DNA ligase 4 - Cryptococcus neoformans var. neoformans serotype D (strain B-3501A)

Preferred order of sections

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
Ordered Locus Names:	CNBK2570

Organism

Cryptococcus neoformans var. neoformans serotype D (strain B-3501A) (Filobasidiella neoformans) [Complete proteome]

Taxonomic identifier

283643 [NCBI]

Taxonomic lineage

Eukaryota › Fungi › Dikarya › Basidiomycota › Agaricomycotina › Tremellomycetes › Tremellales › Tremellaceae › Filobasidiella › Filobasidiella/Cryptococcus neoformans species complex ›

Protein attributes

Sequence length	1065 AA.
Sequence status	Complete.
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 By similarity.
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 EAL18239.1 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
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: 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 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 – 1065

1065

DNA ligase 4

PRO_0000410058

Regions

Domain

696 – 775

80

BRCT 1

Domain

954 – 1064

111

BRCT 2

Sites

Active site

297

1

N6-AMP-lysine intermediate By similarity

Metal binding

357

1

Magnesium 1 Potential

Metal binding

452

1

Magnesium 2 Potential

Binding site

295

1

ATP By similarity

Binding site

302

1

ATP By similarity

Binding site

319

1

ATP By similarity

Binding site

457

1

ATP By similarity

Binding site

468

1

ATP By similarity

Binding site

474

1

ATP By similarity

Sequences

Sequence

Length

Mass (Da)

Tools

P0CN09 [UniParc].

Last modified June 28, 2011. Version 1.
Checksum: 7E0AC640AB2D6236
Show »

FASTA

1,065

122,466

        10         20         30         40         50         60 
MAVHAPYNHA PPPTQEINGQ KPTLAPAITL ERPADCINRG QYPAFYIICG YLNRLRADAP 

        70         80         90        100        110        120 
HKKYELLTRI FGNWREKVGP DLYPLIRLLL PDKDRERPVY NLKESMLARC YIDILSLEKH 

       130        140        150        160        170        180 
SEAAQRLIKW KQPAGNSPNP TGDFAKVCYN EIKARSTVEE GQLSVEAVNM LLDKLAVGKM 

       190        200        210        220        230        240 
KQKDYVPILK AINMQCTAEE QEWIIRIILK DLHISIRERG VLSAFHPDAI DLYNVCSDLK 

       250        260        270        280        290        300 
RVCWTLYDPG FRLNKNETHL ELFHSFLPQL CGRMNDASLE NIAKAIGAPK EFIMEEKLDG 

       310        320        330        340        350        360 
ERIQLHMRGN GAQWFYCSRK AKDYTYLYGA HPGEGSLTRY IATAFQDNVR NVILDGEMMV 

       370        380        390        400        410        420 
WDPVVERYLA FGTLKSAALA FSLVKVFDIL FLNDHCLSRK RLSERKRLLR SGKIFKNIEN 

       430        440        450        460        470        480 
YKGRLEFVDE KRGKNAKDIR EYLERVVETK GEGLVVKKTD VIYQTNSRGY DWIKVKPEYS 

       490        500        510        520        530        540 
DQMGENLEVL VLGGWWGKGG RSGKISRLLC GLREQAFDDG TLQDFLFNRF WNELLGLRVD 

       550        560        570        580        590        600 
FVSHLMHLRS MRCSPTHLSQ CRNKHKKHWR PFDRSNPPPF MKLGPVGLDD KPDVYIEPEN 

       610        620        630        640        650        660 
SFVIEVKASE IVPAGYGIGF TLRFPRCKYI YYDKNSRDYA LDDECLWTVG QGFFYKTRKL 

       670        680        690        700        710        720 
IKRTDFMDLF SRPKRSYDDS QGPGNFRGQK LSDADVETSI FSDMTFSDLE ALVHKHGADF 

       730        740        750        760        770        780 
TQAQLSDLSA IVISPDQKNP LVRAQIRHGV NVIKPEWVFE SIARRTALPF LKEFLVFASE 

       790        800        810        820        830        840 
EAQDGRYYNK TLEQYDKVSF VRDRTGGALV DEDGDADVED EIMDGEDKDE IDVEESRESK 

       850        860        870        880        890        900 
NRRMAREDLK EKESNRTLEQ KKLQEAWGLR SRASPGDSDS EPEEEMSLKE ESDTDSERSR 

       910        920        930        940        950        960 
GLRAIYEDEE DGENDSHESD VGVNGDDYRA VPLSGLNDKE EGLMGESPEA MHYDEDRIFY 

       970        980        990       1000       1010       1020 
HLAFYIDTAK NAAVNGLESS SPSFDTQERL VKVEKLLIEN GGRVARSISD PKLTHIIMDD 

      1030       1040       1050       1060 
EDSRRYVELT RKTAMPKRKH IVTPKWVEDC VDEETLLDED LYKPK

« Hide

References

[1]

"The genome of the basidiomycetous yeast and human pathogen Cryptococcus neoformans."
Loftus B.J., Fung E., Roncaglia P., Rowley D., Amedeo P., Bruno D., Vamathevan J., Miranda M., Anderson I.J., Fraser J.A., Allen J.E., Bosdet I.E., Brent M.R., Chiu R., Doering T.L., Donlin M.J., D'Souza C.A., Fox D.S.

Hyman R.W.
Science 307:1321-1324(2005) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: B-3501A.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AAEY01000052 Genomic DNA. Translation: EAL18239.1. Sequence problems.
RefSeq	XP_772886.1. XM_767793.1.
3D structure databases
ProteinModelPortal	P0CN09.
ModBase	Search...
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	4938955.
KEGG	cnb:CNBK2570.
Phylogenomic databases
KO	K10777.
Family and domain databases
Gene3D	2.40.50.140. 1 hit.
InterPro	IPR001357. BRCT_dom. 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	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]
SMART	SM00292. BRCT. 2 hits. [Graphical view]
SUPFAM	SSF52113. BRCT. 2 hits. SSF50249. Nucleic_acid_OB. 2 hits.
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_CRYNB

Accession

Primary (citable) accession number: P0CN09
Secondary accession number(s): Q55JS6, Q5K9S5

Entry history

Integrated into UniProtKB/Swiss-Prot:	June 28, 2011
Last sequence update:	June 28, 2011
Last modified:	March 6, 2013
This is version 11 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal 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