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G0EDM6 (G0EDM6_PYRF1) Unreviewed, UniProtKB/TrEMBL

Last modified April 3, 2013. Version 13. Feed History...

Clusters with 100%, 90%, 50% identity | Third-party data text xml rdf/xml gff fasta
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to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry infoCustomize order

Names and origin

Protein namesRecommended name:
DNA ligase RuleBase RU000617 HAMAP-Rule MF_00407
EC=6.5.1.1 RuleBase RU000617 HAMAP-Rule MF_00407
Alternative name(s):
Polydeoxyribonucleotide synthase [ATP] HAMAP-Rule MF_00407
Gene names
Name:lig HAMAP-Rule MF_00407
Ordered Locus Names:Pyrfu_1977 EMBL AEM39830.1
OrganismPyrolobus fumarii (strain DSM 11204 / 1A) [Complete proteome] [HAMAP]
Taxonomic identifier694429 [NCBI]
Taxonomic lineageArchaea › Crenarchaeota › Thermoprotei › Desulfurococcales › Pyrodictiaceae › Pyrolobus ›

Protein attributes

Sequence length609 AA.
Sequence statusComplete.
Protein existenceInferred from homology

General annotation (Comments)

Function

DNA ligase that seals nicks in double-stranded DNA during DNA replication, DNA recombination and DNA repair By similarity. HAMAP-Rule MF_00407

Catalytic activity

ATP + (deoxyribonucleotide)(n) + (deoxyribonucleotide)(m) = AMP + diphosphate + (deoxyribonucleotide)(n+m). RuleBase RU000617 HAMAP-Rule MF_00407

Cofactor

Divalent metal cations By similarity. HAMAP-Rule MF_00407

Sequence similarities

Belongs to the ATP-dependent DNA ligase family. RuleBase RU004196 HAMAP-Rule MF_00407

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Sites

Active site2681N6-AMP-lysine intermediate By similarity HAMAP-Rule MF_00407
Binding site2661ATP By similarity HAMAP-Rule MF_00407
Binding site2731ATP By similarity HAMAP-Rule MF_00407
Binding site2881ATP By similarity HAMAP-Rule MF_00407
Binding site3181ATP By similarity HAMAP-Rule MF_00407
Binding site3581ATP By similarity HAMAP-Rule MF_00407
Binding site4351ATP By similarity HAMAP-Rule MF_00407
Binding site4411ATP By similarity HAMAP-Rule MF_00407

Sequences

Sequence LengthMass (Da)Tools
G0EDM6 [UniParc].

Last modified October 19, 2011. Version 1.
Checksum: F71A9C6F3BA53E90

FASTA60968,833
        10         20         30         40         50         60 
MPMPFSILAE TFEKLERTTS RTQMVLYLVD LFKKTPPETI DKVVYFLQGK LWPDWKGLPE 

        70         80         90        100        110        120 
LGVGEKTLIK AVSIALHVPE RTVEELAKRL GDLGLAVERL KREKEKGAKA VGLLAFMKQP 

       130        140        150        160        170        180 
SSGESTLTVE KVYDTLARVA LTTGEGSREL KLKLVAGLIA EASPREAKYI VRFIEGRLRL 

       190        200        210        220        230        240 
GVGDATIIEA LSIVYAGSAA MKHVVERAYN LRADLGLVAK ILATQGVEAV KNIKPEVGIP 

       250        260        270        280        290        300 
IRPMLAERLN NPVEILKKLG GRALVEYKYD GERAQIHKKG DKIWIFSRRL ENITKMYPDV 

       310        320        330        340        350        360 
VEMALKGIKA NEAIVEGEIV AIDPDTGELR PFQELMRRKR KHDIHIAMKE VPVAVYLFDI 

       370        380        390        400        410        420 
LYRDGEDLTV KPLPERRKHL EEVLVQSDTW RLAEHIYTDK PEELEQFFLR AIEDGAEGVM 

       430        440        450        460        470        480 
AKAVHSRSIY QAGARGWLWI KYKRDYKSEM IDTVDLVVVG AFYGKGRRGG KFGALLMAAY 

       490        500        510        520        530        540 
DPDTDTFKTV CKVGSGFTDE DLERLNEMLK PYIIPHKHPR VDSKMKPDVW VQPALVAEII 

       550        560        570        580        590        600 
GAELTLSPIH TCCHGWVKPG AGISIRFPRF IRWRPDKSPE DATTTKELYE MYKRQLHKIE 


EKTATREAA

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References

[1]"Complete genome sequence of the hyperthermophilic chemolithoautotroph Pyrolobus fumarii type strain (1A)."
Anderson I., Goker M., Nolan M., Lucas S., Hammon N., Deshpande S., Cheng J.F., Tapia R., Han C., Goodwin L., Pitluck S., Huntemann M., Liolios K., Ivanova N., Pagani I., Mavromatis K., Ovchinikova G., Pati A. expand/collapse author list , Chen A., Palaniappan K., Land M., Hauser L., Brambilla E.M., Huber H., Yasawong M., Rohde M., Spring S., Abt B., Sikorski J., Wirth R., Detter J.C., Woyke T., Bristow J., Eisen J.A., Markowitz V., Hugenholtz P., Kyrpides N.C., Klenk H.P., Lapidus A.
Stand. Genomic Sci. 4:381-392(2011) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: DSM 11204 / 1A.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ		CP002838 Genomic DNA. Translation: AEM39830.1.
RefSeqYP_004782082.1. NC_015931.1.

3D structure databases

ProteinModelPortalG0EDM6.
ModBaseSearch...

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaAEM39830; AEM39830; Pyrfu_1977.
GeneID11138318.
KEGGpfm:Pyrfu_1977.

Organism-specific databases

CMRSearch...

Phylogenomic databases

KOK10747.
OMAAQVACLY.

Enzyme and pathway databases

BioCycPFUM694429:GHUY-2029-MONOMER.

Family and domain databases

Gene3D1.10.3260.10. 1 hit.
2.40.50.140. 1 hit.
HAMAPMF_00407. DNA_ligase.
InterProIPR022865. 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]
PfamPF04679. DNA_ligase_A_C. 1 hit.
PF01068. DNA_ligase_A_M. 1 hit.
PF04675. DNA_ligase_A_N. 1 hit.
[Graphical view]
SUPFAMSSF50249. Nucleic_acid_OB. 1 hit.
SSF117018. SSF117018. 1 hit.
TIGRFAMsTIGR00574. dnl1. 1 hit.
PROSITEPS00697. DNA_LIGASE_A1. 1 hit.
PS00333. DNA_LIGASE_A2. 1 hit.
PS50160. DNA_LIGASE_A3. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameG0EDM6_PYRF1
AccessionPrimary (citable) accession number: G0EDM6
Entry history
Integrated into UniProtKB/TrEMBL: October 19, 2011
Last sequence update: October 19, 2011
Last modified: April 3, 2013
This is version 13 of the entry and version 1 of the sequence. [Complete history]
Entry statusUnreviewed (UniProtKB/TrEMBL)
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info