A1RY72 (DNLI2_THEPD) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
DNA ligase 2
EC=6.5.1.1

Alternative name(s):
Polydeoxyribonucleotide synthase [ATP] 2

Gene names

Name:	lig2
Ordered Locus Names:	Tpen_0750

Organism

Thermofilum pendens (strain Hrk 5) [Reference proteome] [HAMAP]

Taxonomic identifier

368408 [NCBI]

Taxonomic lineage

cellular organisms › Archaea › Crenarchaeota › Thermoprotei › Thermoproteales › Thermofilaceae › Thermofilum › Thermofilum pendens

Protein attributes

Sequence length	601 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
Cofactor	Divalent metal cations By similarity.
Sequence similarities	Belongs to the ATP-dependent DNA ligase family.

Ontologies

Keywords
Biological process	Cell cycle Cell division DNA damage DNA recombination DNA repair DNA replication
Ligand	ATP-binding Metal-binding Nucleotide-binding
Molecular function	Ligase
Technical term	Complete proteome Reference 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
Molecule processing
	Chain	1 – 601	601	DNA ligase 2 HAMAP-Rule MF_00407		PRO_0000365266
Sites
	Active site	265	1	N6-AMP-lysine intermediate By similarity
	Binding site	263	1	ATP By similarity
	Binding site	270	1	ATP By similarity
	Binding site	285	1	ATP By similarity
	Binding site	314	1	ATP By similarity
	Binding site	354	1	ATP By similarity
	Binding site	432	1	ATP By similarity
	Binding site	438	1	ATP By similarity

Sequences

	Sequence		Length	Mass (Da)
	A1RY72 [UniParc]. Last modified February 6, 2007. Version 1. Checksum: 8AA565878E7AF78B	FASTA	601	66,943
	10 20 30 40 50 60 MGAAGDLPYS VLADFYERIE STSSRLAMTD YLVALFKKTP PEVIDKVVYL TQGQLRPDYE 70 80 90 100 110 120 GVELGVAEKL ALRALAKASG RHLKDVEDLY KKTGDIGAVA EKLLTAPGGG LLEFFGTPVQ 130 140 150 160 170 180 KKELTVSQVY SALMKIAQAS GEGAQETKVN TLVALLQDAK PKEARYILRT VLGRLRLGIA 190 200 210 220 230 240 DMTILDALAA AFAGSKAARD VIERAYTKHP DLGYIAKLLA TKGLDAVASL KIEVGIPVLP 250 260 270 280 290 300 MLAERLSDPA EILEKLGGKC LAEYKYDGER VQAHKSGDKV LLFSRRLENI THHYPDVVEY 310 320 330 340 350 360 VKRLKVREAI VEGEIVAYNP DTGEMLPFQE LMHRRRKYDV EKAMKEYPVR VYLFDVIYMD 370 380 390 400 410 420 GEELIEKPLD QRRLILEKIV PEGDEDILLS TAKVVGDAKD LLHFFEQAIS EGCEGVMCKS 430 440 450 460 470 480 IGPGSIYQMG ARGWLWIKFK RDYRMEMTDT VDLVVVGGFH GRGKRAGTYG ALLMAAYDPE 490 500 510 520 530 540 TDTFKTVCKV GTGFTDEDLA KLPELLDPYK IPHRHPRVFS KIEADVWFVP AVVLEIIGAE 550 560 570 580 590 600 ITLSPLHTCA LNKLEEGAGL AIRFPRFTGR YRFDKKPEQA TTESELIEMY KSQKKTALQQ S

References

[1]

"Genome sequence of Thermofilum pendens reveals an exceptional loss of biosynthetic pathways without genome reduction." Anderson I., Rodriguez J., Susanti D., Porat I., Reich C., Ulrich L.E., Elkins J.G., Mavromatis K., Lykidis A., Kim E., Thompson L.S., Nolan M., Land M., Copeland A., Lapidus A., Lucas S., Detter C., Zhulin I.B. , Olsen G.J., Whitman W., Mukhopadhyay B., Bristow J., Kyrpides N. J. Bacteriol. 190:2957-2965(2008) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: Hrk 5.

Cross-references

Sequence databases
EMBL GenBank DDBJ	CP000505 Genomic DNA. Translation: ABL78152.1.
RefSeq	YP_920155.1. NC_008698.1.
3D structure databases
ProteinModelPortal	A1RY72.
SMR	A1RY72. Positions 7-595.
ModBase	Search...
Protein-protein interaction databases
STRING	368408.Tpen_0750.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	ABL78152; ABL78152; Tpen_0750.
GeneID	4600401.
KEGG	tpe:Tpen_0750.
Phylogenomic databases
eggNOG	COG1793.
HOGENOM	HOG000036008.
KO	K10747.
OMA	AQVACLY.
ProtClustDB	PRK01109.
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. PS00333. DNA_LIGASE_A2. False negative. PS50160. DNA_LIGASE_A3. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

DNLI2_THEPD

Accession

Primary (citable) accession number: A1RY72

Entry history

Integrated into UniProtKB/Swiss-Prot:	March 3, 2009
Last sequence update:	February 6, 2007
Last modified:	May 1, 2013
This is version 54 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program