, EC:3.1.13.-UniRule annotation1 Publication)
Alternative name(s):
DNase TatDUniRule annotationCurated
Gene namesi
Name:tatD1 PublicationUniRule annotation
Synonyms:mttC, yigW, yigX
Ordered Locus Names:b4483, JW5931
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG11481. tatD.

Subcellular locationi

GO - Cellular componenti

  • cytoplasm Source: EcoliWiki
  • cytosol Source: EcoCyc
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

Pathology & Biotechi

Disruption phenotypei

Knockout cells are less resistant to the DNA damaging agent H2O2.1 Publication

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi62 – 621H → A: Significant decrease in nuclease activity. 1 Publication
Mutagenesisi64 – 641H → A: No change in nuclease activity. 1 Publication
Mutagenesisi91 – 911E → A: Lack of nuclease activity. 1 Publication
Mutagenesisi127 – 1271H → A: No change in nuclease activity. 1 Publication
Mutagenesisi152 – 1521H → A: No change in nuclease activity. 1 Publication
Mutagenesisi201 – 2011E → A: Lack of nuclease activity. 1 Publication
Mutagenesisi203 – 2031D → A: Lack of nuclease activity. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 2602603'-5' ssDNA/RNA exonuclease TatDPRO_0000201992Add
BLAST

Proteomic databases

EPDiP27859.
PaxDbiP27859.
PRIDEiP27859.

Expressioni

Inductioni

Constitutively expressed.1 Publication

Interactioni

Subunit structurei

Monomer.UniRule annotation3 Publications

Protein-protein interaction databases

BioGridi4261335. 12 interactions.
STRINGi511145.b4483.

Structurei

Secondary structure

1
260
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi2 – 65Combined sources
Helixi11 – 133Combined sources
Turni14 – 163Combined sources
Helixi17 – 2610Combined sources
Beta strandi31 – 344Combined sources
Helixi39 – 5113Combined sources
Beta strandi55 – 595Combined sources
Helixi63 – 686Combined sources
Helixi71 – 8111Combined sources
Beta strandi86 – 9510Combined sources
Turni96 – 983Combined sources
Beta strandi99 – 1013Combined sources
Helixi103 – 12018Combined sources
Beta strandi124 – 1307Combined sources
Helixi132 – 1398Combined sources
Helixi140 – 1456Combined sources
Beta strandi149 – 1513Combined sources
Helixi158 – 1669Combined sources
Beta strandi170 – 1734Combined sources
Helixi175 – 1784Combined sources
Turni180 – 1823Combined sources
Helixi184 – 1896Combined sources
Helixi190 – 1923Combined sources
Helixi195 – 1973Combined sources
Beta strandi198 – 2003Combined sources
Helixi223 – 2253Combined sources
Helixi226 – 23611Combined sources
Helixi241 – 25616Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1XWYX-ray2.00A1-260[»]
4P5UX-ray2.00A1-260[»]
4PE8X-ray2.89A1-260[»]
ProteinModelPortaliP27859.
SMRiP27859. Positions 1-260.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP27859.

Family & Domainsi

Sequence similaritiesi

Belongs to the TatD-type hydrolase family. TatD subfamily.UniRule annotationCurated

Phylogenomic databases

eggNOGiENOG4105F8V. Bacteria.
COG0084. LUCA.
HOGENOMiHOG000201523.
InParanoidiP27859.
KOiK03424.
OMAiTNLHESQ.
OrthoDBiEOG66QM1C.
PhylomeDBiP27859.

Family and domain databases

HAMAPiMF_00901. TatD_exonuclease.
InterProiIPR018228. DNase_TatD-rel_CS.
IPR024918. Exonuc_TatD.
IPR032466. Metal_Hydrolase.
IPR001130. TatD_family.
[Graphical view]
PANTHERiPTHR10060. PTHR10060. 1 hit.
PfamiPF01026. TatD_DNase. 1 hit.
[Graphical view]
PIRSFiPIRSF005902. DNase_TatD. 1 hit.
SUPFAMiSSF51556. SSF51556. 1 hit.
PROSITEiPS01090. TATD_2. 1 hit.
PS01091. TATD_3. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P27859-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MFDIGVNLTS SQFAKDRDDV VACAFDAGVN GLLITGTNLR ESQQAQKLAR
60 70 80 90 100
QYSSCWSTAG VHPHDSSQWQ AATEEAIIEL AAQPEVVAIG ECGLDFNRNF
110 120 130 140 150
STPEEQERAF VAQLRIAADL NMPVFMHCRD AHERFMTLLE PWLDKLPGAV
160 170 180 190 200
LHCFTGTREE MQACVAHGIY IGITGWVCDE RRGLELRELL PLIPAEKLLI
210 220 230 240 250
ETDAPYLLPR DLTPKPSSRR NEPAHLPHIL QRIAHWRGED AAWLAATTDA
260
NVKTLFGIAF
Length:260
Mass (Da):28,974
Last modified:December 1, 2000 - v3
Checksum:iC18FB5269849746F
GO

Sequence cautioni

The sequence AAA67636.1 differs from that shown. Reason: Frameshift at position 160. Curated
The sequence AAA67637.1 differs from that shown. Reason: Frameshift at position 182. Curated
The sequence CAA06727.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X65013 Genomic DNA. No translation available.
AJ005830 Genomic DNA. Translation: CAA06727.1. Different initiation.
M87049 Genomic DNA. Translation: AAA67636.1. Frameshift.
M87049 Genomic DNA. Translation: AAA67637.1. Frameshift.
U00096 Genomic DNA. Translation: AAT48229.1.
AP009048 Genomic DNA. Translation: BAE77462.1.
PIRiA65189.
RefSeqiWP_000459630.1. NZ_LN832404.1.
YP_026271.1. NC_000913.3.

Genome annotation databases

EnsemblBacteriaiAAT48229; AAT48229; b4483.
BAE77462; BAE77462; BAE77462.
GeneIDi2847752.
KEGGiecj:JW5931.
eco:b4483.
PATRICi32123179. VBIEscCol129921_3955.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X65013 Genomic DNA. No translation available.
AJ005830 Genomic DNA. Translation: CAA06727.1. Different initiation.
M87049 Genomic DNA. Translation: AAA67636.1. Frameshift.
M87049 Genomic DNA. Translation: AAA67637.1. Frameshift.
U00096 Genomic DNA. Translation: AAT48229.1.
AP009048 Genomic DNA. Translation: BAE77462.1.
PIRiA65189.
RefSeqiWP_000459630.1. NZ_LN832404.1.
YP_026271.1. NC_000913.3.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1XWYX-ray2.00A1-260[»]
4P5UX-ray2.00A1-260[»]
4PE8X-ray2.89A1-260[»]
ProteinModelPortaliP27859.
SMRiP27859. Positions 1-260.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4261335. 12 interactions.
STRINGi511145.b4483.

Proteomic databases

EPDiP27859.
PaxDbiP27859.
PRIDEiP27859.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAT48229; AAT48229; b4483.
BAE77462; BAE77462; BAE77462.
GeneIDi2847752.
KEGGiecj:JW5931.
eco:b4483.
PATRICi32123179. VBIEscCol129921_3955.

Organism-specific databases

EchoBASEiEB1446.
EcoGeneiEG11481. tatD.

Phylogenomic databases

eggNOGiENOG4105F8V. Bacteria.
COG0084. LUCA.
HOGENOMiHOG000201523.
InParanoidiP27859.
KOiK03424.
OMAiTNLHESQ.
OrthoDBiEOG66QM1C.
PhylomeDBiP27859.

Enzyme and pathway databases

BioCyciEcoCyc:EG11481-MONOMER.
ECOL316407:JW5931-MONOMER.

Miscellaneous databases

EvolutionaryTraceiP27859.
PROiP27859.

Family and domain databases

HAMAPiMF_00901. TatD_exonuclease.
InterProiIPR018228. DNase_TatD-rel_CS.
IPR024918. Exonuc_TatD.
IPR032466. Metal_Hydrolase.
IPR001130. TatD_family.
[Graphical view]
PANTHERiPTHR10060. PTHR10060. 1 hit.
PfamiPF01026. TatD_DNase. 1 hit.
[Graphical view]
PIRSFiPIRSF005902. DNase_TatD. 1 hit.
SUPFAMiSSF51556. SSF51556. 1 hit.
PROSITEiPS01090. TATD_2. 1 hit.
PS01091. TATD_3. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Escherichia coli HlyT protein, a transcriptional activator of haemolysin synthesis and secretion, is encoded by the rfaH (sfrB) locus required for expression of sex factor and lipopolysaccharide genes."
    Bailey M.J.A., Koronakis V., Schmoll T., Hughes C.
    Mol. Microbiol. 6:1003-1012(1992) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: 5KC.
  2. "Overlapping functions of components of a bacterial Sec-independent protein export pathway."
    Sargent F., Bogsch E.G., Stanley N.R., Wexler M., Robinson C., Berks B.C., Palmer T.
    EMBO J. 17:3640-3650(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], GENE NAME.
    Strain: K12.
  3. "Analysis of the Escherichia coli genome: DNA sequence of the region from 84.5 to 86.5 minutes."
    Daniels D.L., Plunkett G. III, Burland V.D., Blattner F.R.
    Science 257:771-778(1992) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / MG1655 / ATCC 47076.
  4. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / MG1655 / ATCC 47076.
  5. Cited for: SEQUENCE REVISION.
  6. "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.
  7. "TatD is a cytoplasmic protein with DNase activity. No requirement for TatD family proteins in sec-independent protein export."
    Wexler M., Sargent F., Jack R.L., Stanley N.R., Bogsch E.G., Robinson C., Berks B.C., Palmer T.
    J. Biol. Chem. 275:16717-16722(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: PROTEIN SEQUENCE OF 1-6, FUNCTION AS A DNASE, COFACTOR, SUBUNIT, SUBCELLULAR LOCATION.
  8. "Constitutive expression of Escherichia coli tat genes indicates an important role for the twin-arginine translocase during aerobic and anaerobic growth."
    Jack R.L., Sargent F., Berks B.C., Sawers G., Palmer T.
    J. Bacteriol. 183:1801-1804(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: INDUCTION.
  9. "TatD is a central component of a Tat translocon-initiated quality control system for exported FeS proteins in Escherichia coli."
    Matos C.F., Di Cola A., Robinson C.
    EMBO Rep. 10:474-479(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: PROPOSED FUNCTION IN QUALITY CONTROL.
    Strain: K12 / MC4100 / ATCC 35695 / DSM 6574.
  10. "Malfolded recombinant Tat substrates are Tat-independently degraded in Escherichia coli."
    Lindenstrauss U., Matos C.F., Graubner W., Robinson C., Brueser T.
    FEBS Lett. 584:3644-3648(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: RETRACTION, LACK OF FUNCTION IN QUALITY CONTROL.
  11. "Crystal structure of tatD DNase from Escherichia coli at 2.0 A resolution."
    New York structural genomix research consortium (NYSGXRC)
    Submitted (FEB-2009) to the PDB data bank
    Cited for: X-RAY CRYSTALLOGRAPHY (2.0 ANGSTROMS) IN COMPLEX WITH ZINC IONS, SUBUNIT.
  12. "Structure and function of TatD exonuclease in DNA repair."
    Chen Y.C., Li C.L., Hsiao Y.Y., Duh Y., Yuan H.S.
    Nucleic Acids Res. 42:10776-10785(2014) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (2.00 ANGSTROMS), FUNCTION, CATALYTIC ACTIVITY, COFACTOR, SUBUNIT, SUBCELLULAR LOCATION, DISRUPTION PHENOTYPE, MUTAGENESIS OF HIS-62; HIS-64; GLU-91; HIS-127; HIS-152; GLU-201 AND ASP-203.
    Strain: K12.

Entry informationi

Entry nameiTATD_ECOLI
AccessioniPrimary (citable) accession number: P27859
Secondary accession number(s): P27860
, P78128, P78129, Q2M8E4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 1, 1992
Last sequence update: December 1, 2000
Last modified: May 11, 2016
This is version 141 of the entry and version 3 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Caution

Was suggested to be a central component of a quality control system that is linked to the Tat translocation system (PubMed:19343049). However, it was shown later that malfolded Tat substrates are Tat-independently degraded and that TatD is not involved in quality control of the Tat substrates (PubMed:20659466).2 Publications

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
  4. Uncharacterized protein families (UPF)
    List of uncharacterized protein family (UPF) entries

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.