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Protein

DNA ligase

Gene

lig

Organism
Methanosphaerula palustris (strain ATCC BAA-1556 / DSM 19958 / E1-9c)
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 sitei245 – 2451ATPUniRule annotation
Active sitei247 – 2471N6-AMP-lysine intermediateUniRule annotation
Binding sitei252 – 2521ATPUniRule annotation
Binding sitei267 – 2671ATPUniRule annotation
Binding sitei296 – 2961ATPUniRule annotation
Binding sitei336 – 3361ATPUniRule annotation
Binding sitei408 – 4081ATPUniRule annotation
Binding sitei414 – 4141ATPUniRule 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 recombination Source: UniProtKB-HAMAP
  5. DNA repair 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

BioCyciMPAL521011:GI2F-2851-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
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:Mpal_2781
OrganismiMethanosphaerula palustris (strain ATCC BAA-1556 / DSM 19958 / E1-9c)
Taxonomic identifieri521011 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaMethanomicrobiaMethanomicrobialesMethanoregulaceaeMethanosphaerula
ProteomesiUP000002457 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 556556DNA ligasePRO_1000134728Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi521011.Mpal_2781.

Structurei

3D structure databases

ProteinModelPortaliB8GGB8.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiCOG1793.
HOGENOMiHOG000036008.
KOiK10747.
OMAiGRPRPFQ.

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.
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.
PROSITEiPS50160. DNA_LIGASE_A3. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

B8GGB8-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MQFSIFAQTC AALEAQNGRL EMKHAISVIL PSLSGEDLPI FIRFLMGKIF
60 70 80 90 100
PDWSPQKLGI GPNLLYEAVA YVAGTKKTAL VDLINRTGDA GLAIEQFLAT
110 120 130 140 150
KEQTAFFTED PSLAEVYAAC TRIAASAGGR SQRERLLVLR QLFGNVSPFE
160 170 180 190 200
ARYLARLILG ELRIGIGEGT VRDAIAEAYT VEPAQVEHAM QALNDLGEVA
210 220 230 240 250
LRAREGEEGL IHLSIAPFRP VKMMLAQAGT TIPEMLAAHG EVAVEFKYDG
260 270 280 290 300
TRFQFHKEGK TCRIYSRKLE EVTDAVPEVG EALLGATDHD VILDGEVIAI
310 320 330 340 350
GADGRPLPFQ TVLRRFRRKH GIAAAREAIT LVPRVFDILY RDGETLIDLP
360 370 380 390 400
FQSRRAILSA TIGPEYLAPQ QVLSSAEAVD LLYLEAMAEG HEGVMLKDLL
410 420 430 440 450
SLYSPGVRGK HWVKIKPEVE TLDLVVIGAE WGEGRRARTF GSFLLACLDQ
460 470 480 490 500
GVFRAVSKVA TGISDEQLQE LYTLFKDQVI AESGNTVTFE PTVIFEVGYA
510 520 530 540 550
EIQKSPSYES GYALRFPRFV QVRDDKAVEE IETLESLTTR YLAQKTQANG

QPEFTL
Length:556
Mass (Da):61,297
Last modified:March 2, 2009 - v1
Checksum:i6665DC65DB81AE57
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001338 Genomic DNA. Translation: ACL18036.1.
RefSeqiWP_012619355.1. NC_011832.1.
YP_002467759.1. NC_011832.1.

Genome annotation databases

EnsemblBacteriaiACL18036; ACL18036; Mpal_2781.
GeneIDi7272662.
KEGGimpl:Mpal_2781.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001338 Genomic DNA. Translation: ACL18036.1.
RefSeqiWP_012619355.1. NC_011832.1.
YP_002467759.1. NC_011832.1.

3D structure databases

ProteinModelPortaliB8GGB8.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi521011.Mpal_2781.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiACL18036; ACL18036; Mpal_2781.
GeneIDi7272662.
KEGGimpl:Mpal_2781.

Phylogenomic databases

eggNOGiCOG1793.
HOGENOMiHOG000036008.
KOiK10747.
OMAiGRPRPFQ.

Enzyme and pathway databases

BioCyciMPAL521011:GI2F-2851-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.
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.
PROSITEiPS50160. DNA_LIGASE_A3. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "Complete sequence of Candidatus Methanosphaerula E1-9c."
    US DOE Joint Genome Institute
    Lucas S., Copeland A., Lapidus A., Glavina del Rio T., Dalin E., Tice H., Bruce D., Goodwin L., Pitluck S., Kiss H., Lu M., Brettin T., Detter J.C., Han C., Larimer F., Land M., Hauser L., Kyrpides N., Ovchinnikova G.O., Zinder S.
    Submitted (NOV-2008) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC BAA-1556 / DSM 19958 / E1-9c.

Entry informationi

Entry nameiDNLI_METPE
AccessioniPrimary (citable) accession number: B8GGB8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 27, 2009
Last sequence update: March 2, 2009
Last modified: February 3, 2015
This is version 49 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, Reference 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.