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A3MS62 (DNLI_PYRCJ) Reviewed, UniProtKB/Swiss-Prot

Last modified May 14, 2014. Version 53. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (1) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
DNA ligase

EC=6.5.1.1
Alternative name(s):
Polydeoxyribonucleotide synthase [ATP]
Gene names
Name:lig
Ordered Locus Names:Pcal_0039
OrganismPyrobaculum calidifontis (strain JCM 11548 / VA1) [Complete proteome] [HAMAP]
Taxonomic identifier410359 [NCBI]
Taxonomic lineageArchaeaCrenarchaeotaThermoproteiThermoprotealesThermoproteaceaePyrobaculum

Protein attributes

Sequence length583 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

Cofactor

Divalent metal cations By similarity. HAMAP-Rule MF_00407

Sequence similarities

Belongs to the ATP-dependent DNA ligase family.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 583583DNA ligase HAMAP-Rule MF_00407
PRO_1000049876

Sites

Active site2511N6-AMP-lysine intermediate By similarity
Binding site2491ATP By similarity
Binding site2561ATP By similarity
Binding site2711ATP By similarity
Binding site3011ATP By similarity
Binding site3411ATP By similarity
Binding site4161ATP By similarity
Binding site4221ATP By similarity

Sequences

Sequence LengthMass (Da)Tools
A3MS62 [UniParc].

Last modified April 3, 2007. Version 1.
Checksum: 3B3B4E318FC2C215

FASTA58364,840
        10         20         30         40         50         60 
MQFGELAKVL AAVESTTQRT TMVKLLTSLF KKAKPEEIDK IVYFILGDLR PPWEGVELGV 

        70         80         90        100        110        120 
AEKLCIRAIS KATGLSAAEL EGWYKKSGDV GEVARRALAA GKRPTLLAFA QQKPLEVAEV 

       130        140        150        160        170        180 
YDTLLKVAKA AGEGAQDLKV SLLSSLFSRA SPEEAKYIAR FVVGKLRLGV ADMTLIEALS 

       190        200        210        220        230        240 
EAFGVSKEGL ERAYHVYPDL GRLARHVAEG RPLEEIKITP GVPVLPMLAQ RLSSASEILA 

       250        260        270        280        290        300 
KLGGTAICEY KYDGERAQIH LREGSVKIFS RRLEDITHAY PDVAKAVKEA VKAREAILEG 

       310        320        330        340        350        360 
EIVAVDPDTG EMLPFQELMH RKRKHDVAEA MEAYPAVLYL FDLLYVDGED LTTQPLIYRR 

       370        380        390        400        410        420 
LRLSEVVEEG GDVYIAKWGM FDGAEDVDLF FHEAVSLGTE GLICKSPTST YEMGARGWNW 

       430        440        450        460        470        480 
IKYKRDYRSE MIDTVDLVVV GAFHGRGKRA GLYGAFLLAA YDPSTDMFYT VCKVGSGFTD 

       490        500        510        520        530        540 
ADLRRMYDML QPLKIPHRHP RVVSKMQPDV WFVPQVVIEV IGAEITLSPL HTCCIGAVKP 

       550        560        570        580 
GVGLAIRFPR FTGRYRTDKR PEDATTTKEL VEMYQRQKKV PTT 

« Hide

References

[1]"Complete sequence of Pyrobaculum calidifontis JCM 11548."
US DOE Joint Genome Institute
Copeland A., Lucas S., Lapidus A., Barry K., Glavina del Rio T., Dalin E., Tice H., Pitluck S., Chain P., Malfatti S., Shin M., Vergez L., Schmutz J., Larimer F., Land M., Hauser L., Kyrpides N., Mikhailova N. expand/collapse author list , Cozen A.E., Fitz-Gibbon S.T., House C.H., Saltikov C., Lowe T.M., Richardson P.
Submitted (FEB-2007) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: JCM 11548 / VA1.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
CP000561 Genomic DNA. Translation: ABO07479.1.
RefSeqYP_001054945.1. NC_009073.1.

3D structure databases

ProteinModelPortalA3MS62.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING410359.Pcal_0039.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaABO07479; ABO07479; Pcal_0039.
GeneID4908550.
KEGGpcl:Pcal_0039.

Organism-specific databases

CMRSearch...

Phylogenomic databases

eggNOGCOG1793.
HOGENOMHOG000036008.
KOK10747.
OMALDPSGYN.

Enzyme and pathway databases

BioCycPCAL410359:GIX2-39-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]
SUPFAMSSF117018. SSF117018. 1 hit.
SSF50249. SSF50249. 1 hit.
TIGRFAMsTIGR00574. dnl1. 1 hit.
PROSITEPS00697. DNA_LIGASE_A1. 1 hit.
PS50160. DNA_LIGASE_A3. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameDNLI_PYRCJ
AccessionPrimary (citable) accession number: A3MS62
Entry history
Integrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: April 3, 2007
Last modified: May 14, 2014
This is version 53 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families