Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

DNA ligase 4

Gene

LIG4

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Efficiently joins single-strand breaks in a double-stranded polydeoxynucleotide in an ATP-dependent reaction. Involved in DNA non-homologous end joining (NHEJ) required for double-strand break repair. May be involved for T-DNA integration even if not absolutely required. Seems to be dispensable under normal growth conditions.2 Publications

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 sitei251ATPBy similarity1
Active sitei253N6-AMP-lysine intermediatePROSITE-ProRule annotation1
Binding sitei258ATPBy similarity1
Binding sitei273ATPBy similarity1
Metal bindingi303Magnesium 1Sequence analysis1
Metal bindingi418Magnesium 2Sequence analysis1
Binding sitei423ATPBy similarity1
Binding sitei434ATPBy similarity1
Binding sitei440ATPBy similarity1

GO - Molecular functioni

  • ATP binding Source: UniProtKB-KW
  • DNA binding Source: InterPro
  • DNA ligase (ATP) activity Source: TAIR
  • metal ion binding Source: UniProtKB-KW

GO - Biological processi

  • cellular response to DNA damage stimulus Source: TAIR
  • DNA biosynthetic process Source: InterPro
  • DNA ligation involved in DNA repair Source: GO_Central
  • DNA recombination Source: UniProtKB-KW
  • DNA replication Source: UniProtKB-KW
  • double-strand break repair Source: TAIR
  • double-strand break repair via nonhomologous end joining Source: TAIR
  • nucleotide-excision repair, DNA gap filling Source: GO_Central
  • response to X-ray Source: TAIR

Keywordsi

Molecular functionLigase
Biological processDNA damage, DNA recombination, DNA repair, DNA replication
LigandATP-binding, Magnesium, Metal-binding, Nucleotide-binding

Names & Taxonomyi

Protein namesi
Recommended name:
DNA ligase 4 (EC:6.5.1.1PROSITE-ProRule annotation)
Alternative name(s):
DNA ligase IV
Polydeoxyribonucleotide synthase [ATP] 4
Gene namesi
Name:LIG4
Ordered Locus Names:At5g57160
ORF Names:MUL3.11
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 5

Organism-specific databases

AraportiAT5G57160
TAIRilocus:2175544 AT5G57160

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cell wall Cytoskeleton Vacuole Chloroplast Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertion Graphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000595801 – 1219DNA ligase 4Add BLAST1219

Proteomic databases

PaxDbiQ9LL84
PRIDEiQ9LL84

PTM databases

iPTMnetiQ9LL84

Expressioni

Tissue specificityi

Widely expressed, with higher levels in young flowers and roots.1 Publication

Inductioni

Induced by gamma radiation and by white light, but not by UV-B. Regulated by ATM in response to DNA double strand breaks (DSBs).2 Publications

Gene expression databases

ExpressionAtlasiQ9LL84 baseline and differential
GenevisibleiQ9LL84 AT

Interactioni

Subunit structurei

Interacts with XRCC4 via its tandem BRCT domains (PubMed:11029705). Interacts with POLL (PubMed:23660835).2 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
XRCC4Q682V02EBI-2127971,EBI-2128002

Protein-protein interaction databases

BioGridi21066, 3 interactors
IntActiQ9LL84, 1 interactor
STRINGi3702.AT5G57160.1

Structurei

3D structure databases

ProteinModelPortaliQ9LL84
SMRiQ9LL84
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini651 – 739BRCT 1PROSITE-ProRule annotationAdd BLAST89
Domaini807 – 909BRCT 2PROSITE-ProRule annotationAdd BLAST103

Sequence similaritiesi

Belongs to the ATP-dependent DNA ligase family.Curated

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiKOG0966 Eukaryota
COG1793 LUCA
HOGENOMiHOG000083793
InParanoidiQ9LL84
KOiK10777
OMAiHMCPSTK
OrthoDBiEOG093600VG
PhylomeDBiQ9LL84

Family and domain databases

CDDicd00027 BRCT, 1 hit
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
IPR029710 LIG4
IPR012340 NA-bd_OB-fold
PANTHERiPTHR10459:SF7 PTHR10459:SF7, 2 hits
PfamiView protein in Pfam
PF16589 BRCT_2, 1 hit
PF04679 DNA_ligase_A_C, 1 hit
PF01068 DNA_ligase_A_M, 1 hit
PF04675 DNA_ligase_A_N, 1 hit
SMARTiView protein in SMART
SM00292 BRCT, 1 hit
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.

Q9LL84-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTEEIKFSVL VSLFNWIQKS KTSSQKRSKF RKFLDTYCKP SDYFVAVRLI
60 70 80 90 100
IPSLDRERGS YGLKESVLAT CLIDALGISR DAPDAVRLLN WRKGGTAKAG
110 120 130 140 150
ANAGNFSLIA AEVLQRRQGM ASGGLTIKEL NDLLDRLASS ENRAEKTLVL
160 170 180 190 200
STLIQKTNAQ EMKWVIRIIL KDLKLGMSEK SIFQEFHPDA EDLFNVTCDL
210 220 230 240 250
KLVCEKLRDR HQRHKRQDIE VGKAVRPQLA MRIGDVNAAW KKLHGKDVVA
260 270 280 290 300
ECKFDGDRIQ IHKNGTDIHY FSRNFLDHSE YAHAMSDLIV QNILVDKCIL
310 320 330 340 350
DGEMLVWDTS LNRFAEFGSN QEIAKAAREG LDSHKQLCYV AFDVLYVGDT
360 370 380 390 400
SVIHQSLKER HELLKKVVKP LKGRLEVLVP EGGLNVHRPS GEPSWSIVVH
410 420 430 440 450
AAADVERFFK ETVENRDEGI VLKDLESKWE PGDRSGKWMK LKPEYIRAGA
460 470 480 490 500
DLDVLIIGGY YGSGRRGGEV AQFLVALADR AEANVYPRRF MSFCRVGTGL
510 520 530 540 550
SDDELNTVVS KLKPYFRKNE HPKKAPPSFY QVTNHSKERP DVWIDSPEKS
560 570 580 590 600
IILSITSDIR TIRSEVFVAP YSLRFPRIDK VRYDKPWHEC LDVQAFVELV
610 620 630 640 650
NSSNGTTQKQ KESESTQDNP KVNKSSKRGE KKNVSLVPSQ FIQTDVSDIK
660 670 680 690 700
GKTSIFSNMI FYFVNVPRSH SLETFHKMVV ENGGKFSMNL NNSVTHCIAA
710 720 730 740 750
ESSGIKYQAA KRQRDVIHFS WVLDCCSRNK MLPLLPKYFL HLTDASRTKL
760 770 780 790 800
QDDIDEFSDS YYWDLDLEGL KQVLSNAKQS EDSKSIDYYK KKLCPEKRWS
810 820 830 840 850
CLLSCCVYFY PYSQTLSTEE EALLGIMAKR LMLEVLMAGG KVSNNLAHAS
860 870 880 890 900
HLVVLAMAEE PLDFTLVSKS FSEMEKRLLL KKRLHVVSSH WLEESLQREE
910 920 930 940 950
KLCEDVYTLR PKYMEESDTE ESDKSEHDTT EVASQGSAQT KEPASSKIAI
960 970 980 990 1000
TSSRGRSNTR AVKRGRSSTN SLQRVQRRRG KQPSKISGDE TEESDASEEK
1010 1020 1030 1040 1050
VSTRLSDIAE ETDSFGEAQR NSSRGKCAKR GKSRVGQTQR VQRSRRGKKA
1060 1070 1080 1090 1100
AKIGGDESDE NDELDGNNNV SADAEEGNAA GRSVENEETR EPDIAKYTES
1110 1120 1130 1140 1150
QQRDNTVAVE EALQDSRNAK TEMDMKEKLQ IHEDPLQAML MKMFPIPSQK
1160 1170 1180 1190 1200
TTETSNRTTG EYRKANVSGE CESSEKRKLD AETDNTSVNA GAESDVVPPL
1210
VKKKKVSYRD VAGELLKDW
Length:1,219
Mass (Da):137,851
Last modified:October 1, 2000 - v1
Checksum:i97825B4B795E45FB
GO

Sequence cautioni

The sequence BAA97366 differs from that shown. Reason: Erroneous gene model prediction.Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF233527 mRNA Translation: AAF91284.1
AB023042 Genomic DNA Translation: BAA97366.1 Sequence problems.
CP002688 Genomic DNA Translation: AED96857.1
RefSeqiNP_568851.2, NM_125098.4
UniGeneiAt.49182
At.69713

Genome annotation databases

EnsemblPlantsiAT5G57160.1; AT5G57160.1; AT5G57160
GeneIDi835822
GrameneiAT5G57160.1; AT5G57160.1; AT5G57160
KEGGiath:AT5G57160

Similar proteinsi

Entry informationi

Entry nameiDNLI4_ARATH
AccessioniPrimary (citable) accession number: Q9LL84
Secondary accession number(s): Q9LU70
Entry historyiIntegrated into UniProtKB/Swiss-Prot: January 24, 2006
Last sequence update: October 1, 2000
Last modified: April 25, 2018
This is version 126 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome
UniProt is an ELIXIR core data resource
Main funding by: National Institutes of Health