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Q5YNY7

- DNLI_NOCFA

UniProt

Q5YNY7 - DNLI_NOCFA

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Protein

Probable DNA ligase

Gene

lig

Organism
Nocardia farcinica (strain IFM 10152)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi

Functioni

DNA ligase that seals nicks in double-stranded DNA during DNA replication, DNA recombination and DNA repair.UniRule annotation

Catalytic activityi

ATP + (deoxyribonucleotide)(n) + (deoxyribonucleotide)(m) = AMP + diphosphate + (deoxyribonucleotide)(n+m).UniRule annotation

Cofactori

Divalent metal cations.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei210 – 2101ATPUniRule annotation
Active sitei212 – 2121N6-AMP-lysine intermediateUniRule annotation
Binding sitei217 – 2171ATPUniRule annotation
Binding sitei232 – 2321ATPUniRule annotation
Binding sitei261 – 2611ATPUniRule annotation
Binding sitei317 – 3171ATPUniRule annotation
Binding sitei388 – 3881ATPUniRule annotation
Binding sitei394 – 3941ATPUniRule annotation

GO - Molecular functioni

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

GO - Biological processi

  1. cell cycle Source: UniProtKB-KW
  2. cell division Source: UniProtKB-KW
  3. DNA biosynthetic process Source: InterPro
  4. DNA ligation involved in DNA repair Source: InterPro
  5. DNA recombination Source: UniProtKB-HAMAP
  6. DNA replication Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Molecular functioni

Ligase

Keywords - Biological processi

Cell cycle, Cell division, DNA damage, DNA recombination, DNA repair, DNA replication

Keywords - Ligandi

ATP-binding, Metal-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyciNFAR247156:GJ9T-5323-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Probable DNA ligaseUniRule annotation (EC:6.5.1.1UniRule annotation)
Alternative name(s):
Polydeoxyribonucleotide synthase [ATP]UniRule annotation
Gene namesi
Name:ligUniRule annotation
Ordered Locus Names:NFA_52520
OrganismiNocardia farcinica (strain IFM 10152)
Taxonomic identifieri247156 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaActinobacteridaeActinomycetalesCorynebacterineaeNocardiaceaeNocardia
ProteomesiUP000006820: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 523523Probable DNA ligasePRO_0000365235Add
BLAST

Proteomic databases

PRIDEiQ5YNY7.

Interactioni

Protein-protein interaction databases

STRINGi247156.nfa52520.

Structurei

3D structure databases

ProteinModelPortaliQ5YNY7.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the ATP-dependent DNA ligase family.UniRule annotation

Phylogenomic databases

eggNOGiCOG1793.
KOiK01971.
OMAiIQSSPRY.
OrthoDBiEOG6Q8HXT.

Family and domain databases

Gene3Di1.10.3260.10. 1 hit.
2.40.50.140. 1 hit.
HAMAPiMF_00407. DNA_ligase.
InterProiIPR022865. DNA_ligae_ATP-dep_bac/arc.
IPR000977. DNA_ligase_ATP-dep.
IPR012309. DNA_ligase_ATP-dep_C.
IPR012310. DNA_ligase_ATP-dep_cent.
IPR016059. DNA_ligase_ATP-dep_CS.
IPR012308. DNA_ligase_ATP-dep_N.
IPR012340. NA-bd_OB-fold.
[Graphical view]
PfamiPF04679. DNA_ligase_A_C. 1 hit.
PF01068. DNA_ligase_A_M. 1 hit.
PF04675. DNA_ligase_A_N. 2 hits.
[Graphical view]
SUPFAMiSSF117018. SSF117018. 1 hit.
SSF50249. SSF50249. 1 hit.
TIGRFAMsiTIGR00574. dnl1. 1 hit.
PROSITEiPS00697. DNA_LIGASE_A1. 1 hit.
PS50160. DNA_LIGASE_A3. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q5YNY7-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MLFADVVRTS EAVRATRSRK TKVAALAELL RAAESAELAP VVAWLSGELR
60 70 80 90 100
QGRIGTGWRT LTGVRVPPAL DAALEVATVD AIFDELAAVS GAGSGNRRKE
110 120 130 140 150
LLTRLWSAAT EPEQEFLLRL LTGELRQGAL TALVAEAVAA AADVPVEQVR
160 170 180 190 200
RAYMLSGQLP VTAEAALRGG AAALAEFRLE VGRPIQPMLA APGASLEEAM
210 220 230 240 250
TEFGGEVSVE HKLDGARIQV HRDGDRIAVF TRTLRDITAG VPELVELVAR
260 270 280 290 300
LDCTSVVLDG ETLALTDAGR PRPFQETMSR FATADPARAA EVDLPPGTPV
310 320 330 340 350
VPPVSSTREL LLHPYFFDCL HLDGRDLLDA PLSERRAALL AVVGEHAIPA
360 370 380 390 400
LIRPEPEAAA EYFDGALAAG HEGLMVKSLS APYAAGRRGR SWQKIKPTHT
410 420 430 440 450
LDLLVLGAEW GYGRRTGYLS NLHLGARDPR TGEPVMVGKT FKGLTDALLA
460 470 480 490 500
WQTAEFPRHE RARDEHTVYL WPELVVEIAL DGVQVSPRYP GGVALRFARV
510 520
VRYRPDKTPD QADTIDTVRG LLP
Length:523
Mass (Da):56,457
Last modified:November 23, 2004 - v1
Checksum:i398B9736FF4F94BA
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AP006618 Genomic DNA. Translation: BAD60104.1.
RefSeqiWP_011211786.1. NC_006361.1.
YP_121468.1. NC_006361.1.

Genome annotation databases

EnsemblBacteriaiBAD60104; BAD60104; NFA_52520.
GeneIDi3110671.
KEGGinfa:nfa52520.
PATRICi22740091. VBINocFar94200_5264.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AP006618 Genomic DNA. Translation: BAD60104.1 .
RefSeqi WP_011211786.1. NC_006361.1.
YP_121468.1. NC_006361.1.

3D structure databases

ProteinModelPortali Q5YNY7.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 247156.nfa52520.

Proteomic databases

PRIDEi Q5YNY7.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai BAD60104 ; BAD60104 ; NFA_52520 .
GeneIDi 3110671.
KEGGi nfa:nfa52520.
PATRICi 22740091. VBINocFar94200_5264.

Phylogenomic databases

eggNOGi COG1793.
KOi K01971.
OMAi IQSSPRY.
OrthoDBi EOG6Q8HXT.

Enzyme and pathway databases

BioCyci NFAR247156:GJ9T-5323-MONOMER.

Family and domain databases

Gene3Di 1.10.3260.10. 1 hit.
2.40.50.140. 1 hit.
HAMAPi MF_00407. DNA_ligase.
InterProi IPR022865. DNA_ligae_ATP-dep_bac/arc.
IPR000977. DNA_ligase_ATP-dep.
IPR012309. DNA_ligase_ATP-dep_C.
IPR012310. DNA_ligase_ATP-dep_cent.
IPR016059. DNA_ligase_ATP-dep_CS.
IPR012308. DNA_ligase_ATP-dep_N.
IPR012340. NA-bd_OB-fold.
[Graphical view ]
Pfami PF04679. DNA_ligase_A_C. 1 hit.
PF01068. DNA_ligase_A_M. 1 hit.
PF04675. DNA_ligase_A_N. 2 hits.
[Graphical view ]
SUPFAMi SSF117018. SSF117018. 1 hit.
SSF50249. SSF50249. 1 hit.
TIGRFAMsi TIGR00574. dnl1. 1 hit.
PROSITEi PS00697. DNA_LIGASE_A1. 1 hit.
PS50160. DNA_LIGASE_A3. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: IFM 10152.

Entry informationi

Entry nameiDNLI_NOCFA
AccessioniPrimary (citable) accession number: Q5YNY7
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 3, 2009
Last sequence update: November 23, 2004
Last modified: October 29, 2014
This is version 79 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

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3