DNA ligase 1 - Streptomyces coelicolor

Preferred order of sections

Names and origin

Protein names

Recommended name:
DNA ligase 1
EC=6.5.1.2

Alternative name(s):
Polydeoxyribonucleotide synthase [NAD+] 1

Gene names

Name:	ligA1
Ordered Locus Names:	SCO5494
ORF Names:	SC8D9.06

Organism

Streptomyces coelicolor

Taxonomic identifier

1902 [NCBI]

Taxonomic lineage

Bacteria › Actinobacteria › Actinobacteridae › Actinomycetales › Streptomycineae › Streptomycetaceae › Streptomyces

Protein attributes

Sequence length	735 AA.
Sequence status	Complete.
Protein existence	Inferred from homology

General annotation (Comments)

Function	DNA ligase that catalyzes the formation of phosphodiester linkages between 5'-phosphoryl and 3'-hydroxyl groups in double-stranded DNA using NAD as a coenzyme and as the energy source for the reaction. It is essential for DNA replication and repair of damaged DNA By similarity. HAMAP MF_01588
Catalytic activity	NAD⁺ + (deoxyribonucleotide)(n) + (deoxyribonucleotide)(m) = AMP + nicotinamide nucleotide + (deoxyribonucleotide)(n+m). HAMAP MF_01588
Cofactor	Magnesium or manganese By similarity. HAMAP MF_01588
Sequence similarities	Belongs to the NAD-dependent DNA ligase family. LigA subfamily. Contains 1 BRCT domain.

Ontologies

Keywords
Biological process	DNA damage DNA repair DNA replication
Ligand	Magnesium Manganese Metal-binding NAD Zinc
Molecular function	Ligase
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological process	DNA repair Inferred from electronic annotation. Source: UniProtKB-KW DNA replication Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	intracellular Inferred from electronic annotation. Source: InterPro
Molecular function	DNA ligase (NAD+) activity Inferred from electronic annotation. Source: EC 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 – 735

735

DNA ligase 1 HAMAP MF_01588

PRO_0000161767

Regions

Domain

643 – 732

90

BRCT

Nucleotide binding

48 – 52

5

NAD By similarity

Nucleotide binding

97 – 98

2

NAD By similarity

Sites

Active site

130

1

N6-AMP-lysine intermediate By similarity

Metal binding

423

1

Zinc By similarity

Metal binding

426

1

Zinc By similarity

Metal binding

442

1

Zinc By similarity

Metal binding

448

1

Zinc By similarity

Binding site

128

1

NAD By similarity

Binding site

151

1

NAD By similarity

Binding site

188

1

NAD By similarity

Binding site

305

1

NAD By similarity

Binding site

329

1

NAD By similarity

Sequences

Sequence

Length

Mass (Da)

Tools

Q9Z585 [UniParc].

Last modified May 1, 1999. Version 1.
Checksum: 39C4DE1C7CC55930
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FASTA

735

80,572

        10         20         30         40         50         60 
MAGDKQGDKQ AETTSVPAEA RERHAQLAEQ IEEHRFRYYV NDAPVVSDAE FDRLLRTLEE 

        70         80         90        100        110        120 
LEERHPELRT PESPTQKVAG AYATEFTAVQ HPTRMLSLDN TFNDDELAAW FERIARELGE 

       130        140        150        160        170        180 
QEYHFLCELK VDGLAVNLTY ERGRLVRAAT RGDGRTGEDI TPNVRTIAEI PDRLAGDKVP 

       190        200        210        220        230        240 
DLVEIRGEVY FPMEKFQELN ARLNEAGDKP FANARNAAAG SLRQKDPRVT ASRPLHMVVH 

       250        260        270        280        290        300 
GIGTLEGYSG LTRLSQAYDL LKAWGLPTSP HNRVVDGLDG VREFIAYYGE NRHSVAHEID 

       310        320        330        340        350        360 
GVVVKVDEIR LQGRLGSTAR APRWAIAYKY APEEVNTKLV DIKVGVGRTG RVTPYAQVEP 

       370        380        390        400        410        420 
VTVAGSEVEF ATLHNQEVVK AKGVLIGDTV VLRKAGDVIP EILGPVADLR DGSEREFVMP 

       430        440        450        460        470        480 
AECPECGTPL KAMKEGDIDL RCPNARACPA QLRERVAYLA GRECLDIEHF GGVVAAALTG 

       490        500        510        520        530        540 
PLEPSEPPLV DEGDLFDLTV EKLLPIKAYV LDPDSGLPKR DPKTGEEKIA TVFANKEGEP 

       550        560        570        580        590        600 
KKNTLALLQH IEEAKTRPLA RFINGLSIRY VGPVAAQALA REFRSIDRIE QATEEELAST 

       610        620        630        640        650        660 
DGVGGAIATA VKEWFAVDWH REIVRKWKAA GVPLEDRSTG EDEGPRPLEG LTVVVTGTLE 

       670        680        690        700        710        720 
NFTRDGAKEA LQSRGAKVTG SVSKKTSFVV VGDNPGSKYD KAMQLKVPVL NEDGFAVLLE 

       730 
QGPEAAADVA LSAEE

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References

[1]

"Complete genome sequence of the model actinomycete Streptomyces coelicolor A3(2)."
Bentley S.D., Chater K.F., Cerdeno-Tarraga A.-M., Challis G.L., Thomson N.R., James K.D., Harris D.E., Quail M.A., Kieser H., Harper D., Bateman A., Brown S., Chandra G., Chen C.W., Collins M., Cronin A., Fraser A., Goble A.

Hopwood D.A.
Nature 417:141-147(2002) [PubMed: 12000953] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: ATCC BAA-471 / A3(2) / M145.

+

Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AL939123 Genomic DNA. Translation: CAB37570.1.
PIR	T35810.
RefSeq	NP_629629.1. NC_003888.3.
3D structure databases
ProteinModelPortal	Q9Z585.
SMR	Q9Z585. Positions 15-333.
ModBase	Search...
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	1100934.
GenomeReviews	Gene locus SCO5494 in contig AL645882_GR.
KEGG	sco:SCO5494.
NMPDR	fig\|100226.1.peg.5446.
PATRIC	23740844. VBIStrCoe124346_5578.
Phylogenomic databases
HOGENOM	HBG620317.
OMA	ENVRTIR.
PhylomeDB	Q9Z585.
ProtClustDB	PRK07956.
Family and domain databases
HAMAP	MF_01588. DNA_ligase_A. [Tree]
InterPro	IPR001357. BRCT. IPR018239. DNA_ligase_AS. IPR004150. DNA_ligase_OB. IPR001679. DNAligase. IPR013839. DNAligase_adenylation. IPR013840. DNAligase_N. IPR012340. NA-bd_OB-fold. IPR016027. NA-bd_OB-fold-like. IPR010994. RuvA_2-like. IPR004149. Znf_DNAligase_C4. [Graphical view]
Gene3D	G3DSA:2.40.50.140. OB_NA_bd_sub. 1 hit.
KO	K01972.
Pfam	PF00533. BRCT. 1 hit. PF01653. DNA_ligase_aden. 1 hit. PF03120. DNA_ligase_OB. 1 hit. PF03119. DNA_ligase_ZBD. 1 hit. [Graphical view]
PIRSF	PIRSF001604. LigA. 1 hit.
SMART	SM00292. BRCT. 1 hit. SM00532. LIGANc. 1 hit. [Graphical view]
SUPFAM	SSF52113. BRCT. 1 hit. SSF50249. Nucleic_acid_OB. 1 hit. SSF47781. RuvA_2_like. 1 hit.
TIGRFAMs	TIGR00575. Dnlj. 1 hit.
PROSITE	PS50172. BRCT. 1 hit. PS01055. DNA_LIGASE_N1. 1 hit. PS01056. DNA_LIGASE_N2. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

DNLJ1_STRCO

Accession

Primary (citable) accession number: Q9Z585

Entry history

Integrated into UniProtKB/Swiss-Prot:	May 30, 2000
Last sequence update:	May 1, 1999
Last modified:	January 25, 2012
This is version 79 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

Preferred order of sections

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Sequence annotation (Features)

Molecule processing

Regions

Sites

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protocols and materials databases

Genome annotation databases

Phylogenomic databases

Family and domain databases

Entry information

Relevant documents