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C9RDY7 (C9RDY7_METVM) Unreviewed, UniProtKB/TrEMBL

Last modified May 29, 2013. Version 28. Feed History...

Clusters with 100%, 90%, 50% identity | Third-party data text xml rdf/xml gff fasta
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Names and origin

Protein namesRecommended name:
DNA ligase HAMAP-Rule MF_00407 RuleBase RU000617
EC=6.5.1.1 HAMAP-Rule MF_00407 RuleBase RU000617
Alternative name(s):
Polydeoxyribonucleotide synthase [ATP] HAMAP-Rule MF_00407
Gene names
Name:lig HAMAP-Rule MF_00407
Ordered Locus Names:Metvu_1663
OrganismMethanocaldococcus vulcanius (strain ATCC 700851 / DSM 12094 / M7) (Methanococcus vulcanius) [Complete proteome] [HAMAP]
Taxonomic identifier579137 [NCBI]
Taxonomic lineageArchaea › Euryarchaeota › Methanococci › Methanococcales › Methanocaldococcaceae › Methanocaldococcus ›

Protein attributes

Sequence length573 AA.
Sequence statusComplete.
Protein existenceInferred from homology

General annotation (Comments)

Function

DNA ligase that seals nicks in double-stranded DNA during DNA replication, DNA recombination and DNA repair By similarity. HAMAP-Rule MF_00407

Catalytic activity

ATP + (deoxyribonucleotide)(n) + (deoxyribonucleotide)(m) = AMP + diphosphate + (deoxyribonucleotide)(n+m). HAMAP-Rule MF_00407 RuleBase RU000617

Cofactor

Divalent metal cations By similarity. HAMAP-Rule MF_00407

Sequence similarities

Belongs to the ATP-dependent DNA ligase family. HAMAP-Rule MF_00407 RuleBase RU004196

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Sites

Active site2501N6-AMP-lysine intermediate By similarity HAMAP-Rule MF_00407
Binding site2481ATP By similarity HAMAP-Rule MF_00407
Binding site2551ATP By similarity HAMAP-Rule MF_00407
Binding site2701ATP By similarity HAMAP-Rule MF_00407
Binding site2991ATP By similarity HAMAP-Rule MF_00407
Binding site3401ATP By similarity HAMAP-Rule MF_00407
Binding site4321ATP By similarity HAMAP-Rule MF_00407
Binding site4381ATP By similarity HAMAP-Rule MF_00407

Sequences

Sequence LengthMass (Da)Tools
C9RDY7 [UniParc].

Last modified November 24, 2009. Version 1.
Checksum: 9C5FDFF9566B3945

FASTA57366,685
        10         20         30         40         50         60 
MLWKDVCEIF DKIENTTKRL EKRDYFIKLI DLVKEKGKPE DLKKICYMAI GRVYPEYDER 

        70         80         90        100        110        120 
ELGIGEKLLI NAITSMGIKK EELLEKIKET GDIGFAVEQL KSKTKQLSLL LSPLTVDDVY 

       130        140        150        160        170        180 
ETLKRVGEIE GEGSQKKKLR LISSLFMRAS PIECRYLARL ILEDMRLGMN VPTILDALSV 

       190        200        210        220        230        240 
YFNVPKEKLE KIYAITNDIG LLAEKLIKNE LESEDLKLKL FRPIKPMLAQ LAPSIEEALL 

       250        260        270        280        290        300 
EMGKAQFETK YDGARVQIHK GGDKVKIYSR RLEDVTNALP EIVDAIKKIN VEELIVEGEC 

       310        320        330        340        350        360 
VAIDKQTGKP RPFQDILRRF RRKYDIGKMM KEINLRVYLF DILYKNGTSL IDEEFEKRRK 

       370        380        390        400        410        420 
ELEDIVGYEN DWRTERERIE RELKSDKIVD ISYKLVSDDP KEAREFYNWS LSIGHEGVMI 

       430        440        450        460        470        480 
KNLKAPYTPG SRVRTMYKFK PTLESLDVVI TKAKRGMGKR KDWYGSFEIC VKDEEGNLYP 

       490        500        510        520        530        540 
IGYVGTGLSE ADLEMLKEEI DKIIKRDLGE EVEVEPKIVI EVAYEEIQKS DKYPCGYALR 

       550        560        570 
FPRVVRFRFD KGKDDINTVK DVERIYEIQR GRK

« Hide

References

[1]"Complete sequence of chromosome of Methanocaldococcus vulcanius M7."
US DOE Joint Genome Institute
Lucas S., Copeland A., Lapidus A., Glavina del Rio T., Dalin E., Tice H., Bruce D., Goodwin L., Pitluck S., Lcollab F.I., Brettin T., Detter J.C., Han C., Tapia R., Kuske C.R., Schmutz J., Larimer F., Land M. expand/collapse author list , Hauser L., Kyrpides N., Ovchinikova G., Sieprawska-Lupa M., Whitman W.B., Woyke T.
Submitted (OCT-2009) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: ATCC 700851 / DSM 12094 / M7.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ		CP001787 Genomic DNA. Translation: ACX73516.1.
RefSeqYP_003247998.1. NC_013407.1.

3D structure databases

ModBaseSearch...

Protein-protein interaction databases

STRING579137.Metvu_1663.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaACX73516; ACX73516; Metvu_1663.
GeneID8514023.
KEGGmvu:Metvu_1663.

Organism-specific databases

CMRSearch...

Phylogenomic databases

eggNOGCOG1793.
HOGENOMHOG000036008.
KOK10747.
OMAARVQVHK.

Enzyme and pathway databases

BioCycMVUL579137:GHFP-1697-MONOMER.

Family and domain databases

Gene3D1.10.3260.10. 1 hit.
2.40.50.140. 1 hit.
HAMAPMF_00407. DNA_ligase.
InterProIPR022865. DNA_ligae_ATP-dep_bac/arc.
IPR000977. DNA_ligase_ATP-dep.
IPR012309. DNA_ligase_ATP-dep_C.
IPR012310. DNA_ligase_ATP-dep_cent.
IPR016059. DNA_ligase_ATP-dep_CS.
IPR012308. DNA_ligase_ATP-dep_N.
IPR012340. NA-bd_OB-fold.
[Graphical view]
PfamPF04679. DNA_ligase_A_C. 1 hit.
PF01068. DNA_ligase_A_M. 1 hit.
PF04675. DNA_ligase_A_N. 1 hit.
[Graphical view]
SUPFAMSSF50249. Nucleic_acid_OB. 1 hit.
SSF117018. SSF117018. 1 hit.
TIGRFAMsTIGR00574. dnl1. 1 hit.
PROSITEPS00697. DNA_LIGASE_A1. 1 hit.
PS00333. DNA_LIGASE_A2. 1 hit.
PS50160. DNA_LIGASE_A3. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameC9RDY7_METVM
AccessionPrimary (citable) accession number: C9RDY7
Entry history
Integrated into UniProtKB/TrEMBL: November 24, 2009
Last sequence update: November 24, 2009
Last modified: May 29, 2013
This is version 28 of the entry and version 1 of the sequence. [Complete history]
Entry statusUnreviewed (UniProtKB/TrEMBL)
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info