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Protein

DNA ligase B

Gene

ligB

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

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.1 Publication

Catalytic activityi

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

Cofactori

Mg2+1 Publication, Mn2+1 Publication

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Active sitei124N6-AMP-lysine intermediateCurated1

GO - Molecular functioni

  • DNA ligase (NAD+) activity Source: EcoCyc

GO - Biological processi

  • base-excision repair, DNA ligation Source: GO_Central
  • DNA ligation Source: EcoCyc
  • 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, NAD

Enzyme and pathway databases

BioCyciEcoCyc:EG11334-MONOMER.
ECOL316407:JW3622-MONOMER.
MetaCyc:EG11334-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
DNA ligase B (EC:6.5.1.2)
Alternative name(s):
Polydeoxyribonucleotide synthase [NAD(+)] B
Gene namesi
Name:ligB
Synonyms:yicF
Ordered Locus Names:b3647, JW3622
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG11334. ligB.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi124K → A: Loss of activity. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001617761 – 560DNA ligase BAdd BLAST560

Proteomic databases

PaxDbiP25772.
PRIDEiP25772.

Interactioni

Protein-protein interaction databases

BioGridi4262567. 167 interactors.
IntActiP25772. 3 interactors.
STRINGi511145.b3647.

Structurei

3D structure databases

ProteinModelPortaliP25772.
SMRiP25772.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiENOG410649J. Bacteria.
COG0272. LUCA.
HOGENOMiHOG000267776.
KOiK01972.
OMAiLFVWDWP.
PhylomeDBiP25772.

Family and domain databases

HAMAPiMF_01587. DNA_ligase_B. 1 hit.
InterProiIPR018239. DNA_ligase_AS.
IPR020923. DNA_ligase_B.
IPR033136. DNA_ligase_CS.
IPR013839. DNAligase_adenylation.
IPR013840. DNAligase_N.
IPR012340. NA-bd_OB-fold.
IPR004150. NAD_DNA_ligase_OB.
IPR010994. RuvA_2-like.
[Graphical view]
PfamiPF01653. DNA_ligase_aden. 1 hit.
PF03120. DNA_ligase_OB. 1 hit.
[Graphical view]
SMARTiSM00532. LIGANc. 1 hit.
[Graphical view]
SUPFAMiSSF47781. SSF47781. 1 hit.
SSF50249. SSF50249. 1 hit.
PROSITEiPS01055. DNA_LIGASE_N1. 1 hit.
PS01056. DNA_LIGASE_N2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P25772-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKVWMAILIG ILCWQSSVWA VCPAWSPARA QEEISRLQQQ IKQWDDDYWK
60 70 80 90 100
EGKSEVEDGV YDQLSARLTQ WQRCFGSEPR DVMMPPLNGA VMHPVAHTGV
110 120 130 140 150
RKMVDKNALS LWMRERSDLW VQPKVDGVAV TLVYRDGKLN KAISRGNGLK
160 170 180 190 200
GEDWTQKVSL ISAVPQTVSG PLANSTLQGE IFLQREGHIQ QQMGGINARA
210 220 230 240 250
KVAGLMMRQD DSDTLNSLGV FVWAWPDGPQ LMSDRLKELA TAGFTLTQTY
260 270 280 290 300
TRAVKNADEV ARVRNEWWKA ELPFVTDGVV VRAAKEPESR HWLPGQAEWL
310 320 330 340 350
VAWKYQPVAQ VAEVKAIQFA VGKSGKISVV ASLAPVMLDD KKVQRVNIGS
360 370 380 390 400
VRRWQEWDIA PGDQILVSLA GQGIPRIDDV VWRGAERTKP TPPENRFNSL
410 420 430 440 450
TCYFASDVCQ EQFISRLVWL GAKQVLGLDG IGEAGWRALH QTHRFEHIFS
460 470 480 490 500
WLLLTPEQLQ NTPGIAKSKS AQLWHQFNLA RKQPFTRWVM AMGIPLTRAA
510 520 530 540 550
LNASDERSWS QLLFSTEQFW QQLPGTGSGR ARQVIEWKEN AQIKKLGSWL
560
AAQQITGFEP
Length:560
Mass (Da):63,179
Last modified:July 1, 1993 - v2
Checksum:i2C1BA1F9B247A599
GO

Sequence cautioni

The sequence AAA62000 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.Curated
The sequence AAB88710 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L10328 Genomic DNA. Translation: AAA62000.1. Different initiation.
U00096 Genomic DNA. Translation: AAC76671.2.
AP009048 Genomic DNA. Translation: BAE77646.1.
M84400 Genomic DNA. Translation: AAB88710.1. Different initiation.
PIRiA65166.
RefSeqiNP_418104.2. NC_000913.3.
WP_000870036.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAC76671; AAC76671; b3647.
BAE77646; BAE77646; BAE77646.
GeneIDi948164.
KEGGiecj:JW3622.
eco:b3647.
PATRICi32122781. VBIEscCol129921_3767.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L10328 Genomic DNA. Translation: AAA62000.1. Different initiation.
U00096 Genomic DNA. Translation: AAC76671.2.
AP009048 Genomic DNA. Translation: BAE77646.1.
M84400 Genomic DNA. Translation: AAB88710.1. Different initiation.
PIRiA65166.
RefSeqiNP_418104.2. NC_000913.3.
WP_000870036.1. NZ_LN832404.1.

3D structure databases

ProteinModelPortaliP25772.
SMRiP25772.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4262567. 167 interactors.
IntActiP25772. 3 interactors.
STRINGi511145.b3647.

Proteomic databases

PaxDbiP25772.
PRIDEiP25772.

Protocols and materials databases

DNASUi948164.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC76671; AAC76671; b3647.
BAE77646; BAE77646; BAE77646.
GeneIDi948164.
KEGGiecj:JW3622.
eco:b3647.
PATRICi32122781. VBIEscCol129921_3767.

Organism-specific databases

EchoBASEiEB1310.
EcoGeneiEG11334. ligB.

Phylogenomic databases

eggNOGiENOG410649J. Bacteria.
COG0272. LUCA.
HOGENOMiHOG000267776.
KOiK01972.
OMAiLFVWDWP.
PhylomeDBiP25772.

Enzyme and pathway databases

BioCyciEcoCyc:EG11334-MONOMER.
ECOL316407:JW3622-MONOMER.
MetaCyc:EG11334-MONOMER.

Miscellaneous databases

PROiP25772.

Family and domain databases

HAMAPiMF_01587. DNA_ligase_B. 1 hit.
InterProiIPR018239. DNA_ligase_AS.
IPR020923. DNA_ligase_B.
IPR033136. DNA_ligase_CS.
IPR013839. DNAligase_adenylation.
IPR013840. DNAligase_N.
IPR012340. NA-bd_OB-fold.
IPR004150. NAD_DNA_ligase_OB.
IPR010994. RuvA_2-like.
[Graphical view]
PfamiPF01653. DNA_ligase_aden. 1 hit.
PF03120. DNA_ligase_OB. 1 hit.
[Graphical view]
SMARTiSM00532. LIGANc. 1 hit.
[Graphical view]
SUPFAMiSSF47781. SSF47781. 1 hit.
SSF50249. SSF50249. 1 hit.
PROSITEiPS01055. DNA_LIGASE_N1. 1 hit.
PS01056. DNA_LIGASE_N2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiLIGB_ECOLI
AccessioniPrimary (citable) accession number: P25772
Secondary accession number(s): P78120, Q2M7W0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 1, 1992
Last sequence update: July 1, 1993
Last modified: November 2, 2016
This is version 129 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Miscellaneous

Considerably less active in nick joining than LigA.

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. SIMILARITY comments
    Index of protein domains and families

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 one 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.