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Protein

Probable DNA ligase

Gene

lig

Organism
Dictyoglomus thermophilum (strain ATCC 35947 / DSM 3960 / H-6-12)
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 sitei243 – 2431ATPUniRule annotation
Active sitei245 – 2451N6-AMP-lysine intermediateUniRule annotation
Binding sitei250 – 2501ATPUniRule annotation
Binding sitei265 – 2651ATPUniRule annotation
Binding sitei295 – 2951ATPUniRule annotation
Binding sitei335 – 3351ATPUniRule annotation
Binding sitei410 – 4101ATPUniRule annotation
Binding sitei416 – 4161ATPUniRule 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

BioCyciDTHE309799:GHF9-613-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:DICTH_0616
OrganismiDictyoglomus thermophilum (strain ATCC 35947 / DSM 3960 / H-6-12)
Taxonomic identifieri309799 [NCBI]
Taxonomic lineageiBacteriaDictyoglomiDictyoglomalesDictyoglomaceaeDictyoglomus
ProteomesiUP000001733: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 582582Probable DNA ligasePRO_0000365219Add
BLAST

Proteomic databases

PRIDEiB5YD88.

Interactioni

Protein-protein interaction databases

STRINGi309799.DICTH_0616.

Structurei

3D structure databases

ProteinModelPortaliB5YD88.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiCOG1793.
HOGENOMiHOG000036008.
KOiK10747.
OMAiNPVESRY.
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.

B5YD88-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MLFGELAQYF ERIEKTTKRN EMMEILADLF RKVDKEEIDK IIYLLNGRVA
60 70 80 90 100
PDYEKIEFGM SDKLVLRAMA LALKIPLLEL ERSYKEVGDL GELVVKYSKN
110 120 130 140 150
EGKDLTVVET FNTLYDIANL SGEGSVDAKV NRLAFLINSL TPQGGKYLVR
160 170 180 190 200
IVLGKLRLGV GEPTIMDALS FAKVKDKGLR PFIERAFNIT SDLGYVAKVF
210 220 230 240 250
WEGGVEALKR IKVQVGRPIR MALAERVSRA EEIIKRLGKC AVEPKFDGFR
260 270 280 290 300
CQIHKKENSV RIFSRNLEDN TYMFPDLVEA VLKQFPDRDV IIEGEAISYN
310 320 330 340 350
PETGEFYPFQ VTVQRKRKYN ISEMVELYPL QLFAFDILYL DGEDTTSLPY
360 370 380 390 400
IRRRQKLEEA LVEGEKISIT KNIITNDPKE IQSFFEECIT EGLEGIVAKR
410 420 430 440 450
LDAPYQAGMR NFNWIKLKRS YQGHLADTVD CVILGYFKGR GHRAKFGIGA
460 470 480 490 500
LLVGVYDDER DLFKTIAKIG TGPTEEEWVK FREILDEIKV EKRPNNVESF
510 520 530 540 550
IEPDVWVEPK YVVVVQADEI TRSPVHTCGR ELDGLGYALR FPRVQGFVRE
560 570 580
DKGPYDATTV KEILEMFRNQ KKEKVEEDSD LL
Length:582
Mass (Da):66,791
Last modified:November 25, 2008 - v1
Checksum:i5AB0045336097A03
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001146 Genomic DNA. Translation: ACI19645.1.
RefSeqiWP_012548277.1. NC_011297.1.
YP_002250496.1. NC_011297.1.

Genome annotation databases

EnsemblBacteriaiACI19645; ACI19645; DICTH_0616.
GeneIDi6946484.
KEGGidth:DICTH_0616.
PATRICi21805882. VBIDicThe33784_0619.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001146 Genomic DNA. Translation: ACI19645.1.
RefSeqiWP_012548277.1. NC_011297.1.
YP_002250496.1. NC_011297.1.

3D structure databases

ProteinModelPortaliB5YD88.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi309799.DICTH_0616.

Proteomic databases

PRIDEiB5YD88.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiACI19645; ACI19645; DICTH_0616.
GeneIDi6946484.
KEGGidth:DICTH_0616.
PATRICi21805882. VBIDicThe33784_0619.

Phylogenomic databases

eggNOGiCOG1793.
HOGENOMiHOG000036008.
KOiK10747.
OMAiNPVESRY.
OrthoDBiEOG6Q8HXT.

Enzyme and pathway databases

BioCyciDTHE309799:GHF9-613-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. "The complete genome sequence of Dictyoglomus thermophilum strain ATCC 35947 / DSM 3960 / H-6-12."
    Dodson R.J., Durkin A.S., Wu M., Eisen J., Sutton G.
    Submitted (AUG-2008) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 35947 / DSM 3960 / H-6-12.

Entry informationi

Entry nameiDNLI_DICT6
AccessioniPrimary (citable) accession number: B5YD88
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 3, 2009
Last sequence update: November 25, 2008
Last modified: March 4, 2015
This is version 52 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

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.