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Protein

DNA ligase 1

Gene

lig-1

Organism
Caenorhabditis elegans
Status
Reviewed-Annotation score: Annotation score: 4 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.By similarity

Catalytic activityi

ATP + (deoxyribonucleotide)(n)-3'-hydroxyl + 5'-phospho-(deoxyribonucleotide)(m) = (deoxyribonucleotide)(n+m) + AMP + diphosphate.PROSITE-ProRule annotation

Cofactori

Mg2+By similarity

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei287ATPBy similarity1
Active sitei289N6-AMP-lysine intermediatePROSITE-ProRule annotation1
Binding sitei294ATPBy similarity1
Binding sitei310ATPBy similarity1
Metal bindingi342Magnesium 1By similarity1
Metal bindingi439Magnesium 2By similarity1
Binding sitei444ATPBy similarity1
Binding sitei457ATPBy similarity1
Binding sitei463ATPBy similarity1

GO - Molecular functioni

GO - Biological processi

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

ReactomeiR-CEL-5358565. Mismatch repair (MMR) directed by MSH2:MSH6 (MutSalpha).
R-CEL-5358606. Mismatch repair (MMR) directed by MSH2:MSH3 (MutSbeta).
R-CEL-69183. Processive synthesis on the lagging strand.

Names & Taxonomyi

Protein namesi
Recommended name:
DNA ligase 1 (EC:6.5.1.1PROSITE-ProRule annotation)
Alternative name(s):
DNA ligase I
Polydeoxyribonucleotide synthase [ATP] 1
Gene namesi
Name:lig-1
ORF Names:C29A12.3
OrganismiCaenorhabditis elegans
Taxonomic identifieri6239 [NCBI]
Taxonomic lineageiEukaryotaMetazoaEcdysozoaNematodaChromadoreaRhabditidaRhabditoideaRhabditidaePeloderinaeCaenorhabditis
Proteomesi
  • UP000001940 Componenti: Chromosome V

Organism-specific databases

WormBaseiC29A12.3a; CE37480; WBGene00002985; lig-1.
C29A12.3b; CE37481; WBGene00002985; lig-1.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000595831 – 773DNA ligase 1Add BLAST773

Proteomic databases

EPDiQ27474.
PaxDbiQ27474.
PeptideAtlasiQ27474.
PRIDEiQ27474.

PTM databases

iPTMnetiQ27474.

Expressioni

Gene expression databases

BgeeiWBGene00002985.

Interactioni

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei37Interaction with target DNABy similarity1
Sitei311Interaction with target DNABy similarity1
Sitei489Interaction with target DNABy similarity1
Sitei514Interaction with target DNABy similarity1

Protein-protein interaction databases

STRINGi6239.C29A12.3a.

Structurei

3D structure databases

ProteinModelPortaliQ27474.
SMRiQ27474.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni180 – 189Interaction with target DNABy similarity10
Regioni362 – 364Interaction with target DNABy similarity3

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi638 – 648Poly-GluAdd BLAST11
Compositional biasi660 – 762Lys-richAdd BLAST103

Sequence similaritiesi

Belongs to the ATP-dependent DNA ligase family.Curated

Phylogenomic databases

eggNOGiKOG0967. Eukaryota.
COG1793. LUCA.
GeneTreeiENSGT00860000133792.
HOGENOMiHOG000036006.
InParanoidiQ27474.
KOiK10747.
OMAiPQVVIEV.
OrthoDBiEOG091G06OS.
PhylomeDBiQ27474.

Family and domain databases

Gene3Di1.10.3260.10. 1 hit.
InterProiIPR000977. 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]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform a (identifier: Q27474-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MFFSKAGKAA VEWAKGSKVP YKEFALTLEK IEELSGKKKV DELAQFFTKV
60 70 80 90 100
LDFSPDDLTA CVYMSVNQLG PSYEGLELGV AENSLIKAVA KATGRTEGKI
110 120 130 140 150
KEDLRAKGDL GTVAQQSRSN QKMLAVPKAL TVPTVFNKLT EIAKLSGTSA
160 170 180 190 200
MNKKVDAISA LLIACQGIEA RFLVRMLAGK MRIGLGEQSV LSALGHAFTL
210 220 230 240 250
SKITDQKVRG DKLDSLKDAN VKRVKTAYCE CPNYNRLIEV ALTEGVEALV
260 270 280 290 300
EKCKLSPGIP LKPMLAHPTK GIDEIMRRFR NQTMTCEWKY DGERGQIHKR
310 320 330 340 350
EDGQIFIYSR NQENNTTKYP DIIEKISSCI GDGVTSFIVD AEVVAIDEAG
360 370 380 390 400
LILPFQVLST RKRKNATDDN GVKVVVFLFD LLYFNGEPLV RKPLRKRREL
410 420 430 440 450
LRTNFKKIDG SFYFATSVDT NDTDEINSFF DEAVQNKCEG LMIKTLDTEA
460 470 480 490 500
TYEISRRSHS WLKMKKDYVD GVGDTLDLVV MGAYSGVGKR TGVYGGYLLG
510 520 530 540 550
CYNPTTEEYE SVCKIGTGFT DEDLAEQYKI LQDKKIDKSP SYYQFDHTLK
560 570 580 590 600
PDDTFSPYLV FEVKCADITI SPRHKAASGL TDDGKGISLR FPRFLRIRDD
610 620 630 640 650
KNSDDATSSE QVLEMYKNQE AFANQKIEKA DAVDEDDEFE EKEDEEEELN
660 670 680 690 700
MTNVSEGSSK ENPVKEEIKK ETPKSVSPKK FEKKPPVKSS PVNKSPVKSS
710 720 730 740 750
PIKKEAEKKK GPVASIFSSS TKKNEKDVKV ESPSPIRKKK LPSDSDESDE
760 770
ETSTNKKQPA KKRSRVAIDS DSD
Note: No experimental confirmation available.
Length:773
Mass (Da):86,310
Last modified:May 24, 2005 - v2
Checksum:i458B676F9FCE0BA0
GO
Isoform b (identifier: Q27474-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     208-210: VRG → RMP
     211-773: Missing.

Note: No experimental confirmation available.
Show »
Length:210
Mass (Da):22,716
Checksum:i7384B3AB04FDDF68
GO

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_013778208 – 210VRG → RMP in isoform b. Curated3
Alternative sequenceiVSP_013779211 – 773Missing in isoform b. CuratedAdd BLAST563

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z73970 Genomic DNA. Translation: CAA98242.2.
Z73970 Genomic DNA. Translation: CAD44112.2.
PIRiT19544.
RefSeqiNP_741625.2. NM_171537.3. [Q27474-1]
NP_741626.2. NM_171538.3. [Q27474-2]
UniGeneiCel.23475.

Genome annotation databases

EnsemblMetazoaiC29A12.3a; C29A12.3a; WBGene00002985. [Q27474-1]
GeneIDi179502.
KEGGicel:CELE_C29A12.3.
UCSCiC29A12.3a. c. elegans. [Q27474-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z73970 Genomic DNA. Translation: CAA98242.2.
Z73970 Genomic DNA. Translation: CAD44112.2.
PIRiT19544.
RefSeqiNP_741625.2. NM_171537.3. [Q27474-1]
NP_741626.2. NM_171538.3. [Q27474-2]
UniGeneiCel.23475.

3D structure databases

ProteinModelPortaliQ27474.
SMRiQ27474.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi6239.C29A12.3a.

PTM databases

iPTMnetiQ27474.

Proteomic databases

EPDiQ27474.
PaxDbiQ27474.
PeptideAtlasiQ27474.
PRIDEiQ27474.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblMetazoaiC29A12.3a; C29A12.3a; WBGene00002985. [Q27474-1]
GeneIDi179502.
KEGGicel:CELE_C29A12.3.
UCSCiC29A12.3a. c. elegans. [Q27474-1]

Organism-specific databases

CTDi179502.
WormBaseiC29A12.3a; CE37480; WBGene00002985; lig-1.
C29A12.3b; CE37481; WBGene00002985; lig-1.

Phylogenomic databases

eggNOGiKOG0967. Eukaryota.
COG1793. LUCA.
GeneTreeiENSGT00860000133792.
HOGENOMiHOG000036006.
InParanoidiQ27474.
KOiK10747.
OMAiPQVVIEV.
OrthoDBiEOG091G06OS.
PhylomeDBiQ27474.

Enzyme and pathway databases

ReactomeiR-CEL-5358565. Mismatch repair (MMR) directed by MSH2:MSH6 (MutSalpha).
R-CEL-5358606. Mismatch repair (MMR) directed by MSH2:MSH3 (MutSbeta).
R-CEL-69183. Processive synthesis on the lagging strand.

Miscellaneous databases

PROiQ27474.

Gene expression databases

BgeeiWBGene00002985.

Family and domain databases

Gene3Di1.10.3260.10. 1 hit.
InterProiIPR000977. 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...

Entry informationi

Entry nameiDNLI1_CAEEL
AccessioniPrimary (citable) accession number: Q27474
Secondary accession number(s): Q8MQB3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: May 24, 2005
Last modified: November 30, 2016
This is version 131 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programCaenorhabditis annotation project

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Caenorhabditis elegans
    Caenorhabditis elegans: entries, gene names and cross-references to WormBase
  2. SIMILARITY comments
    Index of protein domains and families

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 one 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.