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A3DP49 (DNLI_STAMF) Reviewed, UniProtKB/Swiss-Prot

Last modified May 14, 2014. Version 58. 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:Smar_1318
OrganismStaphylothermus marinus (strain ATCC 43588 / DSM 3639 / F1) [Complete proteome] [HAMAP]
Taxonomic identifier399550 [NCBI]
Taxonomic lineageArchaeaCrenarchaeotaThermoproteiDesulfurococcalesDesulfurococcaceaeStaphylothermus

Protein attributes

Sequence length597 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 caution

The sequence ABN70409.1 differs from that shown. Reason: Erroneous initiation.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 597597DNA ligase HAMAP-Rule MF_00407
PRO_0000365264

Sites

Active site2641N6-AMP-lysine intermediate By similarity
Binding site2621ATP By similarity
Binding site2691ATP By similarity
Binding site2841ATP By similarity
Binding site3141ATP By similarity
Binding site3541ATP By similarity
Binding site4311ATP By similarity
Binding site4371ATP By similarity

Sequences

Sequence LengthMass (Da)Tools
A3DP49 [UniParc].

Last modified March 3, 2009. Version 2.
Checksum: CA4E62C8890515D6

FASTA59767,627
        10         20         30         40         50         60 
MPFRELADTF ERIEIITSRT QMTVLLVNLF KKTPPEIIDK VVYLLQGRLW PDWKGLPELG 

        70         80         90        100        110        120 
VGEKMLIKAI ALATQSTESE VESLYKSLGD LGKAAEKLKA IYEEKLKKGA MSILAFVPVK 

       130        140        150        160        170        180 
RELTVSQVYE TLSRVALATG EGSRDIKLKL LAGLLSDASP KEAKYIIRFV EGRLRLGIGD 

       190        200        210        220        230        240 
ATIMDALAIV YGGGAHARPI VERAYNLRAD LGHIAKILAT QGLNALKGIK PQVGIPIRPM 

       250        260        270        280        290        300 
LAERLNNPVE ILKKVGGIAF VEYKYDGERA QIHKLGDKIW IYSRRLENIT HQYPDVVDYA 

       310        320        330        340        350        360 
RKYIKANEAI VEGEIVAYDP DTGELRPFQE LMHRKRKHDI HIAIKEVPVK VYLFDLLYVD 

       370        380        390        400        410        420 
GEDYTLKPLP ERRAKLVEII EQTETFQIAE YIRTNNPDEL EKFFLKAIED GAEGVMIKAL 

       430        440        450        460        470        480 
HKNAIYQAGT RGWLWIKYKR DYKSEMIDTV DLVVIGAFYG RGRRGGKYGA LLMASYNPDK 

       490        500        510        520        530        540 
DVFESVCKVG SGFKDEDIDK LPEMLKPYII EHKHPRVVAR MKPDVWVTPA LVAEIIGAEL 

       550        560        570        580        590 
TLSPLHTCCL DIIKPGVGIS IRFPRFIRWR PDKGPEDATT SQELLEMYKR QLKKLSE 

« Hide

References

[1]"The complete genome sequence of Staphylothermus marinus reveals differences in sulfur metabolism among heterotrophic Crenarchaeota."
Anderson I.J., Dharmarajan L., Rodriguez J., Hooper S., Porat I., Ulrich L.E., Elkins J.G., Mavromatis K., Sun H., Land M., Lapidus A., Lucas S., Barry K., Huber H., Zhulin I.B., Whitman W.B., Mukhopadhyay B., Woese C., Bristow J., Kyrpides N.
BMC Genomics 10:145-145(2009) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: ATCC 43588 / DSM 3639 / F1.
[2]"Complete genome sequence of Staphylothermus marinus Stetter and Fiala 1986 type strain F1."
Anderson I.J., Sun H., Lapidus A., Copeland A., Glavina Del Rio T., Tice H., Dalin E., Lucas S., Barry K., Land M., Richardson P., Huber H., Kyrpides N.C.
Stand. Genomic Sci. 1:183-188(2009) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: ATCC 43588 / DSM 3639 / F1.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
CP000575 Genomic DNA. Translation: ABN70409.1. Different initiation.
RefSeqYP_001041317.1. NC_009033.1.

3D structure databases

ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING399550.Smar_1318.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaABN70409; ABN70409; Smar_1318.
GeneID4906593.
KEGGsmr:Smar_1318.

Organism-specific databases

CMRSearch...

Phylogenomic databases

eggNOGCOG1793.
HOGENOMHOG000036008.
KOK10747.

Enzyme and pathway databases

BioCycSMAR399550:GHK2-1370-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.
PS00333. DNA_LIGASE_A2. 1 hit.
PS50160. DNA_LIGASE_A3. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameDNLI_STAMF
AccessionPrimary (citable) accession number: A3DP49
Entry history
Integrated into UniProtKB/Swiss-Prot: March 3, 2009
Last sequence update: March 3, 2009
Last modified: May 14, 2014
This is version 58 of the entry and version 2 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