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Protein

DNA ligase 3

Gene

lig3

Organism
Dictyostelium discoideum (Slime mold)
Status
Reviewed-Annotation score: -Protein inferred from homologyi

Functioni

The alpha isoform interacts with DNA-repair protein XRCC1 and can correct defective DNA strand-break repair and sister chromatid exchange following treatment with ionizing radiation and alkylating agents. The beta isoform does not interact with XRCC1 and may be specifically involved in the completion of homologous recombination events that occur during meiotic prophase.

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 sitei281ATPBy similarity1
Active sitei283N6-AMP-lysine intermediatePROSITE-ProRule annotation1
Binding sitei288ATPBy similarity1
Binding sitei303ATPBy similarity1
Metal bindingi334Magnesium 1Sequence analysis1
Metal bindingi432Magnesium 2Sequence analysis1
Binding sitei437ATPBy similarity1
Binding sitei448ATPBy similarity1
Binding sitei452ATPBy similarity1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionLigase
Biological processCell cycle, Cell division, DNA damage, DNA recombination, DNA repair, DNA replication
LigandATP-binding, Magnesium, Metal-binding, Nucleotide-binding

Enzyme and pathway databases

ReactomeiR-DDI-110381 Resolution of AP sites via the single-nucleotide replacement pathway
R-DDI-5649702 APEX1-Independent Resolution of AP Sites via the Single Nucleotide Replacement Pathway

Names & Taxonomyi

Protein namesi
Recommended name:
DNA ligase 3 (EC:6.5.1.1PROSITE-ProRule annotation)
Alternative name(s):
DNA ligase III
Polydeoxyribonucleotide synthase [ATP] 3
Gene namesi
Name:lig3
ORF Names:DDB_G0283857
OrganismiDictyostelium discoideum (Slime mold)
Taxonomic identifieri44689 [NCBI]
Taxonomic lineageiEukaryotaAmoebozoaMycetozoaDictyostelidsDictyostelialesDictyosteliaceaeDictyostelium
Proteomesi
  • UP000002195 Componentsi: Chromosome 4, Unassembled WGS sequence

Organism-specific databases

dictyBaseiDDB_G0283857 lig3

Subcellular locationi

GO - Cellular componenti

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003512151 – 1175DNA ligase 3Add BLAST1175

Proteomic databases

PaxDbiQ54QM4

Interactioni

Protein-protein interaction databases

STRINGi44689.DDB0232266

Structurei

3D structure databases

ProteinModelPortaliQ54QM4
SMRiQ54QM4
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini883 – 976BRCT 1PROSITE-ProRule annotationAdd BLAST94
Domaini1067 – 1174BRCT 2PROSITE-ProRule annotationAdd BLAST108

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi196 – 224Asp-richAdd BLAST29
Compositional biasi225 – 229Poly-Lys5
Compositional biasi622 – 635Thr-richAdd BLAST14
Compositional biasi647 – 655Poly-Asp9
Compositional biasi658 – 661Poly-Gln4
Compositional biasi851 – 859Poly-Ser9
Compositional biasi987 – 996Poly-Ser10
Compositional biasi1016 – 1019Poly-Gln4
Compositional biasi1051 – 1060Poly-Asn10
Compositional biasi1117 – 1153Asn-richAdd BLAST37

Sequence similaritiesi

Belongs to the ATP-dependent DNA ligase family.Curated

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiKOG4437 Eukaryota
COG1793 LUCA
InParanoidiQ54QM4
KOiK10776
OMAiSMRFPRI
PhylomeDBiQ54QM4

Family and domain databases

CDDicd00027 BRCT, 2 hits
Gene3Di1.10.3260.10, 1 hit
3.40.50.10190, 2 hits
InterProiView protein in InterPro
IPR001357 BRCT_dom
IPR036420 BRCT_dom_sf
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
IPR036599 DNA_ligase_N_sf
IPR031916 LIG3_BRCT
IPR012340 NA-bd_OB-fold
PfamiView protein in Pfam
PF00533 BRCT, 1 hit
PF04679 DNA_ligase_A_C, 1 hit
PF01068 DNA_ligase_A_M, 1 hit
PF04675 DNA_ligase_A_N, 1 hit
PF16759 LIG3_BRCT, 1 hit
SMARTiView protein in SMART
SM00292 BRCT, 2 hits
SUPFAMiSSF117018 SSF117018, 1 hit
SSF50249 SSF50249, 1 hit
SSF52113 SSF52113, 2 hits
TIGRFAMsiTIGR00574 dnl1, 1 hit
PROSITEiView protein in PROSITE
PS50172 BRCT, 2 hits
PS00697 DNA_LIGASE_A1, 1 hit
PS00333 DNA_LIGASE_A2, 1 hit
PS50160 DNA_LIGASE_A3, 1 hit

Sequencei

Sequence statusi: Complete.

Q54QM4-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSEDKSGSFY SMYKLCGQLE KESSHSGKTQ LIKSFCNVFK GDLYLLAKLM
60 70 80 90 100
LCKEDKRVFR IKDKAMLKIC SHIWDCDLDD MIEDLDNGDF TETCKKFYIE
110 120 130 140 150
YGKYPEKSTL TLKEVDQVLD SLTVSGKFED QVKIINKLLK RCTPFDFRLV
160 170 180 190 200
CRIIDSDLKI NTGAKFFLDA FHPQAYDAFK KANNLKGVIE KIQQHDFDND
210 220 230 240 250
NGDGDDGDGD DNDDDDGDGD SDSDKKKKKS SGGSGSDSGS KKKSKSFEVA
260 270 280 290 300
IKLMTPIKPM LPKAVKTVEG VVKSSECFYA EIKYDGERIQ IHKDGNQFSC
310 320 330 340 350
YSRNLKPLMP WKVDEVKPYI PKSTKAQQMI LDGEILLMDT KTSQPLPFGT
360 370 380 390 400
LSAHKKNGFK DATVCVFLFD ILYLNGKSLI HLPLKERREI LEKNVMVVKN
410 420 430 440 450
RIEFSEVTIV NGASEKSKLT ALLNRVFKEK LEGLVIKDAM SEYEPGCRHW
460 470 480 490 500
IKIKKDYIHG MADSADLIAV GGYYGSGSMG GLVTVFLMVC YDKQNKIYKT
510 520 530 540 550
VVKASGGLDD NMIAKLQPKV TSTMTKISKE VSKIPYWLDC PKQYAPDFIV
560 570 580 590 600
KDIKQAMIFE IESAEFTKSD HHTTGYSMRF PRILKIRHDK DYKTATTLEE
610 620 630 640 650
LVEIGKDIKI VPVGKGDNNS PTTTTTTTTT TTTTTSSKLI KKQQLSDDDD
660 670 680 690 700
DNDKDSKQQQ QEPSKLKFVS DDLLDPFNDK SDDESNKIFI LNYVDNSGIW
710 720 730 740 750
NEKGLSGAIG KKWPSIPKSF SQGDSNIIKS GEIRVEKVKD DSISTNKKVF
760 770 780 790 800
ICNLSCIIPP KSKKESYTFS LKEFKSAIKE AKGAINQKKA SVHLAKPQFT
810 820 830 840 850
SPSWSELDEV LTKELYNSGI KVFVHSISKS SPTTTSPTTT SPTTTSPKIT
860 870 880 890 900
SPSSSSSPSN KLSPLKRGRD EKLEHEIIKD IEPSLPIFED VNAVIDSKTI
910 920 930 940 950
DQVDVKRLIN SIKTMGGRVS DKWQQVGIGK TTHLICNGMS DLYLHVDRLG
960 970 980 990 1000
GTIVLPNWVD QCFGSDKLLP LHEDYIYFNK KDHPDYSQSS SSSSMSIEEE
1010 1020 1030 1040 1050
KIVVTTTSDD PSEGNQQQQD KKVIKESKII QSKDHSSTTT IDTKITITST
1060 1070 1080 1090 1100
NNNNNGNDNN KTRKKQHLLS IFQECIIFLH DNVNDRETLK RYIIAYGGDI
1110 1120 1130 1140 1150
SDSVNDKTTH LVASLPNNFS NVKPKDLFKS IINNNSKNNN NNNNNNNNGI
1160 1170
IVNSLWLWDS INMSDLLDVK NYKLF
Length:1,175
Mass (Da):132,048
Last modified:May 24, 2005 - v1
Checksum:iD963D7D6EF49547E
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AAFI02000057 Genomic DNA Translation: EAL65543.1
RefSeqiXP_638847.1, XM_633755.1

Genome annotation databases

EnsemblProtistsiEAL65543; EAL65543; DDB_G0283857
GeneIDi8624245
KEGGiddi:DDB_G0283857

Similar proteinsi

Entry informationi

Entry nameiDNLI3_DICDI
AccessioniPrimary (citable) accession number: Q54QM4
Entry historyiIntegrated into UniProtKB/Swiss-Prot: September 23, 2008
Last sequence update: May 24, 2005
Last modified: March 28, 2018
This is version 88 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

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