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Protein
Submitted name:

ATP-dependent DNA ligase I

Gene

lig

Organism
Natrialba magadii (strain ATCC 43099 / DSM 3394 / NCIMB 2190 / MS3) (Natronobacterium magadii)
Status
Unreviewed-Annotation score: Annotation score: 2 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 sitei292 – 2921ATPUniRule annotation
Active sitei294 – 2941N6-AMP-lysine intermediateUniRule annotation
Binding sitei299 – 2991ATPUniRule annotation
Binding sitei325 – 3251ATPUniRule annotation
Binding sitei354 – 3541ATPUniRule annotation
Binding sitei394 – 3941ATPUniRule annotation
Binding sitei475 – 4751ATPUniRule annotation
Binding sitei481 – 4811ATPUniRule 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

LigaseUniRule annotationImported

Keywords - Biological processi

Cell cycle, Cell divisionUniRule annotation, DNA damage, DNA recombinationUniRule annotation, DNA repairUniRule annotation, DNA replicationUniRule annotation

Keywords - Ligandi

ATP-bindingUniRule annotation, MagnesiumUniRule annotation, Metal-bindingUniRule annotation, Nucleotide-binding

Enzyme and pathway databases

BioCyciNMAG547559:GJAP-621-MONOMER.

Names & Taxonomyi

Protein namesi
Submitted name:
ATP-dependent DNA ligase IImported
Submitted name:
DNA ligase I, ATP-dependent Dnl1Imported
Gene namesi
Name:ligUniRule annotation
Ordered Locus Names:Nmag_0608Imported
ORF Names:C500_15590Imported
OrganismiNatrialba magadii (strain ATCC 43099 / DSM 3394 / NCIMB 2190 / MS3) (Natronobacterium magadii)Imported
Taxonomic identifieri547559 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaHalobacteriaHalobacterialesHalobacteriaceaeNatrialba
ProteomesiUP000001879 Componenti: Chromosome

Family & Domainsi

Sequence similaritiesi

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

Phylogenomic databases

HOGENOMiHOG000036008.
KOiK10747.
OMAiGRPRPFQ.

Family and domain databases

Gene3Di1.10.3260.10. 2 hits.
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. 2 hits.
[Graphical view]
SUPFAMiSSF117018. SSF117018. 2 hits.
SSF50249. SSF50249. 1 hit.
TIGRFAMsiTIGR00574. dnl1. 1 hit.
PROSITEiPS00697. DNA_LIGASE_A1. 1 hit.
PS50160. DNA_LIGASE_A3. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

D3SYT3-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MEFATFADRA ATIEAESADL EIVAHVRDLL AEAGDDLPIV ARFVQGRVFP
60 70 80 90 100
AWDSTTLDIG PNTCYEAIAR AAGTNVDADD VEERLADRGE IGAVAASYDF
110 120 130 140 150
GGQQGLGAFM SGGGSGAGGA VDNNDDQDDR NNGGNGSNSG NDSNSSNDSN
160 170 180 190 200
SSNGTGDLTV REINDTLTDL AAAEGSGSQD RKVDLLFGLF NRCSSDEARY
210 220 230 240 250
LARLVLSEMR IGVGEGTVRD AIAEAFEVPQ EPVERALQVS NDYGQVAETA
260 270 280 290 300
REDGVDGLDE IDLEIGRPVQ AMLAQAGTVT DALEEWDEAA VEWKYDGARI
310 320 330 340 350
QLHYDPAGPG GPDGDSNGET HVFSRNMEAV TDALPEVVEF ADEHLDGPAI
360 370 380 390 400
LDGEVVAIDD DGNPLPFQEV LKRFRRKHDV AKARENVSVR PVFFDCLHAD
410 420 430 440 450
GDDLLEEPLV ERHNQLESVL AMGPQQEPEE IDGFSLLWVT DNPDEIEAVD
460 470 480 490 500
ADALEAGHEG IMLKNPDSAY SPGRRGKNWQ KRKPDVETLD CVVTGAEWGE
510 520 530 540 550
GRRATFLGTF ELSVRDGDDL ETVGKVATGI TDEKLEELTE LLEPHIVAED
560 570 580 590 600
GTAVELEPAV VFEVGYEEIQ TSPTYSSGYA LRFPRFLGVR YDKDTAGAET
610
LERLETLFES
Length:610
Mass (Da):65,823
Last modified:April 20, 2010 - v1
Checksum:iAAB053AF4CC701D6
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001932 Genomic DNA. Translation: ADD04194.1.
AOHS01000051 Genomic DNA. Translation: ELY26599.1.
RefSeqiWP_004216345.1. NZ_AOHS01000051.1.
YP_003478756.1. NC_013922.1.

Genome annotation databases

EnsemblBacteriaiADD04194; ADD04194; Nmag_0608.
ELY26599; ELY26599; C500_15590.
GeneIDi8823435.
KEGGinmg:Nmag_0608.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001932 Genomic DNA. Translation: ADD04194.1.
AOHS01000051 Genomic DNA. Translation: ELY26599.1.
RefSeqiWP_004216345.1. NZ_AOHS01000051.1.
YP_003478756.1. NC_013922.1.

3D structure databases

ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiADD04194; ADD04194; Nmag_0608.
ELY26599; ELY26599; C500_15590.
GeneIDi8823435.
KEGGinmg:Nmag_0608.

Phylogenomic databases

HOGENOMiHOG000036008.
KOiK10747.
OMAiGRPRPFQ.

Enzyme and pathway databases

BioCyciNMAG547559:GJAP-621-MONOMER.

Family and domain databases

Gene3Di1.10.3260.10. 2 hits.
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. 2 hits.
[Graphical view]
SUPFAMiSSF117018. SSF117018. 2 hits.
SSF50249. SSF50249. 1 hit.
TIGRFAMsiTIGR00574. dnl1. 1 hit.
PROSITEiPS00697. DNA_LIGASE_A1. 1 hit.
PS50160. DNA_LIGASE_A3. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Complete sequence of chromosome of Natrialba magadii ATCC 43099."
    US DOE Joint Genome Institute
    Lucas S., Copeland A., Lapidus A., Cheng J.-F., Bruce D., Goodwin L., Pitluck S., Davenport K., Saunders E., Detter J.C., Han C., Tapia R., Land M., Hauser L., Kyrpides N., Mikhailova N., De Castro R.E., Maupin-Furlow J.A., Woyke T.
    Submitted (JAN-2010) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 43099 / DSM 3394 / NCIMB 2190 / MS3Imported.
  2. "A comparative genomics perspective on the genetic content of the alkaliphilic haloarchaeon Natrialba magadii ATCC 43099T."
    Siddaramappa S., Challacombe J.F., Decastro R.E., Pfeiffer F., Sastre D.E., Gimenez M.I., Paggi R.A., Detter J.C., Davenport K.W., Goodwin L.A., Kyrpides N., Tapia R., Pitluck S., Lucas S., Woyke T., Maupin-Furlow J.A.
    BMC Genomics 13:165-165(2011) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE.
    Strain: ATCC 43099Imported.
  3. Becker E.A., Seitzer P., Tritt A., Larsen D., Yao A., Wu D., Darling A., Eisen J.A., Facciotti M.T.
    Submitted (OCT-2012) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE.
    Strain: MS-3Imported.

Entry informationi

Entry nameiD3SYT3_NATMM
AccessioniPrimary (citable) accession number: D3SYT3
Entry historyi
Integrated into UniProtKB/TrEMBL: April 20, 2010
Last sequence update: April 20, 2010
Last modified: April 1, 2015
This is version 33 of the entry and version 1 of the sequence. [Complete history]
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteomeImported

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.