Protein Overview: RAD16

General Information:
Name(s) found:	RAD16 / YBR114W [SGD]
Description(s) found: SHOW ONLY BEST	gi\|6319590\|ref\|NP_009672.1\| Protein that recognizes and binds damaged DNA in an ATP-dependent manner (with Rad7p) during nucleotide excision repair; subunit of Nucleotide Excision Repair Factor 4 (NEF4) and the Elongin-Cullin-Socs (ECS) ligase complex; Ra [NCBI NR] gi\|536453\|emb\|CAA85071.1\| RAD16 [Saccharomyces cerevisiae] [NCBI NR] gi\|487900\|gb\|AAA34931.1\| RAD16 [Saccharomyces cerevisiae] [NCBI NR] gi\|476069\|emb\|CAA55616.1\| UV damage repair protein [Saccharomyces cerevisiae] [NCBI NR] gi\|400920\|sp\|P31244.1\|RAD16_YEAST RecName: Full=DNA repair protein RAD16; AltName: Full=ATP-dependent helicase RAD16 [NCBI NR] gi\|3551\|emb\|CAA46974.1\| excision repair protein [Saccharomyces cerevisiae] [NCBI NR] pir\|\|S25366 DNA repair protein RAD16 - yeast (Saccharomyces cerevisiae) [NCBI NR] DNA repair protein RAD16 OS=Saccharomyces cerevisiae GN=RAD16 PE=1 SV=1 [Swiss-Prot] (P31244) DNA repair protein RAD16 [Swiss-Prot] RAD16 Nucleotide excision repair protein [mips] Protein that recognizes and binds damaged DNA in an ATP-dependent manner (with Rad7p) during nucleotide excision repair; subunit of Nucleotide Excision Repair Factor 4 (NEF4) and the Elongin-Cullin-Socs (ECS) ligase complex [SGD] RAD16, Chr II from 467206-469578 [yeast_orfs2] Chr II from 467206-469578 [yeastorf3.fasta] Chr II from 467205-469577 [yeastorf4.fasta] Chr II from 467203-469575 [yeastorf5.fasta] RAD16 SGDID:S0000318, Chr II from 467204-469576, Verified ORF [yeastflysequest.fasta] RAD16 SGDID:S0000318, Chr II from 467242-469614, Verified ORF [10112005cervSGD.fasta] Protein that recognizes and binds damaged DNA in an ATP-dependent manner (with Rad7p) during nucleotide excision repair; subunit of Nucleotide Excision Repair Factor 4 (NEF4); member of the SWI/SNF family [Saccharomyces cerevisiae]gi\|3551\|emb\|CAA46974.1\| [nrdb_11152004_Chlamydomonas] RAD16 SGDID:S000000318, Chr II from 467242-469614, Verified ORF, "Protein that recognizes and binds damaged DNA in an ATP-dependent manner (with Rad7p) during nucleotide excision repair; subunit of Nucleotide Excision Repair Factor 4 (NEF4); member of the [SGD_S-cerevisiae_na_12-16-2005_con_reversed.fasta] RAD16 SGDID:S000000318, Chr II from 467242-469614, Verified ORF, "Protein that recognizes and binds damaged DNA in an ATP-dependent manner (with Rad7p) during nucleotide excision repair; subunit of Nucleotide Excision Repair Factor 4 (NEF4) and the Elongi [SGD_S-cerevisiae_na_08-19-2008_con_reversed.fasta] UV damage repair protein [Saccharomyces cerevisiae] [nr-271106-contam.fasta] excision repair protein [Saccharomyces cerevisiae] [nr-271106-contam.fasta] DNA repair protein RAD16 (ATP-dependent helicase RAD16) [nr-271106-contam.fasta] RAD16 [Saccharomyces cerevisiae] [nr-271106-contam.fasta] RAD16 [nr-271106-contam.fasta] Protein that recognizes and binds damaged DNA in an ATP-dependent manner (with Rad7p) during nucleotide excision repair; subunit of Nucleotide Excision Repair Factor 4 (NEF4); member of the SWI/SNF family; Rad16p [Saccharomyces cerevisiae] [nr-271106-contam.fasta] RAD16 SGDID:S000000318, Chr II from 467242-469614, Verified ORF, "Protein that recognizes and binds damaged DNA in an ATP-dependent manner (with Rad7p) during nucleotide excision repair; subunit of Nucleotide Excision Repair Factor 4 (NEF4) and the Elongin-Cullin-Socs (ECS) ligase complex" [yeast-bovrabprots.fasta] RAD16 SGDID:S000000318, Chr II from 467242-469614, Verified ORF, "Protein that recognizes and binds damaged DNA in an ATP-dependent manner (with Rad7p) during nucleotide excision repair; subunit of Nucleotide Excision Repair Factor 4 (NEF4); member of the SWI/SNF family" [yeast-contam_custom.fasta] [chemostatdb.fasta] DNA repair protein RAD16 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RAD16 PE=1 SV=1 [UniProt_S_cerevisiae_20120516_05-16-2012_reversed.fasta] RAD16 SGDID:S000000318, Chr II from 467248-469620, Genome Release 64-1-1, Verified ORF, "Protein that recognizes and binds damaged DNA in an ATP-dependent manner (with Rad7p) during nucleotide excision repair; subunit of Nucleotide Excision Repair Factor 4 (NEF4) and the Elongin-Cullin-Socs (ECS) ligase complex" [yeast-030211-contam.fasta] RAD16 SGDID:S000000318, Chr II from 467248-469620, Genome Release 64-2-1, Verified ORF, "Nucleotide excision repair (NER) protein; binds damaged DNA during NER; binds DNA in an ATP-dependent manner (with Rad7p) during NER; required for NER of non-transcribed chromatin; subunit of Nucleotide Excision Repair Factor 4 (NEF4) and the Elongin-Cullin-Socs (ECS) ligase complex" [20141208_orf_trans.fasta] YBR114W SGDID:S000000318, Chr II from 467248-469620, Genome Release 64-1-1, Verified ORF, "Protein that recognizes and binds damaged DNA in an ATP-dependent manner (with Rad7p) during nucleotide excision repair; subunit of Nucleotide Excision Repair Factor 4 (NEF4) and the Elongin-Cullin-Socs (ECS) ligase complex" [2016-01-SGD_Yeast_Contam_Riffle_20140507-Ska-Hec-110-tubulin.fasta]
Organism:	Saccharomyces cerevisiae
Length:	790 amino acids
Gene Ontology:
Cellular Component:	repairosome [IDA] nucleotide-excision repair factor 4 complex [IDA]
Biological Process:	nucleotide-excision repair, DNA damage recognition [IDA][IMP]
Molecular Function:	DNA-dependent ATPase activity [IDA] damaged DNA binding [IDA]

Sequence:

Sequence:
[PDR BLAST]
[ProtParam]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MQEGGFIRRR RTRSTKKSVN YNELSDDDTA VKNSKTLQLK GNSENVNDSQ DEEYRDDATL  60
   61 VKSPDDDDKD FIIDLTGSDK ERTATDENTH AIKNDNDEII EIKEERDVSD DDEPLTKKRK 120
  121 TTARKKKKKT STKKKSPKVT PYERNTLRLY EHHPELRNVF TDLKNAPPYV PQRSKQPDGM 180
  181 TIKLLPFQLE GLHWLISQEE SIYAGGVLAD EMGMGKTIQT IALLMNDLTK SPSLVVAPTV 240
  241 ALMQWKNEIE QHTKGQLKIY IYHGASRTTD IKDLQGYDVV LTTYAVLESV FRKQNYGFRR 300
  301 KNGLFKQPSV LHNIDFYRVI LDEAHNIKDR QSNTARAVNN LKTQKRWCLS GTPLQNRIGE 360
  361 MYSLIRFLNI NPFTKYFCTK CDCASKDWKF TDRMHCDHCS HVIMQHTNFF NHFMLKNIQK 420
  421 FGVEGPGLES FNNIQTLLKN IMLRRTKVER ADDLGLPPRI VTVRRDFFNE EEKDLYRSLY 480
  481 TDSKRKYNSF VEEGVVLNNY ANIFTLITRM RQLADHPDLV LKRLNNFPGD DIGVVICQLC 540
  541 NDEAEEPIES KCHHKFCRLC IKEYVESFME NNNKLTCPVC HIGLSIDLSQ PALEVDLDSF 600
  601 KKQSIVSRLN MSGKWQSSTK IEALVEELYK LRSNKRTIKS IVFSQFTSML DLVEWRLKRA 660
  661 GFQTVKLQGS MSPTQRDETI KYFMNNIQCE VFLVSLKAGG VALNLCEASQ VFILDPWWNP 720
  721 SVEWQSGDRV HRIGQYRPVK ITRFCIEDSI EARIIELQEK KANMIHATIN QDEAAISRLT 780
  781 PADLQFLFNN

Protein Complex Data

	PUBLICATION	TOPOLOGY	COCOMPLEXED PROTEINS
View Details	(MIPS) Mewes HW, et al. (2004)		RAD16 RAD7
View Details	Gavin AC, et al. (2002)		ADH1 CMR1 DNA2 HDA1 HDA2 HDA3 HSC82 KAP95 LCD1 MEC1 MGM101 MIR1 MLH1 MPH1 MSH2 MSH3 MSH6 OLA1 PDC1 PEP4 PGK1 PMS1 PRO2 RAD16 RAD52 RFA1 RFA2 RFA3 RIM1 RNH1 RSC8 RVB2 SGS1 SHS1 TDH3 TIF1, TIF2 TOP3 VAS1 VMA4 VPS1 WRS1 YHR122W YMR315W
View Details	Ho Y, et al. (2002)		CCE1 CTF4 GND1 HHF1, HHF2 HTB2 HTZ1 PDX1 RAD1 RAD14 RAD16 RAD4 RAD7 SHP1 TMA29 TSA2
View Details	Qiu et al. (2008)		ABF1 ELC1 RAD14 RAD16 RAD2 RAD23 RAD4 RAD7

Mass Spectrometry Data

The following runs contain data for this protein:

	BAIT	COMMENTS	PUBLICATION
View Run	RPA135	No Comments	Schneider, DA, et al. (2006)
View Run	ZDS1	Sample 3 - cpn + atp, from june 2005	McCusker D, et al (2007)
View Run	MLP2	#12 Mitotic Prep1-TiO2 Flowthrough	Keck JM, et al. (2011)

Yeast Two-Hybrid Data

The following interactions contain this protein:

SHOWING SINGLE HITS. [ Hide Single Hits ]

[View our yeast two-hybrid interpretation guidelines.]

No yeast two-hybrid interactions found for this protein.

[What does the above image mean?]
[View Top Sequence Alignments] [Show Ginzu Version Information]

Domains predicted:

#		Region(s)	Method	Confidence	Match Description
1	View Details	[1..82]	deduced	N/A	No confident structure predictions are available.
2	View Details	[83..133]	PSI-BLAST	2.39794	RecG, N-terminal domain; RecG "wedge" domain; RecG helicase domain
3	View Details	[134..368]	PSI-BLAST	2.39794	RecG, N-terminal domain; RecG "wedge" domain; RecG helicase domain
4	View Details	[369..528]	deduced	N/A	No confident structure predictions are available.
5	View Details	[529..790]	PSI-BLAST	13.522879	Putative DEAD box RNA helicase

Functions predicted (by domain):

Gene Ontology predictions

No functions predicted.

Term	Confidence	Notes
ubiquitin-protein ligase activity	5.98960927712678	bayes_pls_golite062009
small conjugating protein ligase activity	5.74178173377247	bayes_pls_golite062009
acid-amino acid ligase activity	5.13930231819025	bayes_pls_golite062009
ligase activity, forming carbon-nitrogen bonds	5.02047466767105	bayes_pls_golite062009
deoxyribonuclease activity	2.72222787956584	bayes_pls_golite062009
endodeoxyribonuclease activity	2.60873257753475	bayes_pls_golite062009
hydrolase activity	2.55157966585974	bayes_pls_golite062009
binding	2.4974940028864	bayes_pls_golite062009
nucleoside-triphosphatase activity	2.16381244011837	bayes_pls_golite062009
pyrophosphatase activity	2.13284212711072	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides	2.11265775498161	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	2.11046854230259	bayes_pls_golite062009
endonuclease activity	1.96689197136388	bayes_pls_golite062009
helicase activity	1.70242731830224	bayes_pls_golite062009
ATPase activity	1.53315090215319	bayes_pls_golite062009
ligase activity	1.31241138156276	bayes_pls_golite062009
purine ribonucleotide binding	1.2935968641033	bayes_pls_golite062009
ribonucleotide binding	1.2935353851804	bayes_pls_golite062009
purine nucleotide binding	1.29138695385133	bayes_pls_golite062009
nucleotide binding	1.28669586915546	bayes_pls_golite062009
structure-specific DNA binding	1.2539059700735	bayes_pls_golite062009
DNA-dependent ATPase activity	1.2155186842031	bayes_pls_golite062009
purine NTP-dependent helicase activity	1.19311444180077	bayes_pls_golite062009
ATP-dependent helicase activity	1.19311444180077	bayes_pls_golite062009
double-stranded DNA binding	1.117585097627	bayes_pls_golite062009
nucleic acid binding	1.08697924060619	bayes_pls_golite062009
catalytic activity	1.00104173493322	bayes_pls_golite062009
ATP binding	0.98146619596929	bayes_pls_golite062009
adenyl ribonucleotide binding	0.949788783884952	bayes_pls_golite062009
adenyl nucleotide binding	0.931486373329219	bayes_pls_golite062009
DNA helicase activity	0.72881469450553	bayes_pls_golite062009
DNA binding	0.702147676354075	bayes_pls_golite062009
motor activity	0.677658554107	bayes_pls_golite062009
ATP-dependent DNA helicase activity	0.5886142102548	bayes_pls_golite062009
single-stranded DNA binding	0.568457189190858	bayes_pls_golite062009
protein binding	0.378225828131122	bayes_pls_golite062009
mismatched DNA binding	0.31144582840038	bayes_pls_golite062009
transcription regulator activity	0.287777990975748	bayes_pls_golite062009
DNA strand annealing activity	0.283577486331079	bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups	0.176241137083092	bayes_pls_golite062009
microtubule motor activity	0.11674780318211	bayes_pls_golite062009
kinase activity	0.0980017568205789	bayes_pls_golite062009
protein kinase activity	0.0364322017534667	bayes_pls_golite062009

No functions predicted.

Term	Confidence	Notes
ubiquitin-protein ligase activity	5.98960927712678	bayes_pls_golite062009
small conjugating protein ligase activity	5.74178173377247	bayes_pls_golite062009
acid-amino acid ligase activity	5.13930231819025	bayes_pls_golite062009
ligase activity, forming carbon-nitrogen bonds	5.02047466767105	bayes_pls_golite062009
deoxyribonuclease activity	2.72222787956584	bayes_pls_golite062009
endodeoxyribonuclease activity	2.60873257753475	bayes_pls_golite062009
hydrolase activity	2.55157966585974	bayes_pls_golite062009
binding	2.4974940028864	bayes_pls_golite062009
nucleoside-triphosphatase activity	2.16381244011837	bayes_pls_golite062009
pyrophosphatase activity	2.13284212711072	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides	2.11265775498161	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	2.11046854230259	bayes_pls_golite062009
endonuclease activity	1.96689197136388	bayes_pls_golite062009
helicase activity	1.70242731830224	bayes_pls_golite062009
ATPase activity	1.53315090215319	bayes_pls_golite062009
ligase activity	1.31241138156276	bayes_pls_golite062009
purine ribonucleotide binding	1.2935968641033	bayes_pls_golite062009
ribonucleotide binding	1.2935353851804	bayes_pls_golite062009
purine nucleotide binding	1.29138695385133	bayes_pls_golite062009
nucleotide binding	1.28669586915546	bayes_pls_golite062009
structure-specific DNA binding	1.2539059700735	bayes_pls_golite062009
DNA-dependent ATPase activity	1.2155186842031	bayes_pls_golite062009
purine NTP-dependent helicase activity	1.19311444180077	bayes_pls_golite062009
ATP-dependent helicase activity	1.19311444180077	bayes_pls_golite062009
double-stranded DNA binding	1.117585097627	bayes_pls_golite062009
nucleic acid binding	1.08697924060619	bayes_pls_golite062009
catalytic activity	1.00104173493322	bayes_pls_golite062009
ATP binding	0.98146619596929	bayes_pls_golite062009
adenyl ribonucleotide binding	0.949788783884952	bayes_pls_golite062009
adenyl nucleotide binding	0.931486373329219	bayes_pls_golite062009
DNA helicase activity	0.72881469450553	bayes_pls_golite062009
DNA binding	0.702147676354075	bayes_pls_golite062009
motor activity	0.677658554107	bayes_pls_golite062009
ATP-dependent DNA helicase activity	0.5886142102548	bayes_pls_golite062009
single-stranded DNA binding	0.568457189190858	bayes_pls_golite062009
protein binding	0.378225828131122	bayes_pls_golite062009
mismatched DNA binding	0.31144582840038	bayes_pls_golite062009
transcription regulator activity	0.287777990975748	bayes_pls_golite062009
DNA strand annealing activity	0.283577486331079	bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups	0.176241137083092	bayes_pls_golite062009
microtubule motor activity	0.11674780318211	bayes_pls_golite062009
kinase activity	0.0980017568205789	bayes_pls_golite062009
protein kinase activity	0.0364322017534667	bayes_pls_golite062009

No functions predicted.

Reference: Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076

	PROTEIN(S)	PUBLICATION
View Data	RAD16	Huh WK, et al. (2003)

TMHMM	2.0c	PSIPRED	v2.61
SignalP	3.0	COILS	1999
DISOPRED	v0.1	NCBI nr	06/2007
PSI-BLAST	2.2.18	FFAS	ffas03
PDB	06/2007	Pfam	22
HMMER	2.3.2

Protein predicted to be:	GLOBULAR (No transmembrane regions or signal peptide)
Confidence of classification:	0.99

Protein Overview: RAD16

Protein Complex Data

Mass Spectrometry Data

Yeast Two-Hybrid Data

Microscopy / Localization Data

Protein Structure Data

Philius Transmembrane Prediction: