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C6DCC8

- END8_PECCP

UniProt

C6DCC8 - END8_PECCP

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Protein

Endonuclease 8

Gene

nei

Organism
Pectobacterium carotovorum subsp. carotovorum (strain PC1)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi

Functioni

Involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. Acts as DNA glycosylase that recognizes and removes damaged bases. Has a preference for oxidized pyrimidines, such as thymine glycol, 5,6-dihydrouracil and 5,6-dihydrothymine. Has AP (apurinic/apyrimidinic) lyase activity and introduces nicks in the DNA strand. Cleaves the DNA backbone by beta-delta elimination to generate a single-strand break at the site of the removed base with both 3'- and 5'-phosphates.UniRule annotation

Catalytic activityi

Removes damaged bases from DNA, leaving an abasic site.UniRule annotation
The C-O-P bond 3' to the apurinic or apyrimidinic site in DNA is broken by a beta-elimination reaction, leaving a 3'-terminal unsaturated sugar and a product with a terminal 5'-phosphate.UniRule annotation

Cofactori

Zn2+UniRule annotationNote: Binds 1 zinc ion per subunit.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei2 – 21Schiff-base intermediate with DNAUniRule annotation
Active sitei3 – 31Proton donorUniRule annotation
Active sitei53 – 531Proton donor; for beta-elimination activityUniRule annotation
Binding sitei70 – 701DNAUniRule annotation
Binding sitei125 – 1251DNAUniRule annotation
Binding sitei169 – 1691DNAUniRule annotation
Active sitei253 – 2531Proton donor; for delta-elimination activityUniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri229 – 26335FPG-typeUniRule annotationAdd
BLAST

GO - Molecular functioni

  1. damaged DNA binding Source: InterPro
  2. oxidized pyrimidine nucleobase lesion DNA N-glycosylase activity Source: UniProtKB-HAMAP
  3. zinc ion binding Source: UniProtKB-HAMAP

GO - Biological processi

  1. base-excision repair Source: InterPro
  2. nucleotide-excision repair Source: InterPro
Complete GO annotation...

Keywords - Molecular functioni

Glycosidase, Hydrolase, Lyase

Keywords - Biological processi

DNA damage, DNA repair

Keywords - Ligandi

DNA-binding, Metal-binding, Zinc

Enzyme and pathway databases

BioCyciPCAR561230:GKCK-1266-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Endonuclease 8UniRule annotation
Alternative name(s):
DNA glycosylase/AP lyase NeiUniRule annotation (EC:3.2.2.-UniRule annotation, EC:4.2.99.18UniRule annotation)
DNA-(apurinic or apyrimidinic site) lyase NeiUniRule annotation
Endonuclease VIIIUniRule annotation
Gene namesi
Name:neiUniRule annotation
Ordered Locus Names:PC1_1230
OrganismiPectobacterium carotovorum subsp. carotovorum (strain PC1)
Taxonomic identifieri561230 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaePectobacterium
ProteomesiUP000002736: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methioninei1 – 11RemovedUniRule annotation
Chaini2 – 263262Endonuclease 8PRO_1000214116Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi561230.PC1_1230.

Family & Domainsi

Sequence similaritiesi

Belongs to the FPG family.UniRule annotation
Contains 1 FPG-type zinc finger.UniRule annotation

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri229 – 26335FPG-typeUniRule annotationAdd
BLAST

Keywords - Domaini

Zinc-finger

Phylogenomic databases

eggNOGiCOG0266.
HOGENOMiHOG000020882.
KOiK05522.
OMAiGPDVLDM.
OrthoDBiEOG6QP131.

Family and domain databases

HAMAPiMF_01253. Endonuclease_8.
InterProiIPR015886. DNA_glyclase/AP_lyase_DNA-bd.
IPR015887. DNA_glyclase_Znf_dom_DNA_BS.
IPR012319. DNA_glycosylase/AP_lyase_cat.
IPR023713. Endonuclease-VIII.
IPR010979. Ribosomal_S13-like_H2TH.
IPR000214. Znf_DNA_glyclase/AP_lyase.
IPR010663. Znf_DNA_glyclase/IsotRNA_synth.
[Graphical view]
PfamiPF01149. Fapy_DNA_glyco. 1 hit.
PF06831. H2TH. 1 hit.
PF06827. zf-FPG_IleRS. 1 hit.
[Graphical view]
SMARTiSM00898. Fapy_DNA_glyco. 1 hit.
[Graphical view]
SUPFAMiSSF46946. SSF46946. 1 hit.
SSF81624. SSF81624. 1 hit.
PROSITEiPS51068. FPG_CAT. 1 hit.
PS01242. ZF_FPG_1. 1 hit.
PS51066. ZF_FPG_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

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

C6DCC8-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MPEGPEIRRA ADKLVEAVVG KTLTRVWFAF PELKPYEAEL VGQQVRQIAT
60 70 80 90 100
RGKALLTYFS NDRVLYSHNQ LYGVWRVVNA GESPETKRDL RVRLETQNRA
110 120 130 140 150
ILLYSASDIE MLTPEALTTH PFLQRIGPDV LDLSLTPEQV YERLLLPRFR
160 170 180 190 200
RRQFSGLLLD QAFLAGLGNY LRVEILWQAQ LAPQHTAAQL NEEQLQTLSQ
210 220 230 240 250
ALLEIPRLSY NTRGTVDENH HHGAIFSFKV FHRDGESCER CGGIIERTML
260
SSRPFYWCPH CQR
Length:263
Mass (Da):30,272
Last modified:September 1, 2009 - v1
Checksum:iD30BB568BAAEEF92
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001657 Genomic DNA. Translation: ACT12278.1.
RefSeqiWP_015839510.1. NC_012917.1.
YP_003016814.1. NC_012917.1.

Genome annotation databases

EnsemblBacteriaiACT12278; ACT12278; PC1_1230.
GeneIDi8132165.
KEGGipct:PC1_1230.
PATRICi20487082. VBIPecCar70489_1236.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001657 Genomic DNA. Translation: ACT12278.1 .
RefSeqi WP_015839510.1. NC_012917.1.
YP_003016814.1. NC_012917.1.

3D structure databases

ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 561230.PC1_1230.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ACT12278 ; ACT12278 ; PC1_1230 .
GeneIDi 8132165.
KEGGi pct:PC1_1230.
PATRICi 20487082. VBIPecCar70489_1236.

Phylogenomic databases

eggNOGi COG0266.
HOGENOMi HOG000020882.
KOi K05522.
OMAi GPDVLDM.
OrthoDBi EOG6QP131.

Enzyme and pathway databases

BioCyci PCAR561230:GKCK-1266-MONOMER.

Family and domain databases

HAMAPi MF_01253. Endonuclease_8.
InterProi IPR015886. DNA_glyclase/AP_lyase_DNA-bd.
IPR015887. DNA_glyclase_Znf_dom_DNA_BS.
IPR012319. DNA_glycosylase/AP_lyase_cat.
IPR023713. Endonuclease-VIII.
IPR010979. Ribosomal_S13-like_H2TH.
IPR000214. Znf_DNA_glyclase/AP_lyase.
IPR010663. Znf_DNA_glyclase/IsotRNA_synth.
[Graphical view ]
Pfami PF01149. Fapy_DNA_glyco. 1 hit.
PF06831. H2TH. 1 hit.
PF06827. zf-FPG_IleRS. 1 hit.
[Graphical view ]
SMARTi SM00898. Fapy_DNA_glyco. 1 hit.
[Graphical view ]
SUPFAMi SSF46946. SSF46946. 1 hit.
SSF81624. SSF81624. 1 hit.
PROSITEi PS51068. FPG_CAT. 1 hit.
PS01242. ZF_FPG_1. 1 hit.
PS51066. ZF_FPG_2. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. "Complete sequence of Pectobacterium carotovorum subsp. carotovorum PC1."
    US DOE Joint Genome Institute
    Lucas S., Copeland A., Lapidus A., Glavina del Rio T., Tice H., Bruce D., Goodwin L., Pitluck S., Munk A.C., Brettin T., Detter J.C., Han C., Tapia R., Larimer F., Land M., Hauser L., Kyrpides N., Mikhailova N.
    , Balakrishnan V., Glasner J., Perna N.T.
    Submitted (JUL-2009) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: PC1.

Entry informationi

Entry nameiEND8_PECCP
AccessioniPrimary (citable) accession number: C6DCC8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 22, 2009
Last sequence update: September 1, 2009
Last modified: November 26, 2014
This is version 38 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

Complete proteome, Multifunctional enzyme

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3