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P00969

- DNLI_BPT7

UniProt

P00969 - DNLI_BPT7

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Protein

DNA ligase

Gene

1.3

Organism
Enterobacteria phage T7 (Bacteriophage T7)
Status
Reviewed - 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) + (deoxyribonucleotide)(m) = AMP + diphosphate + (deoxyribonucleotide)(n+m).1 PublicationPROSITE-ProRule annotation

Cofactori

Divalent metal cations.By similarity

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei34 – 341N6-AMP-lysine intermediatePROSITE-ProRule annotation
Binding sitei39 – 391ATP1 Publication
Binding sitei93 – 931ATP1 Publication
Metal bindingi217 – 2171Divalent metal cationBy similarity
Binding sitei232 – 2321ATP1 Publication
Binding sitei238 – 2381ATP1 Publication

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi32 – 354ATP1 Publication
Nucleotide bindingi55 – 573ATP1 Publication

GO - Molecular functioni

  1. ATP binding Source: UniProtKB-KW
  2. DNA binding Source: UniProtKB-KW
  3. DNA ligase (ATP) activity Source: UniProtKB-EC
  4. metal ion binding Source: UniProtKB-KW

GO - Biological processi

  1. DNA ligation involved in DNA repair Source: InterPro
  2. DNA recombination Source: UniProtKB-KW
  3. DNA replication Source: UniProtKB-KW
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

Names & Taxonomyi

Protein namesi
Recommended name:
DNA ligase (EC:6.5.1.1)
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]
ProteomesiUP000000840: Genome

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi238 – 2381K → A: Complete loss of transadenylation activity. 1 Publication
Mutagenesisi240 – 2401K → A: About 99% loss of transadenylation activity. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 359359DNA ligasePRO_0000059598Add
BLAST

Interactioni

Protein-protein interaction databases

MINTiMINT-1513817.

Structurei

Secondary structure

1
359
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi9 – 135
Helixi16 – 2611
Beta strandi27 – 337
Beta strandi37 – 459
Beta strandi48 – 536
Helixi61 – 666
Helixi71 – 788
Beta strandi87 – 9913
Turni101 – 1033
Helixi104 – 1096
Beta strandi115 – 1195
Turni141 – 1433
Beta strandi144 – 15310
Helixi154 – 1596
Beta strandi163 – 1664
Helixi167 – 18418
Beta strandi188 – 1925
Beta strandi195 – 2006
Helixi201 – 21212
Turni213 – 2153
Beta strandi219 – 2224
Beta strandi230 – 24011
Beta strandi243 – 25311
Turni257 – 2593
Beta strandi267 – 2715
Beta strandi277 – 2815
Helixi286 – 29914
Turni300 – 3023
Turni321 – 3244
Beta strandi326 – 3349
Beta strandi340 – 3423
Beta strandi344 – 3485

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1A0IX-ray2.60A3-349[»]
ProteinModelPortaliP00969.
SMRiP00969. Positions 2-349.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP00969.

Family & Domainsi

Sequence similaritiesi

Belongs to the ATP-dependent DNA ligase family.Curated

Family and domain databases

Gene3Di2.40.50.140. 1 hit.
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:
EMBL
GenBank
DDBJ
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.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
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 .
PIRi E94615. LQBP37.
RefSeqi NP_041963.1. NC_001604.1.

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
1A0I X-ray 2.60 A 3-349 [» ]
ProteinModelPortali P00969.
SMRi P00969. Positions 2-349.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

MINTi MINT-1513817.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

GeneIDi 1261055.

Miscellaneous databases

EvolutionaryTracei P00969.

Family and domain databases

Gene3Di 2.40.50.140. 1 hit.
InterProi IPR012310. DNA_ligase_ATP-dep_cent.
IPR016059. DNA_ligase_ATP-dep_CS.
IPR016306. DNA_ligase_ATP-dep_T3.
IPR012340. NA-bd_OB-fold.
[Graphical view ]
Pfami PF01068. DNA_ligase_A_M. 1 hit.
[Graphical view ]
PIRSFi PIRSF001600. DNA_ligase_phage_T3. 1 hit.
SUPFAMi SSF50249. SSF50249. 1 hit.
PROSITEi PS00697. DNA_LIGASE_A1. 1 hit.
PS00333. DNA_LIGASE_A2. 1 hit.
PS50160. DNA_LIGASE_A3. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "Complete nucleotide sequence of bacteriophage T7 DNA and the locations of T7 genetic elements."
    Dunn J.J., Studier F.W.
    J. Mol. Biol. 166:477-535(1983) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  2. "Nucleotide sequence from the genetic left end of bacteriophage T7 DNA to the beginning of gene 4."
    Dunn J.J., Studier F.W.
    J. Mol. Biol. 148:303-330(1981) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  3. "The transcription termination site at the end of the early region of bacteriophage T7 DNA."
    Dunn J.J., Studier F.W.
    Nucleic Acids Res. 8:2119-2132(1980) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 278-359.
  4. "Nucleotide sequence of the primary origin of bacteriophage T7 DNA replication: relationship to adjacent genes and regulatory elements."
    Saito H., Tabor S., Tamanoi F., Richardson C.C.
    Proc. Natl. Acad. Sci. U.S.A. 77:3917-3921(1980) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-5.
  5. Cited for: FUNCTION, MUTAGENESIS OF LYS-238 AND LYS-240.
  6. "Crystal structure of an ATP-dependent DNA ligase from bacteriophage T7."
    Subramanya H.S., Doherty A.J., Ashford S.R., Wigley D.B.
    Cell 85:607-615(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (2.6 ANGSTROMS) IN COMPLEX WITH ATP, CATALYTIC ACTIVITY, DNA-BINDING.

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: October 1, 2014
This is version 104 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

External Data

Dasty 3