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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)DescriptionActionsGraphical viewLength
Metal bindingi91Divalent metal cationUniRule annotationBy similarity1
Metal bindingi127Divalent metal cationUniRule annotationBy similarity1
Metal bindingi152Divalent metal cationUniRule annotationBy similarity1

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
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.
MetaCyc:EG11481-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 lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeEscherichia
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)DescriptionActionsGraphical viewLength
Mutagenesisi62H → A: Significant decrease in nuclease activity. 1 Publication1
Mutagenesisi64H → A: No change in nuclease activity. 1 Publication1
Mutagenesisi91E → A: Lack of nuclease activity. 1 Publication1
Mutagenesisi127H → A: No change in nuclease activity. 1 Publication1
Mutagenesisi152H → A: No change in nuclease activity. 1 Publication1
Mutagenesisi201E → A: Lack of nuclease activity. 1 Publication1
Mutagenesisi203D → A: Lack of nuclease activity. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002019921 – 2603'-5' ssDNA/RNA exonuclease TatDAdd BLAST260

Proteomic databases

PaxDbiP27859.
PRIDEiP27859.

Expressioni

Inductioni

Constitutively expressed.1 Publication

Interactioni

Subunit structurei

Monomer.UniRule annotation3 Publications

Protein-protein interaction databases

BioGridi4261335. 12 interactors.
STRINGi511145.b4483.

Structurei

Secondary structure

1260
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi2 – 6Combined sources5
Helixi11 – 13Combined sources3
Turni14 – 16Combined sources3
Helixi17 – 26Combined sources10
Beta strandi31 – 34Combined sources4
Helixi39 – 51Combined sources13
Beta strandi55 – 59Combined sources5
Helixi63 – 68Combined sources6
Helixi71 – 81Combined sources11
Beta strandi86 – 95Combined sources10
Turni96 – 98Combined sources3
Beta strandi99 – 101Combined sources3
Helixi103 – 120Combined sources18
Beta strandi124 – 130Combined sources7
Helixi132 – 139Combined sources8
Helixi140 – 145Combined sources6
Beta strandi149 – 151Combined sources3
Helixi158 – 166Combined sources9
Beta strandi170 – 173Combined sources4
Helixi175 – 178Combined sources4
Turni180 – 182Combined sources3
Helixi184 – 189Combined sources6
Helixi190 – 192Combined sources3
Helixi195 – 197Combined sources3
Beta strandi198 – 200Combined sources3
Helixi223 – 225Combined sources3
Helixi226 – 236Combined sources11
Helixi241 – 256Combined sources16

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1XWYX-ray2.00A1-260[»]
4P5UX-ray2.00A1-260[»]
4PE8X-ray2.89A1-260[»]
ProteinModelPortaliP27859.
SMRiP27859.
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.
OMAiGCWSTAG.
PhylomeDBiP27859.

Family and domain databases

HAMAPiMF_00901. TatD_exonuclease. 1 hit.
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 differs from that shown. Reason: Frameshift at position 160.Curated
The sequence AAA67637 differs from that shown. Reason: Frameshift at position 182.Curated
The sequence CAA06727 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
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1XWYX-ray2.00A1-260[»]
4P5UX-ray2.00A1-260[»]
4PE8X-ray2.89A1-260[»]
ProteinModelPortaliP27859.
SMRiP27859.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4261335. 12 interactors.
STRINGi511145.b4483.

Proteomic databases

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.
OMAiGCWSTAG.
PhylomeDBiP27859.

Enzyme and pathway databases

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

Miscellaneous databases

EvolutionaryTraceiP27859.
PROiP27859.

Family and domain databases

HAMAPiMF_00901. TatD_exonuclease. 1 hit.
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...

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: November 2, 2016
This is version 144 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.