DNA ligase - Haloterrigena turkmenica (strain ATCC 51198 / DSM 5511 / NCIMB 13204 / VKM B-1734)

Preferred order of sections

Names and origin

Protein names

Recommended name:
DNA ligase HAMAP-Rule MF_00407 RuleBase RU000617
EC=6.5.1.1 HAMAP-Rule MF_00407 RuleBase RU000617

Alternative name(s):
Polydeoxyribonucleotide synthase [ATP] HAMAP-Rule MF_00407

Gene names

Name:	lig HAMAP-Rule MF_00407
Ordered Locus Names:	Htur_1898 EMBL ADB60783.1

Organism

Haloterrigena turkmenica (strain ATCC 51198 / DSM 5511 / NCIMB 13204 / VKM B-1734) (Halococcus turkmenicus) [Complete proteome] [HAMAP] EMBL ADB60783.1

Taxonomic identifier

543526 [NCBI]

Taxonomic lineage

Archaea › Euryarchaeota › Halobacteria › Halobacteriales › Halobacteriaceae › Haloterrigena ›

Protein attributes

Sequence length	592 AA.
Sequence status	Complete.
Protein existence	Inferred 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). HAMAP-Rule MF_00407 RuleBase RU000617
Cofactor	Divalent metal cations By similarity. HAMAP-Rule MF_00407
Sequence similarities	Belongs to the ATP-dependent DNA ligase family. HAMAP-Rule MF_00407 RuleBase RU004196

Ontologies

Keywords
Biological process	Cell cycle Cell division HAMAP-Rule MF_00407 DNA damage DNA recombination HAMAP-Rule MF_00407 RuleBase RU000617 DNA repair HAMAP-Rule MF_00407 RuleBase RU000617 DNA replication HAMAP-Rule MF_00407 RuleBase RU000617
Ligand	ATP-binding HAMAP-Rule MF_00407 RuleBase RU000617 Metal-binding HAMAP-Rule MF_00407 Nucleotide-binding
Molecular function	Ligase HAMAP-Rule MF_00407 RuleBase RU000617 EMBL ADB60783.1
Technical term	Complete proteome
Gene Ontology (GO)
Biological_process	DNA ligation involved in DNA repair Inferred from electronic annotation. Source: InterPro DNA recombination Inferred from electronic annotation. Source: HAMAP DNA replication Inferred from electronic annotation. Source: HAMAP cell cycle Inferred from electronic annotation. Source: UniProtKB-KW cell division Inferred from electronic annotation. Source: UniProtKB-KW
Molecular_function	ATP binding Inferred from electronic annotation. Source: HAMAP DNA binding Inferred from electronic annotation. Source: InterPro DNA ligase (ATP) activity Inferred from electronic annotation. Source: HAMAP metal ion binding Inferred from electronic annotation. Source: UniProtKB-KW
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Sites

Active site

277

1

N6-AMP-lysine intermediate By similarity HAMAP-Rule MF_00407

Binding site

275

1

ATP By similarity HAMAP-Rule MF_00407

Binding site

282

1

ATP By similarity HAMAP-Rule MF_00407

Binding site

302

1

ATP By similarity HAMAP-Rule MF_00407

Binding site

331

1

ATP By similarity HAMAP-Rule MF_00407

Binding site

371

1

ATP By similarity HAMAP-Rule MF_00407

Binding site

458

1

ATP By similarity HAMAP-Rule MF_00407

Binding site

464

1

ATP By similarity HAMAP-Rule MF_00407

Sequences

Sequence

Length

Mass (Da)

Tools

D2RSK7 [UniParc].

Last modified March 2, 2010. Version 1.
Checksum: 100475429399F4DB
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FASTA

592

64,362

        10         20         30         40         50         60 
MEFATFADRA AAIEAEPADL EIVARTSELL ADAGDDSEDR RSAGSAVDPQ TLEVVARFVQ 

        70         80         90        100        110        120 
GRVFPAWDST KLDIGPTTCY EAIARAAGTN VGSDDVEERL AEVGEIGEVA ASYDFGGQQG 

       130        140        150        160        170        180 
LGAFTGGGGG NGAGGAAGND LTVREVYETL ADLAAAEGSG SQDRKIDLLF GLFNRCSSEE 

       190        200        210        220        230        240 
ARYLARLVLS EMRIGVGEGS VRDAISEAFD VPVEHVERAL QVSNDYGQVA RVARDEGREG 

       250        260        270        280        290        300 
LDAMDLEVGR PVQAMLAQAG TVTDALEEWD EAAVEWKYDG ARVQLHHRIG DDGTTETCVF 

       310        320        330        340        350        360 
SRNMEEVTDA FPEVVEFADE TLEEPAILDG EVVAIDEDDE PLPFQEVLKR FRRKHDVAKA 

       370        380        390        400        410        420 
REDVTVRPVF FDCLHAGGED LLEEPLTTRH ERLRAVLADA DDSSDATVED ERDIEALSLL 

       430        440        450        460        470        480 
WTTDDPDEIE AIDAEALEAG HEGIMLKDPD SAYSPGRRGK HWRKRKPDVE TLDCVVTGAE 

       490        500        510        520        530        540 
WGEGRRATFL GTFELSVRAG DDLETVGKVA TGITDEKLEE LTALLEPHIA TEEGQAVDIE 

       550        560        570        580        590 
PAVVFEVGYE EIQSSPTYSS GYALRFPRFL GVRSDKDPDD ADTLERVERL RA

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References

[1]

"Complete genome sequence of Haloterrigena turkmenica type strain (4k)."
Saunders E., Tindall B.J., Fahnrich R., Lapidus A., Copeland A., Del Rio T.G., Lucas S., Chen F., Tice H., Cheng J.F., Han C., Detter J.C., Bruce D., Goodwin L., Chain P., Pitluck S., Pati A., Ivanova N.

Kyrpides N.C.
Stand. Genomic Sci. 2:107-116(2010) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: ATCC 51198 / DSM 5511 / NCIMB 13204 / VKM B-1734.

Cross-references

Sequence databases
EMBL GenBank DDBJ	CP001860 Genomic DNA. Translation: ADB60783.1.
RefSeq	YP_003403456.1. NC_013743.1.
3D structure databases
ModBase	Search...
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	ADB60783; ADB60783; Htur_1898.
GeneID	8742496.
KEGG	htu:Htur_1898.
Organism-specific databases
CMR	Search...
Phylogenomic databases
HOGENOM	HOG000036008.
KO	K10747.
OMA	ARVQVHK.
Enzyme and pathway databases
BioCyc	HTUR543526:GH7B-3442-MONOMER.
Family and domain databases
Gene3D	1.10.3260.10. 1 hit. 2.40.50.140. 1 hit.
HAMAP	MF_00407. DNA_ligase.
InterPro	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]
Pfam	PF04679. DNA_ligase_A_C. 1 hit. PF01068. DNA_ligase_A_M. 1 hit. PF04675. DNA_ligase_A_N. 1 hit. [Graphical view]
SUPFAM	SSF50249. Nucleic_acid_OB. 1 hit. SSF117018. SSF117018. 1 hit.
TIGRFAMs	TIGR00574. dnl1. 1 hit.
PROSITE	PS00697. DNA_LIGASE_A1. 1 hit. PS50160. DNA_LIGASE_A3. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

D2RSK7_HALTV

Accession

Primary (citable) accession number: D2RSK7

Entry history

Integrated into UniProtKB/TrEMBL:	March 2, 2010
Last sequence update:	March 2, 2010
Last modified:	May 1, 2013
This is version 25 of the entry and version 1 of the sequence. [Complete history]

Entry status

Unreviewed (UniProtKB/TrEMBL)

Preferred order of sections

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Sequence annotation (Features)

Sites

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Enzyme and pathway databases

Family and domain databases

Entry information