Protein Overview: BEM3

General Information:
Name(s) found:	BEM3 / YPL115C [SGD]
Description(s) found: SHOW ONLY BEST	gi\|6325142\|ref\|NP_015210.1\| Rho GTPase activating protein (RhoGAP) involved in control of the cytoskeleton organization; targets the essential Rho-GTPase Cdc42p, which controls establishment and maintenance of cell polarity, including bud-site assembly; B [NCBI NR] gi\|418063\|gb\|AAA34453.1\| BEM3 [Saccharomyces cerevisiae] [NCBI NR] gi\|2828204\|sp\|P32873.3\|BEM3_YEAST RecName: Full=GTPase-activating protein BEM3; AltName: Full=Bud emergence protein 3 [NCBI NR] gi\|1163099\|gb\|AAB68247.1\| Bem3p [Saccharomyces cerevisiae] [NCBI NR] pir\|\|A49960 bud emergence protein BEM3 - yeast (Saccharomyces cerevisiae) [NCBI NR] GTPase-activating protein BEM3 OS=Saccharomyces cerevisiae GN=BEM3 PE=1 SV=3 [Swiss-Prot] BEM3 GTPase-activating protein for Cdc42p and Rho1p [mips] Rho GTPase activating protein (RhoGAP) involved in control of the cytoskeleton organization; targets the essential Rho-GTPase Cdc42p, which controls establishment and maintenance of cell polarity, including bud-site assembly [SGD] (P32873) GTPase-activating protein BEM3 [4932.FASTACCERV.txt] Chr XVI from 335485-332099, reverse complement [hmr_yeast5_DM3-1_pombe.fasta] Chr XVI from 332099-335485, reverse complement [yeastorf3.fasta] BEM3, Chr XVI from 332099-335485, reverse complement [yeast_orfs2] BEM3 SGDID:S0006036, Chr XVI from 335485-332099, reverse complement, Verified ORF [yeastflysequest.fasta] Bem3p [Saccharomyces cerevisiae]gi\|2828204\|sp\|P32873\|BEM3_YEAST GTPase-activating protein BEM3gi\|1077038\|pir\|\|A49960 bud emergence protein BEM3 - yeast (Saccharomyces cerevisiae)gi\|1163099\|gb\|AAB68247.1\| Bem3p,Lph12pgi\|418063\|gb\|AAA34453.1\| BEM3 [nrdb_11152004_Chlamydomonas] BEM3 SGDID:S000006036, Chr XVI from 335485-332099, reverse complement, Verified ORF, "Rho GTPase activating protein (RhoGAP) involved in control of the cytoskeleton organization; targets the essential Rho-GTPase Cdc42p, which controls establishment and ma [SGD_S-cerevisiae_na_12-16-2005_con_reversed.fasta] Rho GTPase activating protein (RhoGAP) involved in control of the cytoskeleton organization; targets the essential Rho-GTPase Cdc42p, which controls establishment and maintenance of cell polarity, including bud-site assembly; Bem3p [Saccharomyces cerevisi [nr-271106-contam.fasta] BEM3 [nr-271106-contam.fasta] GTPase-activating protein BEM3 (Bud emergence protein 3) [nr-271106-contam.fasta] Bem3p [Saccharomyces cerevisiae] [nr-271106-contam.fasta] BEM3 SGDID:S000006036, Chr XVI from 335485-332099, reverse complement, Verified ORF, "Rho GTPase activating protein (RhoGAP) involved in control of the cytoskeleton organization; targets the essential Rho-GTPase Cdc42p, which controls establishment and maintenance of cell polarity, including bud-site assembly" [yeast-bovrabprots.fasta] [chemostatdb.fasta] GTPase-activating protein BEM3 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=BEM3 PE=1 SV=3 [UniProt_S_cerevisiae_20120516_05-16-2012_reversed.fasta] BEM3 SGDID:S000006036, Chr XVI from 335486-332100, Genome Release 64-1-1, reverse complement, Verified ORF, "Rho GTPase activating protein (RhoGAP) involved in control of the cytoskeleton organization; targets the essential Rho-GTPase Cdc42p, which controls establishment and maintenance of cell polarity, including bud-site assembly" [yeast-030211-contam.fasta] BEM3 SGDID:S000006036, Chr XVI from 335486-332100, Genome Release 64-2-1, reverse complement, Verified ORF, "Rho GTPase activating protein (RhoGAP); involved in control of the cytoskeleton organization; targets the essential Rho-GTPase Cdc42p, which controls establishment and maintenance of cell polarity, including bud-site assembly" [20141208_orf_trans.fasta] YPL115C SGDID:S000006036, Chr XVI from 335486-332100, Genome Release 64-1-1, reverse complement, Verified ORF, "Rho GTPase activating protein (RhoGAP) involved in control of the cytoskeleton organization; targets the essential Rho-GTPase Cdc42p, which controls establishment and maintenance of cell polarity, including bud-site assembly" [2016-01-SGD_Yeast_Contam_Riffle_20140507-Ska-Hec-110-tubulin.fasta]
Organism:	Saccharomyces cerevisiae
Length:	1128 amino acids
Gene Ontology:
Cellular Component:	intracellular [TAS]
Biological Process:	budding cell isotropic bud growth [IPI] small GTPase mediated signal transduction [IPI] pseudohyphal growth [IPI] invasive growth in response to glucose limitation [IPI] budding cell apical bud growth [IPI]
Molecular Function:	Rho GTPase activator activity [IDA] phosphatidylinositol-3-phosphate binding [IDA] signal transducer activity [IPI]

Sequence:

Sequence:
[PDR BLAST]
[ProtParam]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTDNLTTTHG GSTTLELLAQ YNDHRSKKDK SIEHIEKGTC SGKERNPSYD EIFTENIKLK  60
   61 LQVQEYETEI ESLEKVIDML QKNREASLEV VLEQVQNDSR DSYVNDQSFV LPPRSAERKA 120
  121 HIKSLNLPIP TLSPPLQQGS DVALETSVTP TVPQIGVTSN TSISRKHLQN MILNDEIEAN 180
  181 SSFSSPKIIN RSVSSPTKIH SEQLASPAAS VTYTTSRITI KSPNKGSKSP LQERLRSPQN 240
  241 PNRMTAVINN HLHSPLKAST SNNLDELTES KSQQLTNDAI QKNDRVYSSI TSSAYTTGTP 300
  301 TSAAKSPSSL LEVKEGENKA LGFSPASKEK LDDFTQLLDS SFGEEDLVNT DSKDPLSIKS 360
  361 TINESLPPPP APPTFFSPTS SGNIKNSTPL SSHLASPVIL NKKDDNFGAQ SAKNLKKPVL 420
  421 TSSLPNLSTK LSTTSQNASL PPNPPVESSS KQKQLGETAS IHSTNTLNTF SSTPQGSLKT 480
  481 LRRPHASSVS TVKSVAQSLK SDIPLFVQPE DFGTIQIEVL STLYRDNEDD LSILIAIIDR 540
  541 KSGKEMFKFS KSIHKVRELD VYMKSHVPDL PLPTLPDRQL FQTLSPTKVD TRKNILNQYY 600
  601 TSIFSVPEFP KNVGLKIAQF ISTDTVMTPP MMDDNVKDGS LLLRRPKTLT GNSTWRVRYG 660
  661 ILRDDVLQLF DKNQLTETIK LRQSSIELIP NLPEDRFGTR NGFLITEHKK SGLSTSTKYY 720
  721 ICTETSKERE LWLSAFSDYI DPSQSLSLSS SRNANDTDSA SHLSAGTHHS KFGNATISAT 780
  781 DTPSYVTDLT QEYNNNNNIS NSSNNIANSD GIDSNPSSHS NFLASSSGNA EEEKDSRRAK 840
  841 MRSLFPFKKL TGPASAMNHI GITISNDSDS PTSPDSIIKS PSKKLMEVSS SSNSSTGPHV 900
  901 STAIFGSSLE TCLRLSSHKY QNVYDLPSVV YRCLEYLYKN RGIQEEGIFR LSGSSTVIKT 960
  961 LQERFDKEYD VDLCRYNESI EAKDDEASPS LYIGVNTVSG LLKLYLRKLP HLLFGDEQFL1020
 1021 SFKRVVDENH NNPVQISLGF KELIESGLVP HANLSLMYAL FELLVRINEN SKFNKMNLRN1080
 1081 LCIVFSPTLN IPISMLQPFI TDFACIFQGG EPVKEEEREK VDIHIPQV

Protein Complex Data

	PUBLICATION	TOPOLOGY	COCOMPLEXED PROTEINS
View Details	Krogan NJ, et al. (2006)		AIM26 APC9 BEM3 FMP27 IRA1 MDM36 MID1 NUP42 REV1 SEC20 SML1 TCO89 TOP1 YDR396W YGL024W ZAP1 ZIM17
View Details	Ho Y, et al. (2002)		AVO1 BCK2 BEM3 CCT2 CYS4 DIG1 DIG2 DOP1 GUS1 KSS1 NPA3 PIM1 RNH203 RPA135 RPN6 RVB1 STE11 STE12 STE7 TEC1 TSC11 YIL055C YTA7

Mass Spectrometry Data

The following runs contain data for this protein:

	BAIT	COMMENTS	PUBLICATION
View Run	RIX1	No Comments	Hazbun TR, et al. (2003)
View Run	CEP3	sample cbf3 from feb 2005	Sandall S, et all (2006)
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	#29 Asynchronous Prep5-TiO2 Flowthrough	Keck JM, et al. (2011)

Yeast Two-Hybrid Data

The following interactions contain this protein:

NOT SHOWING SINGLE HITS. [ Show Single Hits ]

[View our yeast two-hybrid interpretation guidelines.]

	BAIT	PREY	HITS	PUBLICATION
View Screen	BEM3	APL6	2	Unpublished Fields Lab Data
View Screen	BEM3	CLA4	2	Drees BL, et al. (2001)

Microscopy / Localization Data

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	PROTEIN(S)	PUBLICATION
View Data	BEM3	Huh WK, et al. (2003)

Protein Structure Data

[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..155]	deduced	N/A	No confident structure predictions are available.
2	View Details	[156..511]	MSA	3.030996	View MSA. No confident structure predictions are available.
3	View Details	[512..629]	Pfam	11.309804	PX domain No confident structure predictions are available.
4	View Details	[630..748]	Pfam	13.79588	PH domain No confident structure predictions are available.
5	View Details	[749..872]	deduced	N/A	No confident structure predictions are available.
6	View Details	[873..1009]	PSI-BLAST	108.383689	p50 RhoGAP domain
7	View Details	[1010..1128]	PSI-BLAST	108.383689	p50 RhoGAP domain

Functions predicted (by domain):

Gene Ontology predictions

No functions predicted.

Term	Confidence	Notes
binding	2.28961137539184	bayes_pls_golite062009
protein binding	1.67421332231525	bayes_pls_golite062009

Term	Confidence	Notes
binding	2.52256824388179	bayes_pls_golite062009
protein binding	1.95763087285706	bayes_pls_golite062009
GTPase regulator activity	1.50594272418871	bayes_pls_golite062009
nucleoside-triphosphatase regulator activity	1.48917924547615	bayes_pls_golite062009
cytoskeletal protein binding	1.16730573804866	bayes_pls_golite062009
enzyme regulator activity	1.13267118951633	bayes_pls_golite062009
small GTPase regulator activity	1.10613306581585	bayes_pls_golite062009
signal transducer activity	0.912168757889531	bayes_pls_golite062009
molecular transducer activity	0.912168757889531	bayes_pls_golite062009
actin binding	0.901424255569633	bayes_pls_golite062009
guanyl-nucleotide exchange factor activity	0.578612934164552	bayes_pls_golite062009
small GTPase binding	0.268376608418386	bayes_pls_golite062009
GTPase binding	0.241736916131941	bayes_pls_golite062009
phosphotransferase activity, alcohol group as acceptor	0.138736794703043	bayes_pls_golite062009

No functions predicted.

Term	Confidence	Notes
GTPase regulator activity	5.23789256375467	bayes_pls_golite062009
nucleoside-triphosphatase regulator activity	5.21562004568462	bayes_pls_golite062009
small GTPase regulator activity	4.91645234075732	bayes_pls_golite062009
GTPase activator activity	4.81440293338491	bayes_pls_golite062009
Ras GTPase activator activity	4.76400460221691	bayes_pls_golite062009
Rho GTPase activator activity	4.58620967349979	bayes_pls_golite062009
enzyme regulator activity	4.5322075775333	bayes_pls_golite062009
enzyme activator activity	4.29367232260052	bayes_pls_golite062009
Rac GTPase activator activity	3.29568423512865	bayes_pls_golite062009
binding	1.62780792681766	bayes_pls_golite062009
cytoskeletal protein binding	1.23364137263268	bayes_pls_golite062009
protein binding	1.21496582666968	bayes_pls_golite062009
molecular transducer activity	0.821491422669847	bayes_pls_golite062009
signal transducer activity	0.821491422669847	bayes_pls_golite062009
actin binding	0.47049194149211	bayes_pls_golite062009
phosphotransferase activity, alcohol group as acceptor	0.269263349894465	bayes_pls_golite062009
GTPase binding	0.240141218420366	bayes_pls_golite062009
small GTPase binding	0.0713778754122761	bayes_pls_golite062009
kinase activity	0.0527660937670589	bayes_pls_golite062009

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:

Protein predicted to be:	GLOBULAR (No transmembrane regions or signal peptide)
Confidence of classification:	0.87

Source: Reynolds et al. (2008)

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