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Q54CR9 (DNLI4_DICDI) Reviewed, UniProtKB/Swiss-Prot

Last modified July 9, 2014. Version 65. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | 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 4

EC=6.5.1.1
Alternative name(s):
DNA ligase IV
Polydeoxyribonucleotide synthase [ATP] 4
Gene names
Name:lig4
ORF Names:DDB_G0292760
OrganismDictyostelium discoideum (Slime mold) [Reference proteome]
Taxonomic identifier44689 [NCBI]
Taxonomic lineageEukaryotaAmoebozoaMycetozoaDictyosteliidaDictyostelium

Protein attributes

Sequence length1088 AA.
Sequence statusComplete.
Protein existenceInferred from homology

General annotation (Comments)

Function

Efficiently joins single-strand breaks in a double-stranded polydeoxynucleotide in an ATP-dependent reaction. Involved in DNA nonhomologous end joining (NHEJ) required for double-strand break repair By similarity.

Catalytic activity

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

Cofactor

Magnesium By similarity.

Subcellular location

Nucleus By similarity.

Sequence similarities

Belongs to the ATP-dependent DNA ligase family.

Contains 2 BRCT domains.

Ontologies

Keywords
   Biological processDNA damage
DNA recombination
DNA repair
DNA replication
   Cellular componentNucleus
   DomainRepeat
   LigandATP-binding
Magnesium
Metal-binding
Nucleotide-binding
   Molecular functionLigase
   Technical termComplete proteome
Reference proteome
Gene Ontology (GO)
   Biological_processDNA ligation

Inferred from Biological aspect of Ancestor. Source: RefGenome

DNA recombination

Inferred from electronic annotation. Source: UniProtKB-KW

double-strand break repair via nonhomologous end joining

Inferred from Biological aspect of Ancestor. Source: RefGenome

lagging strand elongation

Inferred from Biological aspect of Ancestor. Source: RefGenome

nucleotide-excision repair

Inferred from Biological aspect of Ancestor. Source: RefGenome

single strand break repair

Inferred from sequence or structural similarity PubMed 16112620. Source: dictyBase

   Cellular_componentDNA ligase IV complex

Inferred from Biological aspect of Ancestor. Source: RefGenome

DNA-dependent protein kinase-DNA ligase 4 complex

Inferred from sequence or structural similarity PubMed 16112620PubMed 16582628. Source: dictyBase

chromosome

Inferred from Biological aspect of Ancestor. Source: RefGenome

nucleus

Inferred from sequence or structural similarity PubMed 16112620. Source: dictyBase

   Molecular_functionATP binding

Inferred from electronic annotation. Source: UniProtKB-KW

DNA binding

Inferred from sequence or structural similarity PubMed 16112620. Source: dictyBase

DNA ligase (ATP) activity

Inferred from sequence or structural similarity PubMed 16112620. Source: dictyBase

metal ion binding

Inferred from electronic annotation. Source: UniProtKB-KW

Complete GO annotation...

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 10881088DNA ligase 4
PRO_0000351216

Regions

Domain827 – 91791BRCT 1
Domain984 – 1088105BRCT 2
Compositional bias39 – 5214Poly-Asn
Compositional bias72 – 787Poly-Thr
Compositional bias110 – 12314Poly-Thr
Compositional bias969 – 9757Poly-Thr

Sites

Active site4161N6-AMP-lysine intermediate By similarity
Metal binding4671Magnesium 1 Potential
Metal binding5741Magnesium 2 Potential
Binding site4141ATP By similarity
Binding site4211ATP By similarity
Binding site4361ATP By similarity
Binding site5791ATP By similarity
Binding site5901ATP By similarity
Binding site5961ATP By similarity

Sequences

Sequence LengthMass (Da)Tools
Q54CR9 [UniParc].

Last modified May 24, 2005. Version 1.
Checksum: FE1B3C00A20B5E76

FASTA1,088124,791
        10         20         30         40         50         60 
MALSLYYDED DDENENENKD KPNNDFKNQQ QINTSKTTNN NNNINNKNNY NNKFNDDDIF 

        70         80         90        100        110        120 
NNDKIITKPR VTTTTTTTKN TSTNSNINKT KFNDDDIFDD EDEDSNSNKT TTTTTTTTTT 

       130        140        150        160        170        180 
TDTIITNDYR YQKTVPFSSF CDLMNRIIND TKISNKKNYL EKFMNHYKDE PNNFYQLLRL 

       190        200        210        220        230        240 
ILPQLDKDRN SYGLKEKTLA RLYVELLNIS PESVDAMRLL NWKKSTNDEI GGDFGTAVYL 

       250        260        270        280        290        300 
SLKNRCNNDN GRIKVSMGDI NESLDQLSQP LTDKKTKVSI LKKVLRSTTA QEQKWFVRII 

       310        320        330        340        350        360 
LKEMKNGLSD NITLKFFHPD AIDHFNITSN LRLVCTNLFY MTQSKQKELK DKQKLEEKEN 

       370        380        390        400        410        420 
LLKQQQQQQN DLDIYKLEIK LFNPIKPMLA NRQSIDNLSM ILNSAISATQ FVVEKKFDGE 

       430        440        450        460        470        480 
RIQIHKDGEQ VKYFSRNSND STGIYGSMFT PIVKECVLAE RCILDGELIV WDSISQRFED 

       490        500        510        520        530        540 
FGNLKTLALN KDGISGSGDP LGINYGKQLC FIAFDILFVK DQSVMNLPLM QRLMLLKRCV 

       550        560        570        580        590        600 
TIKSKQFEIS EQTTVNSISQ IISLLESAII NREEGLMLKN LHSLYVPAER KDKWVKIKPE 

       610        620        630        640        650        660 
YIDGMGNGAD DLDLVIIGGY YGSGLNRRGG TISHFMLGVP FIADSTDTDI DDESTFDKNV 

       670        680        690        700        710        720 
IFYSFCKVGS GYTDIQLKSL QKDLDPHWNN FSTSKPPSII QLAEPFKEKP DVWIDPRVYS 

       730        740        750        760        770        780 
KVLQIKASQI VVTDKYKCGY TLRFPRVLKI RDDKGWKDCC SHEEIIDLFT NYSTNLNFKR 

       790        800        810        820        830        840 
DHEYGDGSGG KNKKLKKSKK TTNQLLADSG LKVLSIFQDT DTSGIIPTQN IFQGIEICVI 

       850        860        870        880        890        900 
KGSSGEYTKS KLEIMIVEMG GSKVQYPSRN TNYVISSKEV VKIQNLIQSG FIDIVSFNWI 

       910        920        930        940        950        960 
VDCYNEKRLV PLGPKYMIFS TESTKKRFLL DSDQFGDSYI NETTEQSLKD SFNQIDKLKL 

       970        980        990       1000       1010       1020 
KKQLSINSTT TTTTTSISKY FSNCWWSLFK EFTFYLDLYQ VVGEKSTLIE NNNLELSNLN 

      1030       1040       1050       1060       1070       1080 
IQFYGGKISI EFNNKITHVV LDSLDLSRIT FIKNKINSLS LPIQIVTTNW IQLSINNYSI 


QPILEILD 

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Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AAFI02000196 Genomic DNA. Translation: EAL61054.1.
RefSeqXP_629472.1. XM_629470.1.

3D structure databases

ProteinModelPortalQ54CR9.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING44689.DDB_0232255.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblProtistsDDB0232255; DDB0232255; DDB_G0292760.
GeneID8628862.
KEGGddi:DDB_G0292760.

Organism-specific databases

dictyBaseDDB_G0292760. lig4.

Phylogenomic databases

eggNOGCOG1793.
OMAHMCPSTK.
PhylomeDBQ54CR9.

Family and domain databases

Gene3D1.10.3260.10. 1 hit.
2.40.50.140. 1 hit.
3.40.50.10190. 2 hits.
InterProIPR001357. BRCT_dom.
IPR000977. DNA_ligase_ATP-dep.
IPR012309. DNA_ligase_ATP-dep_C.
IPR012310. DNA_ligase_ATP-dep_cent.
IPR012308. DNA_ligase_ATP-dep_N.
IPR021536. DNA_ligase_IV.
IPR012340. NA-bd_OB-fold.
[Graphical view]
PfamPF00533. BRCT. 1 hit.
PF04679. DNA_ligase_A_C. 1 hit.
PF01068. DNA_ligase_A_M. 1 hit.
PF04675. DNA_ligase_A_N. 1 hit.
PF11411. DNA_ligase_IV. 1 hit.
[Graphical view]
SMARTSM00292. BRCT. 2 hits.
[Graphical view]
SUPFAMSSF117018. SSF117018. 1 hit.
SSF50249. SSF50249. 1 hit.
SSF52113. SSF52113. 2 hits.
TIGRFAMsTIGR00574. dnl1. 1 hit.
PROSITEPS50172. BRCT. 2 hits.
PS50160. DNA_LIGASE_A3. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

PROQ54CR9.

Entry information

Entry nameDNLI4_DICDI
AccessionPrimary (citable) accession number: Q54CR9
Entry history
Integrated into UniProtKB/Swiss-Prot: September 23, 2008
Last sequence update: May 24, 2005
Last modified: July 9, 2014
This is version 65 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)

Relevant documents

SIMILARITY comments

Index of protein domains and families

Dictyostelium discoideum

Dictyostelium discoideum: entries, gene names and cross-references to dictyBase