YRC Public Data Repository - Protein Structure Prediction

Protein:	BEM1_YEAST
Organism:	Saccharomyces cerevisiae S288c
Length:	551 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

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Top Sequence Alignment Hits

Listed below are up to the top 10 sequence alignment matches, by species, for the PSI-BLAST search against the protein sequence for BEM1_YEAST.

Description	E-value	Query Range	Subject Range
gi\|190408648 - gi\|190408648\|gb\|EDV11913.1\| bud emergence protein 1 [Saccharomyces cerevisiae RM11-1a] gi\|151946588 - gi\|151946588\|gb\|EDN64810.1\| bud emergence protein [Saccharomyces cerevisiae YJM789] gi\|207347574 - gi\|207347574\|gb\|EDZ73700.1\| YBR200Wp-like protein [Saccharomyces cerevisiae AWRI1631] BEM1_YEAST - Bud emergence protein 1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=BEM1 PE=1 SV=1 BEM1 - Protein containing SH3-domains, involved in establishing cell polarity and morphogenesis; functions ...	0.0	[1..551]	[1..551]
scd2 - scaffold protein Scd2 SCD2_SCHPO - Protein scd2/ral3 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=scd2 PE=3 SV=1	3.0E-79	[69..511]	[21..492]
gi\|447739 - gi\|447739\|prf\|\|1915304A nylB upstream ORF	3.0E-68	[7..366]	[249..618]
SRC_RSVSA - Tyrosine-protein kinase transforming protein Src OS=Avian leukosis virus RSA GN=V-SRC PE=1 SV=5 gi\|210189 - gi\|210189\|gb\|AAA42565.1\| src-p60 phosphoprotein SRC_AVISR - Tyrosine-protein kinase transforming protein Src OS=Avian sarcoma virus (strain rASV1441) GN=V-SRC P...	6.0E-67	[7..366]	[3..372]
SRC_AVISS - Tyrosine-protein kinase transforming protein Src OS=Avian sarcoma virus (strain S1) GN=V-SRC PE=3 SV...	2.0E-66	[7..366]	[3..372]
SRC_CHICK - Proto-oncogene tyrosine-protein kinase Src OS=Gallus gallus GN=SRC PE=1 SV=4	2.0E-66	[7..366]	[3..372]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	3.0E-66	[7..366]	[3..372]
gi\|210265 - gi\|210265\|gb\|AAA42583.1\| p66-src protein gi\|394713 - gi\|394713\|emb\|CAA36156.1\| src protein [Avian sarcoma virus] SRC_AVIS2 - Tyrosine-protein kinase transforming protein Src OS=Avian sarcoma virus (strain PR2257) GN=V-SRC PE=...	3.0E-66	[7..366]	[3..372]
SRC_AVIST - Tyrosine-protein kinase transforming protein Src OS=Avian sarcoma virus (strain S2) GN=V-SRC PE=3 SV...	5.0E-66	[7..366]	[3..372]

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Predicted Domain #1

Region A:
Residues: [1-66]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MLKNFKLSKR DSNGSKGRIT SADISTPSHD NGSVIKHIKT VPVRYLSSSS TPVKSQRDSS  60
   61 PKNRHN

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below are all of our de novo (Rosetta) predictions for this domain.
Click here to view only most confident match.

		MCM Score	SCOP Match	SCOP Description
View	Download	0.366	d.9.1	Interleukin 8-like chemokines
View	Download	0.381	d.74.2	C-terminal domain of arginine repressor
View	Download	0.453	d.49.1	Signal recognition particle alu RNA binding heterodimer, SRP9/14
View	Download	0.483	d.17.3	Disulfide bond isomerase, DsbC, N-terminal domain
View	Download	0.318	d.9.2	Description not found.
View	Download	0.295	d.49.1	Signal recognition particle alu RNA binding heterodimer, SRP9/14
View	Download	0.295	g.41.3	Zinc beta-ribbon
View	Download	0.293	b.34.5	Translation proteins SH3-like domain
View	Download	0.266	d.95.1	Glucose permease domain IIB
View	Download	0.258	a.163.1	Crustacean CHH/MIH/GIH neurohormone
View	Download	0.253	c.47.1	Thioredoxin-like
View	Download	0.240	b.34.7	DNA-binding domain of retroviral integrase
View	Download	0.239	g.41.7	Aspartate carbamoyltransferase, Regulatory-chain, C-terminal domain
View	Download	0.230	g.41.3	Zinc beta-ribbon
View	Download	0.220	a.64.1	Saposin

Predicted functions:

Term	Confidence	Notes
binding	3.12724619324809	bayes_pls_golite062009
signal transducer activity	2.5284324342567	bayes_pls_golite062009
molecular transducer activity	2.5284324342567	bayes_pls_golite062009
protein binding	2.14586566310919	bayes_pls_golite062009
molecular adaptor activity	1.33740973673697	bayes_pls_golite062009
SH3/SH2 adaptor activity	1.2323381312171	bayes_pls_golite062009
protein binding, bridging	0.83823250804321	bayes_pls_golite062009
cytoskeletal protein binding	0.83493091348808	bayes_pls_golite062009
actin filament binding	0.75424908168927	bayes_pls_golite062009
transcription regulator activity	0.540818657754841	bayes_pls_golite062009
enzyme regulator activity	0.456661966897198	bayes_pls_golite062009
nucleic acid binding	0.352421112301971	bayes_pls_golite062009
DNA binding	0.281643350069021	bayes_pls_golite062009
phosphoprotein binding	0.16798254471727	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [67-133]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SKDITSPEKV IKAKYSYQAQ TSKELSFMEG EFFYVSGDEK DWYKASNPST GKEGVVPKTY  60
   61 FEVFDRT

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	91.24799
Match:	2ptk__
Description:	c-src protein tyrosine kinase; c-src tyrosine kinase
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [134-238]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KPSSVNGSNS SSRKVTNDSL NMGSLYAIVL YDFKAEKADE LTTYVGENLF ICAHHNCEWF  60
   61 IAKPIGRLGG PGLVPVGFVS IIDIATGYAT GNDVIEDIKS VNLPT

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	91.24799
Match:	2ptk__
Description:	c-src protein tyrosine kinase; c-src tyrosine kinase
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
binding	2.24212855645397	bayes_pls_golite062009
protein binding	1.04550817342273	bayes_pls_golite062009
signal transducer activity	0.639296022362811	bayes_pls_golite062009
molecular transducer activity	0.639296022362811	bayes_pls_golite062009
GTPase regulator activity	0.459633124432679	bayes_pls_golite062009
nucleoside-triphosphatase regulator activity	0.457933659119243	bayes_pls_golite062009
small GTPase regulator activity	0.390993828682912	bayes_pls_golite062009
enzyme regulator activity	0.217422685675578	bayes_pls_golite062009
phosphotransferase activity, alcohol group as acceptor	0.187012142094005	bayes_pls_golite062009
protein serine/threonine kinase activity	0.0693380673720717	bayes_pls_golite062009
protein kinase activity	0.0278354564906339	bayes_pls_golite062009
kinase activity	0.00999242592237526	bayes_pls_golite062009

Predicted Domain #4

Region A:
Residues: [239-366]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 VQEWKSNIAR YKASNISLGS VEQQQQQSIT KPQNKSAKLV DGELLVKASV ESFGLEDEKY  60
   61 WFLVCCELSN GKTRQLKRYY QDFYDLQVQL LDAFPAEAGK LRDAGGQWSK RIMPYIPGPV 120
  121 PYVTNSIT

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	91.24799
Match:	2ptk__
Description:	c-src protein tyrosine kinase; c-src tyrosine kinase
Matching Structure (courtesy of the PDB):

Predicted Domain #5

Region A:
Residues: [367-434]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KKRKEDLNIY VADLVNLPDY ISRSEMVHSL FVVLNNGFDR EFERDENQNN IKTLQENDTA  60
   61 TFATASQT

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	77.156545
Match:	1gd5A_
Description:	p47phox NADPH oxidase
Matching Structure (courtesy of the PDB):

Predicted Domain #6

Region A:
Residues: [435-551]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SNFASTNQDN TLTGEDLKLN KKLSDLSLSG SKQAPAQSTS GLKTTKIKFY YKDDIFALML  60
   61 KGDTTYKELR SKIAPRIDTD NFKLQTKLFD GSGEEIKTDS QVSNIIQAKL KISVHDI

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	405.144602
Match:	1ip9A_
Description:	Bud emergence mediator Bemp1
Matching Structure (courtesy of the PDB):

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

View Structure Prediction Details

Top Sequence Alignment Hits

Predicted functions:

Predicted functions: