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Q5YNY7 (DNLI_NOCFA) Reviewed, UniProtKB/Swiss-Prot

Last modified February 19, 2014. Version 75. 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:
Probable DNA ligase

EC=6.5.1.1
Alternative name(s):
Polydeoxyribonucleotide synthase [ATP]
Gene names
Name:lig
Ordered Locus Names:NFA_52520
OrganismNocardia farcinica (strain IFM 10152) [Complete proteome] [HAMAP]
Taxonomic identifier247156 [NCBI]
Taxonomic lineageBacteriaActinobacteriaActinobacteridaeActinomycetalesCorynebacterineaeNocardiaceaeNocardia

Protein attributes

Sequence length523 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 – 523523Probable DNA ligase HAMAP-Rule MF_00407
PRO_0000365235

Sites

Active site2121N6-AMP-lysine intermediate By similarity
Binding site2101ATP By similarity
Binding site2171ATP By similarity
Binding site2321ATP By similarity
Binding site2611ATP By similarity
Binding site3171ATP By similarity
Binding site3881ATP By similarity
Binding site3941ATP By similarity

Sequences

Sequence LengthMass (Da)Tools
Q5YNY7 [UniParc].

Last modified November 23, 2004. Version 1.
Checksum: 398B9736FF4F94BA

FASTA52356,457
        10         20         30         40         50         60 
MLFADVVRTS EAVRATRSRK TKVAALAELL RAAESAELAP VVAWLSGELR QGRIGTGWRT 

        70         80         90        100        110        120 
LTGVRVPPAL DAALEVATVD AIFDELAAVS GAGSGNRRKE LLTRLWSAAT EPEQEFLLRL 

       130        140        150        160        170        180 
LTGELRQGAL TALVAEAVAA AADVPVEQVR RAYMLSGQLP VTAEAALRGG AAALAEFRLE 

       190        200        210        220        230        240 
VGRPIQPMLA APGASLEEAM TEFGGEVSVE HKLDGARIQV HRDGDRIAVF TRTLRDITAG 

       250        260        270        280        290        300 
VPELVELVAR LDCTSVVLDG ETLALTDAGR PRPFQETMSR FATADPARAA EVDLPPGTPV 

       310        320        330        340        350        360 
VPPVSSTREL LLHPYFFDCL HLDGRDLLDA PLSERRAALL AVVGEHAIPA LIRPEPEAAA 

       370        380        390        400        410        420 
EYFDGALAAG HEGLMVKSLS APYAAGRRGR SWQKIKPTHT LDLLVLGAEW GYGRRTGYLS 

       430        440        450        460        470        480 
NLHLGARDPR TGEPVMVGKT FKGLTDALLA WQTAEFPRHE RARDEHTVYL WPELVVEIAL 

       490        500        510        520 
DGVQVSPRYP GGVALRFARV VRYRPDKTPD QADTIDTVRG LLP 

« Hide

References

[1]"The complete genomic sequence of Nocardia farcinica IFM 10152."
Ishikawa J., Yamashita A., Mikami Y., Hoshino Y., Kurita H., Hotta K., Shiba T., Hattori M.
Proc. Natl. Acad. Sci. U.S.A. 101:14925-14930(2004) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: IFM 10152.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AP006618 Genomic DNA. Translation: BAD60104.1.
RefSeqYP_121468.1. NC_006361.1.

3D structure databases

ProteinModelPortalQ5YNY7.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING247156.nfa52520.

Proteomic databases

PRIDEQ5YNY7.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaBAD60104; BAD60104; NFA_52520.
GeneID3110671.
KEGGnfa:nfa52520.
PATRIC22740091. VBINocFar94200_5264.

Organism-specific databases

CMRSearch...

Phylogenomic databases

eggNOGCOG1793.
KOK01971.
OMAGRPRPFQ.
OrthoDBEOG6Q8HXT.
ProtClustDBPRK03180.

Enzyme and pathway databases

BioCycNFAR247156:GJ9T-5323-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. 2 hits.
[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_NOCFA
AccessionPrimary (citable) accession number: Q5YNY7
Entry history
Integrated into UniProtKB/Swiss-Prot: March 3, 2009
Last sequence update: November 23, 2004
Last modified: February 19, 2014
This is version 75 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