Protein Overview: RAD4

General Information:
Name(s) found:	RAD4 / YER162C [SGD]
Description(s) found: SHOW ONLY BEST	gi\|6321010\|ref\|NP_011089.1\| Protein that recognizes and binds damaged DNA (with Rad23p) during nucleotide excision repair; subunit of Nuclear Excision Repair Factor 2 (NEF2); homolog of human XPC protein; Rad4p [Saccharomyces cerevisiae] [NCBI NR] gi\|603402\|gb\|AAB64689.1\| Rad4p: nucleotide excision repair protein [Saccharomyces cerevisiae] [NCBI NR] pir\|\|DDBYD4 excision repair protein RAD4 - yeast (Saccharomyces cerevisiae) [NCBI NR] RAD4 Excision repair protein [mips] Protein that recognizes and binds damaged DNA (with Rad23p) during nucleotide excision repair; subunit of Nuclear Excision Repair Factor 2 (NEF2); homolog of human XPC protein [SGD] RAD4, Chr V from 500625-502889, reverse complement [yeast_orfs2] Chr V from 500625-502889, reverse complement [yeastorf3.fasta] Chr V from 502889-500625, reverse complement [yeastorf5.fasta] RAD4 SGDID:S0000964, Chr V from 502889-500625, reverse complement, Verified ORF [yeastflysequest.fasta] Protein that recognizes and binds damaged DNA (with Rad23p) during nucleotide excision repair; subunit of Nuclear Excision Repair Factor 2 (NEF2); homolog of human XPC protein [Saccharomyces cerevisiae]gi\|1070670\|pir\|\|DDBYD4 excision repair protein RAD4 [nrdb_11152004_Chlamydomonas] RAD4 SGDID:S000000964, Chr V from 502889-500625, reverse complement, Verified ORF, "Protein that recognizes and binds damaged DNA (with Rad23p) during nucleotide excision repair; subunit of Nuclear Excision Repair Factor 2 (NEF2); homolog of human XPC pro [SGD_S-cerevisiae_na_12-16-2005_con_reversed.fasta] Protein that recognizes and binds damaged DNA (with Rad23p) during nucleotide excision repair; subunit of Nuclear Excision Repair Factor 2 (NEF2); homolog of human XPC protein; Rad4p [Saccharomyces cerevisiae] [nr-271106-contam.fasta] Rad4p: nucleotide excision repair protein [Saccharomyces cerevisiae] [nr-271106-contam.fasta] RAD4 SGDID:S000000964, Chr V from 502889-500625, reverse complement, Verified ORF, "Protein that recognizes and binds damaged DNA (with Rad23p) during nucleotide excision repair; subunit of Nuclear Excision Repair Factor 2 (NEF2); homolog of human XPC protein" [yeast-bovrabprots.fasta] [chemostatdb.fasta]
Organism:	Saccharomyces cerevisiae
Length:	754 amino acids
Gene Ontology:
Cellular Component:	nucleotide-excision repair factor 2 complex [IDA] repairosome [IDA]
Biological Process:	nucleotide-excision repair, DNA damage recognition [TAS]
Molecular Function:	damaged DNA binding [IDA ]

Sequence:

Sequence:
[PDR BLAST]
[ProtParam]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNEDLPKEYF ELIRKALNEK EAEKAPLSRR RRVRRKNQPL PDAKKKFKTG LNELPRESVV  60
   61 TVNLDSSDDG VVTVPTDDSV EEIQSSEEDY DSEEFEDVTD GNEVAGVEDI SVEIKPSSKR 120
  121 NSDARRTSRN VCSNEERKRR KYFHMLYLVC LMVHGFIRNE WINSKRLSRK LSNLVPEKVF 180
  181 ELLHPQKDEE LPLRSTRKLL DGLKKCMELW QKHWKITKKY DNEGLYMRTW KEIEMSANNK 240
  241 RKFKTLKRSD FLRAVSKGHG DPDISVQGFV AMLRACNVNA RLIMSCQPPD FTNMKIDTSL 300
  301 NGNNAYKDMV KYPIFWCEVW DKFSKKWITV DPVNLKTIEQ VRLHSKLAPK GVACCERNML 360
  361 RYVIAYDRKY GCRDVTRRYA QWMNSKVRKR RITKDDFGEK WFRKVITALH HRKRTKIDDY 420
  421 EDQYFFQRDE SEGIPDSVQD LKNHPYYVLE QDIKQTQIVK PGCKECGYLK VHGKVGKVLK 480
  481 VYAKRDIADL KSARQWYMNG RILKTGSRCK KVIKRTVGRP KGEAEEEDER LYSFEDTELY 540
  541 IPPLASASGE ITKNTFGNIE VFAPTMIPGN CCLVENPVAI KAARFLGVEF APAVTSFKFE 600
  601 RGSTVKPVLS GIVVAKWLRE AIETAIDGIE FIQEDDNRKE HLLGALESWN TLLLKLRIRS 660
  661 KLNSTYGKIA EEEPNVTKEQ NIADNHDNTE TFMGGGFLPG IANHEARPYS EPSEPEDSLD 720
  721 YVSVDKAEES ATDDDVGEDY SDFMKELEMS EESD

Protein Complex Data

	PUBLICATION	TOPOLOGY	COCOMPLEXED PROTEINS
View Details	Riffle et al. (2010) (Unpublished Data)		PMA1 RAD23 RAD4 RPL12B, RPL12A RPL17A RPL17B RPL20A RPL2A, RPL2B RPL3 RPL36A RPL42B, RPL42A RPL4A RPS14A RPS2 RPS30B, RPS30A
View Details	(MIPS) Mewes HW, et al. (2004)		RAD23 RAD4
View Details	Krogan NJ, et al. (2006)		RAD4 RCN1
View Details	Gavin AC, et al. (2002)		DNA2 ECM29 KAP95 MEC1 MPH1 MRPS28 MSH2 MSH6 PGK1 RAD23 RAD34 RAD4 RAD52 RFA1 RFA2 RPN10 RPN12 RPN3 RPN6 RPN8 RPN9 RPT2 RPT3 RPT6 SRO7 SSL1 TFA1 TFB1 TFB4
View Details	Ho Y, et al. (2002)		CTF4 RAD1 RAD14 RAD16 RAD4
View Details	Qiu et al. (2008)		ABF1 ELC1 RAD14 RAD16 RAD23 RAD4 RAD7

Mass Spectrometry Data

The following runs contain data for this protein:

	BAIT	COMMENTS	PUBLICATION
View Run	MLP2	#32 Asynchronous Prep-No Phosphopeptide enrichment	Keck JM, et al. (2011)
View Run	MLP2	#29 Asynchronous Prep5-TiO2 Flowthrough	Keck JM, et al. (2011)
View Run	MLP2	#12 Mitotic Prep1-TiO2 Flowthrough	Keck JM, et al. (2011)
View Run	MLP2	#11 Mitotic Prep1-TiO2 enriched, new search criteria	Keck JM, et al. (2011)
View Run	None Entered	#17 Mitotic Prep3-TiO2 Phosphopeptide enrichment	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.]

	BAIT	PREY	HITS	PUBLICATION
View Screen	RAD4	RAD23	2	Uetz P, et al. (2000)
View Screen	RAD4	RPS31	2	Uetz P, et al. (2000)
View Screen	RAD4	SWI4	1	Unpublished Fields Lab Data
View Screen	RAD4	NIF3	1	Unpublished Fields Lab Data
View Screen	RAD4	PEX18	1	Unpublished Fields Lab Data
View Screen	RAD4	RRT14	1	Unpublished Fields Lab Data
View Screen	RAD4	ELF1	1	Unpublished Fields Lab Data
View Screen	RAD4	UTH1	1	Unpublished Fields Lab Data
View Screen	RAD4	LOT6	1	Unpublished Fields Lab Data
View Screen	RAD4	AFG2	1	Unpublished Fields Lab Data
View Screen	PRP16	RAD4	1	Unpublished Fields Lab Data
View Screen	RAD4	SLM6	1	Unpublished Fields Lab Data

Microscopy / Localization Data

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	PROTEIN(S)	PUBLICATION
View Data	RAD4	Huh WK, et al. (2003)

Protein Structure Data

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[View Top Sequence Alignments] [Show Ginzu Version Information]

Domains predicted:

#		Region(s)	Method	Confidence	Match Description
1	View Details	[1..244]	deduced	N/A	No confident structure predictions are available.
2	View Details	[245..694]	Pfam	256.130768	DNA repair protein Rad4 No confident structure predictions are available.
3	View Details	[695..754]	deduced	N/A	No confident structure predictions are available.

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

Philius Transmembrane Prediction:

[View Details]

Source: Reynolds et al. 2008. Manuscript submitted

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