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Protein

DNA ligase

Gene

1.3

Organism
Enterobacteria phage T7 (Bacteriophage T7)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

DNA ligase that seals nicks in double-stranded DNA during DNA replication, DNA recombination and DNA repair in an ATP-dependent reaction. Binds specifically to DNA nicks containing a 3'-OH and a 5'-phosphate group.1 Publication

Catalytic activityi

ATP + (deoxyribonucleotide)(n)-3'-hydroxyl + 5'-phospho-(deoxyribonucleotide)(m) = (deoxyribonucleotide)(n+m) + AMP + diphosphate.PROSITE-ProRule annotation1 Publication

Cofactori

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Active sitei34N6-AMP-lysine intermediatePROSITE-ProRule annotation1
Binding sitei39ATP1 Publication1
Binding sitei93ATP1 Publication1
Metal bindingi217Divalent metal cationBy similarity1
Binding sitei232ATP1 Publication1
Binding sitei238ATP1 Publication1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi32 – 35ATP1 Publication4
Nucleotide bindingi55 – 57ATP1 Publication3

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Ligase

Keywords - Biological processi

DNA damage, DNA recombination, DNA repair, DNA replication

Keywords - Ligandi

ATP-binding, DNA-binding, Metal-binding, Nucleotide-binding

Enzyme and pathway databases

BRENDAi6.5.1.1. 736.

Names & Taxonomyi

Protein namesi
Recommended name:
DNA ligase (EC:6.5.1.1PROSITE-ProRule annotation1 Publication)
Alternative name(s):
DNA ligase gp1.3
Gene product 1.3
Short name:
Gp1.3
Gene namesi
Ordered Locus Names:1.3
OrganismiEnterobacteria phage T7 (Bacteriophage T7)
Taxonomic identifieri10760 [NCBI]
Taxonomic lineageiVirusesdsDNA viruses, no RNA stageCaudoviralesPodoviridaeAutographivirinaeT7likevirus
Virus hostiEscherichia coli [TaxID: 562]
Proteomesi
  • UP000000840 Componenti: Genome

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi238K → A: Complete loss of transadenylation activity. 1 Publication1
Mutagenesisi240K → A: About 99% loss of transadenylation activity. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000595981 – 359DNA ligaseAdd BLAST359

Interactioni

Protein-protein interaction databases

MINTiMINT-1513817.

Structurei

Secondary structure

1359
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi9 – 13Combined sources5
Helixi16 – 26Combined sources11
Beta strandi27 – 33Combined sources7
Beta strandi37 – 45Combined sources9
Beta strandi48 – 53Combined sources6
Helixi61 – 66Combined sources6
Helixi71 – 78Combined sources8
Beta strandi87 – 99Combined sources13
Turni101 – 103Combined sources3
Helixi104 – 109Combined sources6
Beta strandi115 – 119Combined sources5
Turni141 – 143Combined sources3
Beta strandi144 – 153Combined sources10
Helixi154 – 159Combined sources6
Beta strandi163 – 166Combined sources4
Helixi167 – 184Combined sources18
Beta strandi188 – 192Combined sources5
Beta strandi195 – 200Combined sources6
Helixi201 – 212Combined sources12
Turni213 – 215Combined sources3
Beta strandi219 – 222Combined sources4
Beta strandi230 – 240Combined sources11
Beta strandi243 – 253Combined sources11
Turni257 – 259Combined sources3
Beta strandi267 – 271Combined sources5
Beta strandi277 – 281Combined sources5
Helixi286 – 299Combined sources14
Turni300 – 302Combined sources3
Turni321 – 324Combined sources4
Beta strandi326 – 334Combined sources9
Beta strandi340 – 342Combined sources3
Beta strandi344 – 348Combined sources5

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1A0IX-ray2.60A3-349[»]
ProteinModelPortaliP00969.
SMRiP00969.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP00969.

Family & Domainsi

Sequence similaritiesi

Belongs to the ATP-dependent DNA ligase family.Curated

Phylogenomic databases

KOiK18951.

Family and domain databases

InterProiIPR012310. DNA_ligase_ATP-dep_cent.
IPR016059. DNA_ligase_ATP-dep_CS.
IPR016306. DNA_ligase_ATP-dep_T3.
IPR012340. NA-bd_OB-fold.
[Graphical view]
PfamiPF01068. DNA_ligase_A_M. 1 hit.
[Graphical view]
PIRSFiPIRSF001600. DNA_ligase_phage_T3. 1 hit.
SUPFAMiSSF50249. SSF50249. 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.

P00969-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MMNIKTNPFK AVSFVESAIK KALDNAGYLI AEIKYDGVRG NICVDNTANS
60 70 80 90 100
YWLSRVSKTI PALEHLNGFD VRWKRLLNDD RCFYKDGFML DGELMVKGVD
110 120 130 140 150
FNTGSGLLRT KWTDTKNQEF HEELFVEPIR KKDKVPFKLH TGHLHIKLYA
160 170 180 190 200
ILPLHIVESG EDCDVMTLLM QEHVKNMLPL LQEYFPEIEW QAAESYEVYD
210 220 230 240 250
MVELQQLYEQ KRAEGHEGLI VKDPMCIYKR GKKSGWWKMK PENEADGIIQ
260 270 280 290 300
GLVWGTKGLA NEGKVIGFEV LLESGRLVNA TNISRALMDE FTETVKEATL
310 320 330 340 350
SQWGFFSPYG IGDNDACTIN PYDGWACQIS YMEETPDGSL RHPSFVMFRG

TEDNPQEKM
Length:359
Mass (Da):41,133
Last modified:July 21, 1986 - v1
Checksum:i43DA453B71BDF8DC
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
V01124 Genomic DNA. Translation: CAA24322.1.
V01126 Genomic DNA. Translation: CAA24326.1.
V01127 Genomic DNA. Translation: CAA24336.1.
V01146 Genomic DNA. Translation: CAA24393.1.
PIRiE94615. LQBP37.
RefSeqiNP_041963.1. NC_001604.1.

Genome annotation databases

GeneIDi1261055.
KEGGivg:1261055.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
V01124 Genomic DNA. Translation: CAA24322.1.
V01126 Genomic DNA. Translation: CAA24326.1.
V01127 Genomic DNA. Translation: CAA24336.1.
V01146 Genomic DNA. Translation: CAA24393.1.
PIRiE94615. LQBP37.
RefSeqiNP_041963.1. NC_001604.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1A0IX-ray2.60A3-349[»]
ProteinModelPortaliP00969.
SMRiP00969.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

MINTiMINT-1513817.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi1261055.
KEGGivg:1261055.

Phylogenomic databases

KOiK18951.

Enzyme and pathway databases

BRENDAi6.5.1.1. 736.

Miscellaneous databases

EvolutionaryTraceiP00969.

Family and domain databases

InterProiIPR012310. DNA_ligase_ATP-dep_cent.
IPR016059. DNA_ligase_ATP-dep_CS.
IPR016306. DNA_ligase_ATP-dep_T3.
IPR012340. NA-bd_OB-fold.
[Graphical view]
PfamiPF01068. DNA_ligase_A_M. 1 hit.
[Graphical view]
PIRSFiPIRSF001600. DNA_ligase_phage_T3. 1 hit.
SUPFAMiSSF50249. SSF50249. 1 hit.
PROSITEiPS00697. DNA_LIGASE_A1. 1 hit.
PS00333. DNA_LIGASE_A2. 1 hit.
PS50160. DNA_LIGASE_A3. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiDNLI_BPT7
AccessioniPrimary (citable) accession number: P00969
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 21, 1986
Last sequence update: July 21, 1986
Last modified: November 30, 2016
This is version 113 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  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.