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P00969

- DNLI_BPT7

UniProt

P00969 - DNLI_BPT7

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
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    • History
      Entry version 104 (01 Oct 2014)
      Sequence version 1 (21 Jul 1986)
      Previous versions | rss
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    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

    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

    MMNIKTNPFK AVSFVESAIK KALDNAGYLI AEIKYDGVRG NICVDNTANS    50
    YWLSRVSKTI PALEHLNGFD VRWKRLLNDD RCFYKDGFML DGELMVKGVD 100
    FNTGSGLLRT KWTDTKNQEF HEELFVEPIR KKDKVPFKLH TGHLHIKLYA 150
    ILPLHIVESG EDCDVMTLLM QEHVKNMLPL LQEYFPEIEW QAAESYEVYD 200
    MVELQQLYEQ KRAEGHEGLI VKDPMCIYKR GKKSGWWKMK PENEADGIIQ 250
    GLVWGTKGLA NEGKVIGFEV LLESGRLVNA TNISRALMDE FTETVKEATL 300
    SQWGFFSPYG IGDNDACTIN PYDGWACQIS YMEETPDGSL RHPSFVMFRG 350
    TEDNPQEKM 359
    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

    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