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A4YD25

- DNLI_METS5

UniProt

A4YD25 - DNLI_METS5

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Protein

DNA ligase

Gene

lig

Organism
Metallosphaera sedula (strain ATCC 51363 / DSM 5348)
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 sitei259 – 2591ATPUniRule annotation
Active sitei261 – 2611N6-AMP-lysine intermediateUniRule annotation
Binding sitei266 – 2661ATPUniRule annotation
Binding sitei281 – 2811ATPUniRule annotation
Binding sitei311 – 3111ATPUniRule annotation
Binding sitei351 – 3511ATPUniRule annotation
Binding sitei428 – 4281ATPUniRule annotation
Binding sitei434 – 4341ATPUniRule 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

BioCyciMSED399549:GH1O-160-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
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:Msed_0150
OrganismiMetallosphaera sedula (strain ATCC 51363 / DSM 5348)
Taxonomic identifieri399549 [NCBI]
Taxonomic lineageiArchaeaCrenarchaeotaThermoproteiSulfolobalesSulfolobaceaeMetallosphaera
ProteomesiUP000000242: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 598598DNA ligasePRO_1000072271Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi399549.Msed_0150.

Structurei

3D structure databases

ProteinModelPortaliA4YD25.
SMRiA4YD25. Positions 1-588.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiCOG1793.
HOGENOMiHOG000036008.
KOiK10747.
OMAiLDPSGYN.

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. 1 hit.
[Graphical view]
SUPFAMiSSF117018. SSF117018. 1 hit.
SSF50249. SSF50249. 1 hit.
TIGRFAMsiTIGR00574. dnl1. 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.

A4YD25-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MKFKLIAEYF DRLEKISSRI QLTSLLSDLF KNTEREVIDK VVYLIQGRLW
60 70 80 90 100
PDFTGMPEIG MGEKFLIKAI AMAYGNKEEE VEKLYKNIGD LGEVAYSLRS
110 120 130 140 150
KVKGVSILSF VGGNQEAGEL DVMEVYNELV KIATSTGEGS RDIKIRIFAG
160 170 180 190 200
LIKKATPIEA KYLVRFVEGR LRLGIGDATV LDALAITFGG SADYRPIVER
210 220 230 240 250
AYNLRADLGD IARVIATEGI EKLKNISPTP GIPIRPMLAE RLPDPEEIME
260 270 280 290 300
KMNGKALVDY KYDGERAQIH RKGDKVTIFS RRMENITDQY IDVTEYVKQF
310 320 330 340 350
VKGDNFIVEG EIVPVDPESG EMRPFQELMH RRRKNNIAEA IKEYPVNLFL
360 370 380 390 400
FDLMFFEGED YTTKPLPERR AKLEEILASN DKVHIASHII ADRVDKLREY
410 420 430 440 450
FYQAISEGAE GVMVKSIGPD SIYQAGSRGW LWIKLKRDYQ SEMADTVDLV
460 470 480 490 500
VVGAFYGKGK RGGKFSSLLM AAYNPEKDVF ETVCKVASGF SDQELDEMQK
510 520 530 540 550
KINELKREQK HPRVVSDMIP DVWVSPTLVA EVIGAEITIS PLHTCCRGEK
560 570 580 590
GGLSIRFPRF IRWRDDKSPE DATTNQEIME MYSKQLKKIE EKPVDENI
Length:598
Mass (Da):67,922
Last modified:May 29, 2007 - v1
Checksum:iA9C70DF05DA44BB0
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000682 Genomic DNA. Translation: ABP94327.1.
RefSeqiWP_011921295.1. NC_009440.1.
YP_001190251.1. NC_009440.1.

Genome annotation databases

EnsemblBacteriaiABP94327; ABP94327; Msed_0150.
GeneIDi5105003.
KEGGimse:Msed_0150.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000682 Genomic DNA. Translation: ABP94327.1 .
RefSeqi WP_011921295.1. NC_009440.1.
YP_001190251.1. NC_009440.1.

3D structure databases

ProteinModelPortali A4YD25.
SMRi A4YD25. Positions 1-588.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 399549.Msed_0150.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ABP94327 ; ABP94327 ; Msed_0150 .
GeneIDi 5105003.
KEGGi mse:Msed_0150.

Phylogenomic databases

eggNOGi COG1793.
HOGENOMi HOG000036008.
KOi K10747.
OMAi LDPSGYN.

Enzyme and pathway databases

BioCyci MSED399549:GH1O-160-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. 1 hit.
[Graphical view ]
SUPFAMi SSF117018. SSF117018. 1 hit.
SSF50249. SSF50249. 1 hit.
TIGRFAMsi TIGR00574. dnl1. 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. "The genome sequence of the metal-mobilizing, extremely thermoacidophilic archaeon Metallosphaera sedula provides insights into bioleaching-associated metabolism."
    Auernik K.S., Maezato Y., Blum P.H., Kelly R.M.
    Appl. Environ. Microbiol. 74:682-692(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 51363 / DSM 5348.

Entry informationi

Entry nameiDNLI_METS5
AccessioniPrimary (citable) accession number: A4YD25
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 26, 2008
Last sequence update: May 29, 2007
Last modified: October 29, 2014
This is version 53 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