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O87703

- DNLJ_GEOSE

UniProt

O87703 - DNLJ_GEOSE

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Protein
DNA ligase
Gene
ligA, lig
Organism
Geobacillus stearothermophilus (Bacillus stearothermophilus)
Status
Reviewed - Annotation score: 4 out of 5 - Experimental evidence at protein leveli

Functioni

DNA ligase that catalyzes the formation of phosphodiester linkages between 5'-phosphoryl and 3'-hydroxyl groups in double-stranded DNA using NAD as a coenzyme and as the energy source for the reaction. It is essential for DNA replication and repair of damaged DNA By similarity.UniRule annotation

Catalytic activityi

NAD+ + (deoxyribonucleotide)(n) + (deoxyribonucleotide)(m) = AMP + beta-nicotinamide D-ribonucleotide + (deoxyribonucleotide)(n+m).UniRule annotation

Cofactori

Magnesium or manganese By similarity.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei112 – 1121NAD By similarity
Active sitei114 – 1141N6-AMP-lysine intermediate
Binding sitei135 – 1351NAD By similarity
Binding sitei169 – 1691NAD By similarity
Binding sitei285 – 2851NAD By similarity
Binding sitei309 – 3091NAD By similarity
Metal bindingi403 – 4031Zinc By similarity
Metal bindingi406 – 4061Zinc By similarity
Metal bindingi421 – 4211Zinc By similarity
Metal bindingi426 – 4261Zinc By similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi34 – 385NAD By similarity
Nucleotide bindingi83 – 842NAD By similarity

GO - Molecular functioni

  1. DNA binding Source: InterPro
  2. DNA ligase (NAD+) activity Source: UniProtKB-HAMAP
  3. metal ion binding Source: UniProtKB-KW

GO - Biological processi

  1. DNA repair Source: UniProtKB-KW
  2. DNA replication Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Ligase

Keywords - Biological processi

DNA damage, DNA repair, DNA replication

Keywords - Ligandi

Magnesium, Manganese, Metal-binding, NAD, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
DNA ligase (EC:6.5.1.2)
Alternative name(s):
Polydeoxyribonucleotide synthase [NAD(+)]
Gene namesi
Name:ligA
Synonyms:lig
OrganismiGeobacillus stearothermophilus (Bacillus stearothermophilus)
Taxonomic identifieri1422 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesBacillaceaeGeobacillus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 670670DNA ligaseUniRule annotation
PRO_0000161737Add
BLAST

Proteomic databases

PRIDEiO87703.

Structurei

Secondary structure

Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi3 – 2523
Helixi35 – 5016
Helixi52 – 543
Helixi60 – 634
Helixi92 – 10413
Beta strandi109 – 12517
Beta strandi128 – 1347
Beta strandi141 – 1433
Helixi145 – 1495
Beta strandi164 – 1718
Helixi174 – 18613
Helixi195 – 20410
Helixi208 – 2136
Beta strandi217 – 2237
Turni224 – 2307
Helixi234 – 24310
Beta strandi253 – 2575
Helixi258 – 27114
Beta strandi279 – 2868
Helixi289 – 2957
Beta strandi299 – 3013
Beta strandi305 – 3095

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1B04X-ray2.80A/B1-318[»]
ProteinModelPortaliO87703.
SMRiO87703. Positions 1-313.

Miscellaneous databases

EvolutionaryTraceiO87703.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini589 – 67082BRCT
Add
BLAST

Sequence similaritiesi

Contains 1 BRCT domain.

Family and domain databases

Gene3Di2.40.50.140. 1 hit.
3.40.50.10190. 1 hit.
HAMAPiMF_01588. DNA_ligase_A.
InterProiIPR001357. BRCT_dom.
IPR018239. DNA_ligase_AS.
IPR001679. DNAligase.
IPR013839. DNAligase_adenylation.
IPR013840. DNAligase_N.
IPR000445. HhH_motif.
IPR003583. Hlx-hairpin-Hlx_DNA-bd_motif.
IPR012340. NA-bd_OB-fold.
IPR004150. NAD_DNA_ligase_OB.
IPR010994. RuvA_2-like.
IPR004149. Znf_DNAligase_C4.
[Graphical view]
PfamiPF00533. BRCT. 1 hit.
PF01653. DNA_ligase_aden. 1 hit.
PF03120. DNA_ligase_OB. 1 hit.
PF03119. DNA_ligase_ZBD. 1 hit.
PF00633. HHH. 1 hit.
[Graphical view]
PIRSFiPIRSF001604. LigA. 1 hit.
SMARTiSM00292. BRCT. 1 hit.
SM00278. HhH1. 3 hits.
SM00532. LIGANc. 1 hit.
[Graphical view]
SUPFAMiSSF47781. SSF47781. 1 hit.
SSF50249. SSF50249. 1 hit.
SSF52113. SSF52113. 1 hit.
TIGRFAMsiTIGR00575. dnlj. 1 hit.
PROSITEiPS50172. BRCT. 1 hit.
PS01055. DNA_LIGASE_N1. 1 hit.
PS01056. DNA_LIGASE_N2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

O87703-1 [UniParc]FASTAAdd to Basket

« Hide

MDRQQAERRA AELRELLNRY GYEYYVLDRP SVPDAEYDRL MQELIAIEEQ    50
YPELKTSDSP TQRIGGPPLE AFRKVAHRVP MMSLANAFGE GDLRDFDRRV 100
RQEVGEAAYV CELKIDGLAV SVRYEDGYFV QGATRGDGTT GEDITENLKT 150
IRSLPLRLKE PVSLEARGEA FMPKASFLRL NEERKARGEE LFANPRNAAA 200
GSLRQLDPKV AASRQLDLFV YGLADAEALG IASHSEALDY LQALGFKVNP 250
ERRRCANIDE VIAFVSEWHD KRPQLPYEID GIVIKVDSFA QQRALGATAK 300
SPRWAIAYKF PAEEVVTTLI GIEVNVGRTG VVTPTAILEP VRVAGTTVQR 350
ATLHNEDFIR EKDIRIGDAV IIKKAGDIIP EVVGVVVDRR DGDETPFAMP 400
THCPECESEL VRLEGEVALR CLNPNCPAQL RERLIHFASR AAMNIEGLGE 450
KVVTQLFNAG LVRDVADLYC LTKEQLVGLE RMGEKSAANL LAAIEASKQN 500
SLERLLFGLG IRYVGAKAAQ LLAEHFETME RLERATKEEL MAVPEIGEKM 550
ADAITAFFAQ PEATELLQEL RAYGVNMAYK GPKRSAEAPA DSAFAGKTVV 600
LTGKLASMSR NEAKEQIERL GGRVTGSVSR STDLVIAGED AGSKLEKAQQ 650
LGIEIWDESR FLQEINRGKR 670
Length:670
Mass (Da):74,231
Last modified:November 1, 1998 - v1
Checksum:iB52462314CF9ACF5
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AJ011676 Genomic DNA. Translation: CAA09732.1.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AJ011676 Genomic DNA. Translation: CAA09732.1 .

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
1B04 X-ray 2.80 A/B 1-318 [» ]
ProteinModelPortali O87703.
SMRi O87703. Positions 1-313.
ModBasei Search...
MobiDBi Search...

Proteomic databases

PRIDEi O87703.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Miscellaneous databases

EvolutionaryTracei O87703.

Family and domain databases

Gene3Di 2.40.50.140. 1 hit.
3.40.50.10190. 1 hit.
HAMAPi MF_01588. DNA_ligase_A.
InterProi IPR001357. BRCT_dom.
IPR018239. DNA_ligase_AS.
IPR001679. DNAligase.
IPR013839. DNAligase_adenylation.
IPR013840. DNAligase_N.
IPR000445. HhH_motif.
IPR003583. Hlx-hairpin-Hlx_DNA-bd_motif.
IPR012340. NA-bd_OB-fold.
IPR004150. NAD_DNA_ligase_OB.
IPR010994. RuvA_2-like.
IPR004149. Znf_DNAligase_C4.
[Graphical view ]
Pfami PF00533. BRCT. 1 hit.
PF01653. DNA_ligase_aden. 1 hit.
PF03120. DNA_ligase_OB. 1 hit.
PF03119. DNA_ligase_ZBD. 1 hit.
PF00633. HHH. 1 hit.
[Graphical view ]
PIRSFi PIRSF001604. LigA. 1 hit.
SMARTi SM00292. BRCT. 1 hit.
SM00278. HhH1. 3 hits.
SM00532. LIGANc. 1 hit.
[Graphical view ]
SUPFAMi SSF47781. SSF47781. 1 hit.
SSF50249. SSF50249. 1 hit.
SSF52113. SSF52113. 1 hit.
TIGRFAMsi TIGR00575. dnlj. 1 hit.
PROSITEi PS50172. BRCT. 1 hit.
PS01055. DNA_LIGASE_N1. 1 hit.
PS01056. DNA_LIGASE_N2. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. "Nucleotide sequence, heterologous expression and novel purification of DNA ligase from Bacillus stearothermophilus."
    Brannigan J.A., Ashford S.R., Doherty A.J., Timson D.J., Wigley D.B.
    Biochim. Biophys. Acta 1432:413-418(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: ATCC 29609 / DSM 2027 / NCA 1503 / NCIMB 8924.
  2. "Structure of the adenylation domain of an NAD+-dependent DNA ligase."
    Singleton M.R., Hakansson K., Timson D.J., Wigley D.B.
    Structure 7:35-42(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (2.8 ANGSTROMS) OF 1-318.

Entry informationi

Entry nameiDNLJ_GEOSE
AccessioniPrimary (citable) accession number: O87703
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: November 1, 1998
Last modified: May 14, 2014
This is version 90 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

3D-structure

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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