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Protein

Probable DNA ligase

Gene

lig

Organism
Nocardioides sp. (strain BAA-499 / JS614)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

DNA ligase that seals nicks in double-stranded DNA during DNA replication, DNA recombination and DNA repair.UniRule annotation

Catalytic activityi

ATP + (deoxyribonucleotide)(n) + (deoxyribonucleotide)(m) = AMP + diphosphate + (deoxyribonucleotide)(n+m).UniRule annotation

Cofactori

Mg2+UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei218 – 2181ATPUniRule annotation
Active sitei220 – 2201N6-AMP-lysine intermediateUniRule annotation
Binding sitei225 – 2251ATPUniRule annotation
Binding sitei240 – 2401ATPUniRule annotation
Binding sitei269 – 2691ATPUniRule annotation
Binding sitei302 – 3021ATPUniRule annotation
Binding sitei374 – 3741ATPUniRule annotation
Binding sitei380 – 3801ATPUniRule annotation

GO - Molecular functioni

  1. ATP binding Source: UniProtKB-HAMAP
  2. DNA binding Source: InterPro
  3. DNA ligase (ATP) activity Source: UniProtKB-HAMAP
  4. metal ion binding Source: UniProtKB-KW

GO - Biological processi

  1. cell cycle Source: UniProtKB-KW
  2. cell division Source: UniProtKB-KW
  3. DNA biosynthetic process Source: InterPro
  4. DNA ligation involved in DNA repair Source: InterPro
  5. DNA recombination Source: UniProtKB-HAMAP
  6. DNA replication Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Molecular functioni

Ligase

Keywords - Biological processi

Cell cycle, Cell division, DNA damage, DNA recombination, DNA repair, DNA replication

Keywords - Ligandi

ATP-binding, Magnesium, Metal-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyciNSP196162:GH4V-2889-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Probable DNA ligaseUniRule annotation (EC:6.5.1.1UniRule annotation)
Alternative name(s):
Polydeoxyribonucleotide synthase [ATP]UniRule annotation
Gene namesi
Name:ligUniRule annotation
Ordered Locus Names:Noca_2845
OrganismiNocardioides sp. (strain BAA-499 / JS614)
Taxonomic identifieri196162 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaActinobacteridaeActinomycetalesPropionibacterineaeNocardioidaceaeNocardioides
ProteomesiUP000000640: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 509509Probable DNA ligasePRO_0000365236Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi196162.Noca_2845.

Structurei

3D structure databases

ProteinModelPortaliA1SKL2.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the ATP-dependent DNA ligase family.UniRule annotation

Phylogenomic databases

eggNOGiCOG1793.
HOGENOMiHOG000036008.
KOiK01971.
OMAiGRPRPFQ.
OrthoDBiEOG6Q8HXT.

Family and domain databases

Gene3Di1.10.3260.10. 1 hit.
2.40.50.140. 1 hit.
HAMAPiMF_00407. DNA_ligase.
InterProiIPR022865. 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]
PfamiPF04679. DNA_ligase_A_C. 1 hit.
PF01068. DNA_ligase_A_M. 1 hit.
PF04675. DNA_ligase_A_N. 1 hit.
[Graphical view]
SUPFAMiSSF117018. SSF117018. 1 hit.
SSF50249. SSF50249. 1 hit.
TIGRFAMsiTIGR00574. dnl1. 1 hit.
PROSITEiPS00697. DNA_LIGASE_A1. 1 hit.
PS00333. DNA_LIGASE_A2. 1 hit.
PS50160. DNA_LIGASE_A3. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

A1SKL2-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MNGAVLIADV VATSAAITAT RSRKAKVAAI ADLLARADPR RSGADELETV
60 70 80 90 100
TAYVGGALRQ RRTGLGWRGL TKLPAPAPGP TLSVLEVHEA FERIAAPAGA
110 120 130 140 150
GSQAARAAAV ADLFGRATAE EQQWLRGVVT GEVRQGALDS LVQEGLAAAA
160 170 180 190 200
GVPLPEVRRA AMLAGSTVAV AAAAFEGVAA LGAVGLQVGR PVLPMLASSA
210 220 230 240 250
PDLAAALARA GGDEVAVDTK LDGIRIQVHR SGPDVVVATR SLEDITARLP
260 270 280 290 300
EVVEVARALP ADSFVLDGEA LALAEDGRPR PFQETAARTA MGAGVEVTPY
310 320 330 340 350
FFDVLHLDGA DLLDVSAAER AAVLERLVPA EHRVPRVVTA DLGVAEEFLA
360 370 380 390 400
GALRSGHEGV VVKSLAAPYE AGRRGASWVK VKPVHTLDLV VLAVEWGSGR
410 420 430 440 450
RQGWLSNIHL GARDPATGGL VMLGKTFKGM TDEVLAWQTE RFLELETSRS
460 470 480 490 500
AHVVHVRPEQ VVEIAFDGVQ RSTRYPGGVA LRFARVLRYR DDKPVAEIDT

VDTVRSFLG
Length:509
Mass (Da):53,371
Last modified:February 6, 2007 - v1
Checksum:iD1533EF8065E8329
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000509 Genomic DNA. Translation: ABL82347.1.
RefSeqiWP_011756285.1. NC_008699.1.
YP_924034.1. NC_008699.1.

Genome annotation databases

EnsemblBacteriaiABL82347; ABL82347; Noca_2845.
GeneIDi4598444.
KEGGinca:Noca_2845.
PATRICi22747747. VBINocSp122728_3108.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000509 Genomic DNA. Translation: ABL82347.1.
RefSeqiWP_011756285.1. NC_008699.1.
YP_924034.1. NC_008699.1.

3D structure databases

ProteinModelPortaliA1SKL2.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi196162.Noca_2845.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABL82347; ABL82347; Noca_2845.
GeneIDi4598444.
KEGGinca:Noca_2845.
PATRICi22747747. VBINocSp122728_3108.

Phylogenomic databases

eggNOGiCOG1793.
HOGENOMiHOG000036008.
KOiK01971.
OMAiGRPRPFQ.
OrthoDBiEOG6Q8HXT.

Enzyme and pathway databases

BioCyciNSP196162:GH4V-2889-MONOMER.

Family and domain databases

Gene3Di1.10.3260.10. 1 hit.
2.40.50.140. 1 hit.
HAMAPiMF_00407. DNA_ligase.
InterProiIPR022865. 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]
PfamiPF04679. DNA_ligase_A_C. 1 hit.
PF01068. DNA_ligase_A_M. 1 hit.
PF04675. DNA_ligase_A_N. 1 hit.
[Graphical view]
SUPFAMiSSF117018. SSF117018. 1 hit.
SSF50249. SSF50249. 1 hit.
TIGRFAMsiTIGR00574. dnl1. 1 hit.
PROSITEiPS00697. DNA_LIGASE_A1. 1 hit.
PS00333. DNA_LIGASE_A2. 1 hit.
PS50160. DNA_LIGASE_A3. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "Complete sequence of chromosome 1 of Nocardioides sp. JS614."
    Copeland A., Lucas S., Lapidus A., Barry K., Detter J.C., Glavina del Rio T., Hammon N., Israni S., Dalin E., Tice H., Pitluck S., Thompson L.S., Brettin T., Bruce D., Han C., Tapia R., Schmutz J., Larimer F.
    , Land M., Hauser L., Kyrpides N., Kim E., Mattes T., Gossett J., Richardson P.
    Submitted (DEC-2006) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: BAA-499 / JS614.

Entry informationi

Entry nameiDNLI_NOCSJ
AccessioniPrimary (citable) accession number: A1SKL2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 3, 2009
Last sequence update: February 6, 2007
Last modified: February 4, 2015
This is version 66 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, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.