P31244 (RAD16_YEAST) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
DNA repair protein RAD16
EC=3.6.4.-

Alternative name(s):
ATP-dependent helicase RAD16

Gene names

Name:	RAD16
Ordered Locus Names:	YBR114W
ORF Names:	YBR0909

Organism

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)

Taxonomic identifier

559292 [NCBI]

Taxonomic lineage

Eukaryota › Fungi › Dikarya › Ascomycota › Saccharomycotina › Saccharomycetes › Saccharomycetales › Saccharomycetaceae › Saccharomyces

Protein attributes

Sequence length	790 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Component of the global genome repair (GGR) complex which promotes global genome nucleotide excision repair (GG-NER) which removes DNA damage from nontranscribing DNA.Involved in differential repair of DNA after UV damage. Will repair preferentially the MAT-alpha locus compaired with the HML-alpha locus. Ref.6 Ref.9
Subunit structure	Component of the global genome repair (GGR) complex composed of at least ABF1, RAD7 and RAD16.
Subcellular location	Nucleus.
Miscellaneous	Present with 358 molecules/cell in log phase SD medium. Ref.7
Sequence similarities	Belongs to the SNF2/RAD54 helicase family. Contains 1 helicase ATP-binding domain. Contains 1 helicase C-terminal domain. Contains 1 RING-type zinc finger.

Ontologies

Keywords
Biological process	DNA damage DNA repair
Cellular component	Nucleus
Domain	Zinc-finger
Ligand	ATP-binding DNA-binding Metal-binding Nucleotide-binding Zinc
Molecular function	Helicase Hydrolase
PTM	Phosphoprotein
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological process	nucleotide-excision repair, DNA damage recognition Inferred from direct assay. Source: SGD protein ubiquitination involved in ubiquitin-dependent protein catabolic process Inferred from mutant phenotype. Source: SGD
Cellular component	Cul3-RING ubiquitin ligase complex Inferred from direct assay. Source: SGD nucleotide-excision repair factor 4 complex Inferred from direct assay. Source: SGD
Molecular function	ATP binding Inferred from electronic annotation. Source: UniProtKB-KW DNA binding Inferred from electronic annotation. Source: UniProtKB-KW helicase activity Inferred from electronic annotation. Source: UniProtKB-KW protein binding Inferred from physical interaction. Source: IntAct zinc ion binding Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
RAD7	P06779	4	EBI-14645,EBI-14780

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 790	790	DNA repair protein RAD16		PRO_0000056132
Regions
	Domain	197 – 371	175	Helicase ATP-binding
	Domain	623 – 777	155	Helicase C-terminal
	Nucleotide binding	210 – 217	8	ATP Potential
	Zinc finger	537 – 581	45	RING-type
	Motif	322 – 325	4	DEAH box
	Compositional bias	8 – 13	6	Poly-Arg
	Compositional bias	65 – 70	6	Poly-Asp
	Compositional bias	125 – 129	5	Poly-Lys
Amino acid modifications
	Modified residue	25	1	Phosphoserine Ref.8 Ref.10 Ref.11 Ref.12
	Modified residue	49	1	Phosphoserine Ref.11 Ref.12
	Modified residue	109	1	Phosphoserine Ref.10 Ref.12

Sequences

	Sequence		Length	Mass (Da)
	P31244 [UniParc]. Last modified July 1, 1993. Version 1. Checksum: 954317B5E85C6306	FASTA	790	91,430
	10 20 30 40 50 60 MQEGGFIRRR RTRSTKKSVN YNELSDDDTA VKNSKTLQLK GNSENVNDSQ DEEYRDDATL 70 80 90 100 110 120 VKSPDDDDKD FIIDLTGSDK ERTATDENTH AIKNDNDEII EIKEERDVSD DDEPLTKKRK 130 140 150 160 170 180 TTARKKKKKT STKKKSPKVT PYERNTLRLY EHHPELRNVF TDLKNAPPYV PQRSKQPDGM 190 200 210 220 230 240 TIKLLPFQLE GLHWLISQEE SIYAGGVLAD EMGMGKTIQT IALLMNDLTK SPSLVVAPTV 250 260 270 280 290 300 ALMQWKNEIE QHTKGQLKIY IYHGASRTTD IKDLQGYDVV LTTYAVLESV FRKQNYGFRR 310 320 330 340 350 360 KNGLFKQPSV LHNIDFYRVI LDEAHNIKDR QSNTARAVNN LKTQKRWCLS GTPLQNRIGE 370 380 390 400 410 420 MYSLIRFLNI NPFTKYFCTK CDCASKDWKF TDRMHCDHCS HVIMQHTNFF NHFMLKNIQK 430 440 450 460 470 480 FGVEGPGLES FNNIQTLLKN IMLRRTKVER ADDLGLPPRI VTVRRDFFNE EEKDLYRSLY 490 500 510 520 530 540 TDSKRKYNSF VEEGVVLNNY ANIFTLITRM RQLADHPDLV LKRLNNFPGD DIGVVICQLC 550 560 570 580 590 600 NDEAEEPIES KCHHKFCRLC IKEYVESFME NNNKLTCPVC HIGLSIDLSQ PALEVDLDSF 610 620 630 640 650 660 KKQSIVSRLN MSGKWQSSTK IEALVEELYK LRSNKRTIKS IVFSQFTSML DLVEWRLKRA 670 680 690 700 710 720 GFQTVKLQGS MSPTQRDETI KYFMNNIQCE VFLVSLKAGG VALNLCEASQ VFILDPWWNP 730 740 750 760 770 780 SVEWQSGDRV HRIGQYRPVK ITRFCIEDSI EARIIELQEK KANMIHATIN QDEAAISRLT 790 PADLQFLFNN

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Molecular cloning of RAD16, a gene involved in differential repair in Saccharomyces cerevisiae." Bang D.D., Verhage R., Goosen N., Brouwer J., de Putte P. Nucleic Acids Res. 20:3925-3931(1992) [PubMed: 1508678] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[2]	"Molecular analysis of yeast chromosome II between CMD1 and LYS2: the excision repair gene RAD16 located in this region belongs to a novel group of double-finger proteins." Mannhaupt G., Stucka R., Ehnle S., Vetter I., Feldmann H. Yeast 8:397-408(1992) [PubMed: 1626431] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: ATCC 204508 / S288c.
[3]	"Complete DNA sequence of yeast chromosome II." Feldmann H., Aigle M., Aljinovic G., Andre B., Baclet M.C., Barthe C., Baur A., Becam A.-M., Biteau N., Boles E., Brandt T., Brendel M., Brueckner M., Bussereau F., Christiansen C., Contreras R., Crouzet M., Cziepluch C. , Demolis N., Delaveau T., Doignon F., Domdey H., Duesterhus S., Dubois E., Dujon B., El Bakkoury M., Entian K.-D., Feuermann M., Fiers W., Fobo G.M., Fritz C., Gassenhuber J., Glansdorff N., Goffeau A., Grivell L.A., de Haan M., Hein C., Herbert C.J., Hollenberg C.P., Holmstroem K., Jacq C., Jacquet M., Jauniaux J.-C., Jonniaux J.-L., Kallesoee T., Kiesau P., Kirchrath L., Koetter P., Korol S., Liebl S., Logghe M., Lohan A.J.E., Louis E.J., Li Z.Y., Maat M.J., Mallet L., Mannhaupt G., Messenguy F., Miosga T., Molemans F., Mueller S., Nasr F., Obermaier B., Perea J., Pierard A., Piravandi E., Pohl F.M., Pohl T.M., Potier S., Proft M., Purnelle B., Ramezani Rad M., Rieger M., Rose M., Schaaff-Gerstenschlaeger I., Scherens B., Schwarzlose C., Skala J., Slonimski P.P., Smits P.H.M., Souciet J.-L., Steensma H.Y., Stucka R., Urrestarazu L.A., van der Aart Q.J.M., Van Dyck L., Vassarotti A., Vetter I., Vierendeels F., Vissers S., Wagner G., de Wergifosse P., Wolfe K.H., Zagulski M., Zimmermann F.K., Mewes H.-W., Kleine K. EMBO J. 13:5795-5809(1994) [PubMed: 7813418] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 204508 / S288c.
[4]	Saccharomyces Genome Database Submitted (DEC-2009) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: ATCC 204508 / S288c.
[5]	"Identification of RAD16, a yeast excision repair gene homologous to the recombinational repair gene RAD54 and to the SNF2 gene involved in transcriptional activation." Schild D., Glassner B.J., Mortimer R.K., Carlson M., Laurent B.C. Yeast 8:385-395(1992) [PubMed: 1626430] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 399-790.
[6]	"Yeast autonomously replicating sequence binding factor is involved in nucleotide excision repair." Reed S.H., Akiyama M., Stillman B., Friedberg E.C. Genes Dev. 13:3052-3058(1999) [PubMed: 10601031] [Abstract] Cited for: IDENTIFICATION IN THE GGR COMPLEX, FUNCTION.
[7]	"Global analysis of protein expression in yeast." Ghaemmaghami S., Huh W.-K., Bower K., Howson R.W., Belle A., Dephoure N., O'Shea E.K., Weissman J.S. Nature 425:737-741(2003) [PubMed: 14562106] [Abstract] Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
[8]	"A proteomics approach to understanding protein ubiquitination." Peng J., Schwartz D., Elias J.E., Thoreen C.C., Cheng D., Marsischky G., Roelofs J., Finley D., Gygi S.P. Nat. Biotechnol. 21:921-926(2003) [PubMed: 12872131] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-25, MASS SPECTROMETRY. Strain: SUB592.
[9]	"The yeast Rad7/Rad16/Abf1 complex generates superhelical torsion in DNA that is required for nucleotide excision repair." Yu S., Owen-Hughes T., Friedberg E.C., Waters R., Reed S.H. DNA Repair 3:277-287(2004) [PubMed: 15177043] [Abstract] Cited for: FUNCTION OF THE GGR COMPLEX.
[10]	"Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae." Li X., Gerber S.A., Rudner A.D., Beausoleil S.A., Haas W., Villen J., Elias J.E., Gygi S.P. J. Proteome Res. 6:1190-1197(2007) [PubMed: 17330950] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-25 AND SER-109, MASS SPECTROMETRY. Strain: ADR376.
[11]	"Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases." Smolka M.B., Albuquerque C.P., Chen S.H., Zhou H. Proc. Natl. Acad. Sci. U.S.A. 104:10364-10369(2007) [PubMed: 17563356] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-25 AND SER-49, MASS SPECTROMETRY.
[12]	"A multidimensional chromatography technology for in-depth phosphoproteome analysis." Albuquerque C.P., Smolka M.B., Payne S.H., Bafna V., Eng J., Zhou H. Mol. Cell. Proteomics 7:1389-1396(2008) [PubMed: 18407956] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-25; SER-49 AND SER-109, MASS SPECTROMETRY.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	M86929 Genomic DNA. Translation: AAA34931.1. X66247 Genomic DNA. Translation: CAA46974.1. X78993 Genomic DNA. Translation: CAA55616.1. Z35983 Genomic DNA. Translation: CAA85071.1. M83553 Genomic DNA. Translation: AAA34930.1. BK006936 Genomic DNA. Translation: DAA07233.1.
PIR	S25366.
RefSeq	NP_009672.1. NM_001178462.1.
3D structure databases
ProteinModelPortal	P31244.
SMR	P31244. Positions 171-789.
ModBase	Search...
Protein-protein interaction databases
DIP	DIP-697N.
IntAct	P31244. 36 interactions.
MINT	MINT-616306.
STRING	P31244.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblFungi	YBR114W; YBR114W; YBR114W.
GeneID	852411.
KEGG	sce:YBR114W.
NMPDR	fig|4932.3.peg.373.
Organism-specific databases
CYGD	YBR114w.
SGD	S000000318. RAD16.
Phylogenomic databases
eggNOG	fuNOG05094.
GeneTree	EFGT00050000000148.
HOGENOM	HBG522881.
OMA	PIESKCH.
OrthoDB	EOG4Q5CXS.
Gene expression databases
ArrayExpress	P31244.
Genevestigator	P31244.
GermOnline	YBR114W. Saccharomyces cerevisiae.
Family and domain databases
InterPro	IPR014001. DEAD-like_helicase. IPR001650. Helicase_C. IPR000330. SNF2_N. IPR018957. Znf_C3HC4_RING-type. IPR001841. Znf_RING. IPR013083. Znf_RING/FYVE/PHD. IPR017907. Znf_RING_CS. [Graphical view]
Gene3D	G3DSA:3.30.40.10. Znf_RING/FYVE/PHD. 1 hit.
KO	K15083.
Pfam	PF00271. Helicase_C. 1 hit. PF00176. SNF2_N. 1 hit. PF00097. zf-C3HC4. 1 hit. [Graphical view]
SMART	SM00487. DEXDc. 1 hit. SM00490. HELICc. 1 hit. SM00184. RING. 1 hit. [Graphical view]
PROSITE	PS00690. DEAH_ATP_HELICASE. False negative. PS51192. HELICASE_ATP_BIND_1. 1 hit. PS51194. HELICASE_CTER. 1 hit. PS00518. ZF_RING_1. 1 hit. PS50089. ZF_RING_2. 1 hit. [Graphical view]
ProtoNet	Search...
Other
NextBio	971261.

Entry information

Entry name

RAD16_YEAST

Accession

Primary (citable) accession number: P31244
Secondary accession number(s): D6VQB3

Entry history

Integrated into UniProtKB/Swiss-Prot:	July 1, 1993
Last sequence update:	July 1, 1993
Last modified:	January 25, 2012
This is version 115 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program