Reviewed, UniProtKB/Swiss-Prot A8N936 (DNLI4_COPC7)

Names and origin

Protein names

Recommended name:
    DNA ligase 4
    EC=6.5.1.1
Alternative name(s):
    DNA ligase IV
    Polydeoxyribonucleotide synthase [ATP] 4

Gene names

Name:	LIG4
ORF Names:	CC1G_00911

Organism

Coprinopsis cinerea (strain Okayama-7 / 130 / FGSC 9003) (Inky cap fungus) (Hormographiella aspergillata)

Taxonomic identifier

240176 [NCBI]

Taxonomic lineage

Eukaryota › Fungi › Dikarya › Basidiomycota › Agaricomycotina › Homobasidiomycetes › Agaricomycetidae › Agaricales › Psathyrellaceae › Coprinopsis

Protein attributes

Sequence length	1025 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
Protein existence	Inferred from homology.

General annotation (Comments)

Function	Involved in ds DNA break repair. Has a role in non-homologous integration (NHI) pathways where it is required in the final step of non-homologus end-joining.
Catalytic activity	ATP + (deoxyribonucleotide)(n) + (deoxyribonucleotide)(m) = AMP + diphosphate + (deoxyribonucleotide)(n+m).
Cofactor	Magnesium By similarity.
Subcellular location	Nucleus By similarity.
Sequence similarities	Belongs to the ATP-dependent DNA ligase family. Contains 2 BRCT domains.
Sequence caution	The sequence EAU90527.1 differs from that shown. Reason: Erroneous gene model prediction.

Ontologies

Keywords
Biological process	DNA damage DNA recombination DNA repair DNA replication
Cellular component	Nucleus
Domain	Repeat
Ligand	ATP-binding Magnesium Metal-binding Nucleotide-binding
Molecular function	Ligase
Gene Ontology (GO)
Biological process	DNA recombination Inferred from electronic annotation. Source: UniProtKB-KW DNA repair Inferred from electronic annotation. Source: UniProtKB-KW DNA replication Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	nucleus Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	ATP binding Inferred from electronic annotation. Source: UniProtKB-KW DNA binding Inferred from electronic annotation. Source: InterPro DNA ligase (ATP) activity Inferred from electronic annotation. Source: EC magnesium 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 – 1025	1025	DNA ligase 4		PRO_0000333259
Regions
	Domain	667 – 763	97	BRCT 1
	Domain	915 – 1025	111	BRCT 2
Sites
	Active site	291	1	N6-AMP-lysine intermediate By similarity
	Metal binding	349	1	Magnesium 1 Potential
	Metal binding	447	1	Magnesium 2 Potential
	Binding site	289	1	ATP By similarity
	Binding site	296	1	ATP By similarity
	Binding site	311	1	ATP By similarity
	Binding site	452	1	ATP By similarity
	Binding site	463	1	ATP By similarity
	Binding site	469	1	ATP By similarity

Sequences

	Sequence		Length	Mass (Da)
	A8N936-1 [UniParc]. Last modified May 20, 2008. Version 2. Checksum: B216FFD40932868C	FASTA	1,025	116,801
	10 20 30 40 50 60 MMQPTPAPSS APGSPQRTQA EPEMETPSYP QPPQNVGTAP FSVLVKLFEK LATERKQERR 70 80 90 100 110 120 RKLLDAWFRH WRREKGFDLY PVLRLLLPQK DRDRAVYGLK EKNLAKTYIK LIPLGMRDPD 130 140 150 160 170 180 AIRLLNWKKP TERDKSSGDF PQVLCEVVSK RSSVIEGTLT IDELNEILDD IAKNMGKSDV 190 200 210 220 230 240 QSKILRRIYN NSTADEQRWI IRIILKDMNI SVKETTVFAV FHPDAQDLYN TCSDLKKVAW 250 260 270 280 290 300 ELWDPSRRLN AKDKEIQIFH AFAPMLCKRP TRKIEETVKA MGGSKFIIEE KLDGERMQLH 310 320 330 340 350 360 KRGNEYFYCS RKGKDYTYLY GKHIGAGSLT PFIDSAFDSR IDDIILDGEM LVWDPVSERN 370 380 390 400 410 420 LPFGTLKTAA LDRSKKENNP RPCFKVFDLL YLNGMSLLDK TVKFRKNNLR HCIKPIPGRI 430 440 450 460 470 480 EFVEEYQGET ANDIRKRMEQ VMENRGEGLV IKHPKAKYIL NGRNTDWIKV KPEYMDNMGE 490 500 510 520 530 540 TVDVLVVAGN YGSGKRGGGV STLICAVMDD RRPDSDDEPK YSSFVRIGTG LSFADYVWVR 550 560 570 580 590 600 SKPWKVWDPK NPPEFLQTAK KGQEDKGDVY LEPEDSFILK VKAAEITPSD QYHMGFTMRF 610 620 630 640 650 660 PRALAIRDDL SIADCMTATE VFESLKSERK RKMEDDAGIT TKKRKTTVKK VALLPEYSGP 670 680 690 700 710 720 NLKKVAVKTD IFNGMKFVVF SDPKSRTGEA DKKELMKTIH ANGGTCSQIV NKNSEAIVIY 730 740 750 760 770 780 GGSITPYDLK LVIDKGIHDV IKPSWITDSV TLGEPAPFKK KYFFHATEER KYADEYNEDD 790 800 810 820 830 840 GEEEGAVPSA DEQERDVKSG TVEPGSETED EDEEQAPEIK EEQDGELHEW LKVDDRKSPA 850 860 870 880 890 900 LPAHDEEDSV TEDDSDNADV ADEEEPDLDD WFQVKGETED EGAGALATAS RHRETTPDVD 910 920 930 940 950 960 GDVKMGESEE AMDYDPDVIF KHLCFYLDSP ANAQRHGMAT RPKYEAAITK SFEEVEKLIK 970 980 990 1000 1010 1020 DNGGKIVDLD EPKLTHVVLD KRDDSRRVEL MKRTSKPRRR HLVLSDYIEA CIDEGTLLDE EGESF

References

[1]

"Annotation of the Coprinopsis cinerea genome." Birren B.W., Lander E.S., Galagan J.E., Nusbaum C., Devon K., Ma L.-J., Jaffe D.B., Butler J., Alvarez P., Gnerre S., Grabherr M., Kleber M., Mauceli E.W., Brockman W., Rounsley S., Young S.K., LaButti K., Pushparaj V. , DeCaprio D., Crawford M., Koehrsen M., Engels R., Montgomery P., Pearson M., Howarth C., Larson L., Luoma S., White J., Kodira C.D., Zeng Q., Alvarado L., Yandava C., Oleary S., Dietrich F.S., Pukkila P.J. Submitted (JUL-2003) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].

Cross-references

Sequence databases
EMBLGenBankDDBJ	AACS01000060 Genomic DNA. Translation: EAU90527.1. Sequence problems.
RefSeq	XP_001831364.1.
3D structure databases
ModBase	Search...
Genome annotation databases
GeneID	6007836.
Family and domain databases
InterPro	IPR001357. BRCT. IPR000977. DNA_ligase. IPR012309. DNA_ligase_A_C. IPR012310. DNA_ligase_A_M. IPR012308. DNA_ligase_A_N. IPR016059. DNA_ligase_CS. IPR012340. NA-bd_OB-fold. [Graphical view]
Gene3D	G3DSA:2.40.50.140. OB_NA_bd_sub. 1 hit.
Pfam	PF00533. BRCT. 2 hits. PF04679. DNA_ligase_A_C. 1 hit. PF01068. DNA_ligase_A_M. 1 hit. PF04675. DNA_ligase_A_N. 1 hit. [Graphical view]
ProDom	PD000425. TF_Fork_head. 1 hit. [Graphical view] [Entries sharing at least one domain]
SMART	SM00292. BRCT. 2 hits. [Graphical view]
TIGRFAMs	TIGR00574. dnl1. 1 hit.
PROSITE	PS50172. BRCT. 2 hits. PS00697. DNA_LIGASE_A1. 1 hit. PS00333. DNA_LIGASE_A2. 1 hit. PS50160. DNA_LIGASE_A3. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

DNLI4_COPC7

Accession

Primary (citable) accession number: A8N936

Entry history

Integrated into UniProtKB/Swiss-Prot:	May 20, 2008
Last sequence update:	May 20, 2008
Last modified:	June 16, 2009
This is version 15 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

FPAP (Fungal Proteome Annotation Project)