YRC Public Data Repository - Protein Structure Prediction

Protein:	SIN3
Organism:	Saccharomyces cerevisiae
Length:	1536 amino acids
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

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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 SIN3.

Description	E-value	Query Range	Subject Range
gi\|172094 - gi\|172094\|gb\|AAA34839.1\| SIN3 open reading frame	0.0	[1..1536]	[1..1538]
pst1 - Clr6 histone deacetylase complex subunit Pst1 PST1_SCHPO - Paired amphipathic helix protein pst1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=pst1...	0.0	[87..1489]	[28..1363]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	0.0	[378..1362]	[4..954]
pst2 - Clr6 histone deacetylase complex subunit Pst2 PST2_SCHPO - Paired amphipathic helix protein pst2 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=pst2...	0.0	[387..1481]	[15..1063]
gi\|7106407, gi\|7... - gi\|726286\|gb\|AAA89119.1\| mSin3A, gi\|7106407\|ref\|NP_035508.1\| transcriptional regulator, SIN3A [Mus m...	0.0	[292..1030]	[5..833]

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Predicted Domain #1

Region A:
Residues: [1-237]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSQVWHNSNS QSNDVATSND ATGSNERNEK EPSLQGNKPG FVQQQQRITL PSLSALSTKE  60
   61 EDRRDSNGQQ ALTSHAAHIL GYPPPHSNAM PSIATDSALK QPHEYHPRPK SSSSSPSINA 120
  121 SLMNAGPAPL PTVGAASFSL SRFDNPLPIK APVHTEEPKS YNGLQEEEKA TQRPQDCKEV 180
  181 PAGVQPADAP DPSSNHADAN DDNNNNENSH DEDADYRPLN VKDALSYLEQ VKFQFSS

[Run NCBI BLAST on this sequence.]

Detection Method:	ORFEUS
Confidence:	11.5
Match:	1k83A
Description:	RBP1
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [238-321]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 RPDIYNLFLD IMKDFKSQAI DTPGVIERVS TLFRGYPILI QGFNTFLPQG YRIECSSNPD  60
   61 DPIRVTTPMG TTTVNNNISP SGRG

[Run NCBI BLAST on this sequence.]

Detection Method:	Pfam
Confidence:	19.346787
Match:	PF02671
Description:	Paired amphipathic helix repeat

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted functions:

Term	Confidence	Notes
protein deacetylase activity	8.92489148049718	bayes_pls_golite062009
histone deacetylase activity	8.77562367748348	bayes_pls_golite062009
deacetylase activity	7.74805102638387	bayes_pls_golite062009
hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides	5.99241841178307	bayes_pls_golite062009
hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds	4.85992273034906	bayes_pls_golite062009
transcription repressor activity	4.25514230798992	bayes_pls_golite062009
transcription regulator activity	3.82193713323077	bayes_pls_golite062009
transcription corepressor activity	3.30769773581294	bayes_pls_golite062009
nucleic acid binding	2.83214064778422	bayes_pls_golite062009
DNA binding	2.82083682611814	bayes_pls_golite062009
transcription factor binding	2.73494763175272	bayes_pls_golite062009
transcription cofactor activity	2.59356984380124	bayes_pls_golite062009
binding	2.59005615358803	bayes_pls_golite062009
protein binding	2.41769888237582	bayes_pls_golite062009
transcription factor activity	1.99794029160509	bayes_pls_golite062009
transcription activator activity	1.89949115818087	bayes_pls_golite062009
RNA polymerase II transcription factor activity	1.41949477529902	bayes_pls_golite062009
transcription coactivator activity	0.918453145717461	bayes_pls_golite062009
catalytic activity	0.30211814650972	bayes_pls_golite062009

Predicted Domain #3

Region A:
Residues: [322-423]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TTDAQELGSF PESDGNGVQQ PSNVPMVPSS VYQSEQNQDQ QQSLPLLATS SGLPSIQQPE  60
   61 MPAHRQIPQS QSLVPQEDAK KNVDVEFSQA ISYVNKIKTR FA

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #4

Region A:
Residues: [424-489]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DQPDIYKHFL EILQTYQREQ KPINEVYAQV THLFQNAPDL LEDFKKFLPD SSASANQQVQ  60
   61 HAQQHA

[Run NCBI BLAST on this sequence.]

Detection Method:	Pfam
Confidence:	19.69897
Match:	PF02671
Description:	Paired amphipathic helix repeat

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #5

Region A:
Residues: [490-606]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 QQQHEAQMHA QAQAQAQAQA QVEQQKQQQQ FLYPASGYYG HPSNRGIPQQ NLPPIGSFSP  60
   61 PTNGSTVHEA YQDQQHMQPP HFMPLPSIVQ HGPNMVHQGI ANENPPLSDL RTSLTEQ

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	172.134302
Match:	1g1eB_
Description:	Sin3A
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
protein deacetylase activity	9.15317765173842	bayes_pls_golite062009
histone deacetylase activity	9.00540919224423	bayes_pls_golite062009
deacetylase activity	7.91874136549804	bayes_pls_golite062009
hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides	6.08470985892139	bayes_pls_golite062009
hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds	4.91057345050982	bayes_pls_golite062009
transcription repressor activity	4.58162229232685	bayes_pls_golite062009
transcription regulator activity	3.97924147512738	bayes_pls_golite062009
transcription corepressor activity	3.71696410617503	bayes_pls_golite062009
transcription factor binding	3.06004981994503	bayes_pls_golite062009
transcription cofactor activity	2.96293930027313	bayes_pls_golite062009
DNA binding	2.90699688513784	bayes_pls_golite062009
nucleic acid binding	2.89854237920034	bayes_pls_golite062009
binding	2.65480555250736	bayes_pls_golite062009
protein binding	2.51615225301602	bayes_pls_golite062009
transcription factor activity	2.07660852403223	bayes_pls_golite062009
transcription activator activity	1.96507140095887	bayes_pls_golite062009
RNA polymerase II transcription factor activity	1.50631346254518	bayes_pls_golite062009
transcription coactivator activity	1.06494495723884	bayes_pls_golite062009
catalytic activity	0.289349813503192	bayes_pls_golite062009

Predicted Domain #6

Region A:
Residues: [607-732]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 YAPSSIQHQQ QHPQSISPIA NTQYGDIPVR PEIDLDPSIV PVVPEPTEPI ENNISLNEEV  60
   61 TFFEKAKRYI GNKHLYTEFL KILNLYSQDI LDLDDLVEKV DFYLGSNKEL FTWFKNFVGY 120
  121 QEKTKC

[Run NCBI BLAST on this sequence.]

Detection Method:	ORFEUS
Confidence:	11.33
Match:	1g1eB
Description:	Sin3A
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
protein deacetylase activity	8.92489148049718	bayes_pls_golite062009
histone deacetylase activity	8.77562367748348	bayes_pls_golite062009
deacetylase activity	7.74805102638387	bayes_pls_golite062009
hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides	5.99241841178307	bayes_pls_golite062009
hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds	4.85992273034906	bayes_pls_golite062009
transcription repressor activity	4.25514230798992	bayes_pls_golite062009
transcription regulator activity	3.82193713323077	bayes_pls_golite062009
transcription corepressor activity	3.30769773581294	bayes_pls_golite062009
nucleic acid binding	2.83214064778422	bayes_pls_golite062009
DNA binding	2.82083682611814	bayes_pls_golite062009
transcription factor binding	2.73494763175272	bayes_pls_golite062009
transcription cofactor activity	2.59356984380124	bayes_pls_golite062009
binding	2.59005615358803	bayes_pls_golite062009
protein binding	2.41769888237582	bayes_pls_golite062009
transcription factor activity	1.99794029160509	bayes_pls_golite062009
transcription activator activity	1.89949115818087	bayes_pls_golite062009
RNA polymerase II transcription factor activity	1.41949477529902	bayes_pls_golite062009
transcription coactivator activity	0.918453145717461	bayes_pls_golite062009
catalytic activity	0.30211814650972	bayes_pls_golite062009

Predicted Domain #7

Region A:
Residues: [733-1024]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 IENIVHEKHR LDLDLCEAFG PSYKRLPKSD TFMPCSGRDD MCWEVLNDEW VGHPVWASED  60
   61 SGFIAHRKNQ YEETLFKIEE ERHEYDFYIE SNLRTIQCLE TIVNKIENMT ENEKANFKLP 120
  121 PGLGHTSMTI YKKVIRKVYD KERGFEIIDA LHEHPAVTAP VVLKRLKQKD EEWRRAQREW 180
  181 NKVWRELEQK VFFKSLDHLG LTFKQADKKL LTTKQLISEI SSIKVDQTNK KIHWLTPKPK 240
  241 SQLDFDFPDK NIFYDILCLA DTFITHTTAY SNPDKERLKD LLKYFISLFF SI

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #8

Region A:
Residues: [1025-1368]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SFEKIEESLY SHKQNVSESS GSDDGSSIAS RKRPYQQEMS LLDILHRSRY QKLKRSNDED  60
   61 GKVPQLSEPP EEEPNTIEEE ELIDEEAKNP WLTGNLVEEA NSQGIIQNRS IFNLFANTNI 120
  121 YIFFRHWTTI YERLLEIKQM NERVTKEINT RSTVTFAKDL DLLSSQLSEM GLDFVGEDAY 180
  181 KQVLRLSRRL INGDLEHQWF EESLRQAYNN KAFKLYTIDK VTQSLVKHAH TLMTDAKTAE 240
  241 IMALFVKDRN ASTTSAKDQI IYRLQVRSHM SNTENMFRIE FDKRTLHVSI QYIALDDLTL 300
  301 KEPKADEDKW KYYVTSYALP HPTEGIPHEK LKIPFLERLI EFGQ

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #9

Region A:
Residues: [1369-1536]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DIDGTEVDEE FSPEGISVST LKIKIQPITY QLHIENGSYD VFTRKATNKY PTIANDNTQK  60
   61 GMVSQKKELI SKFLDCAVGL RNNLDEAQKL SMQKKWENLK DSIAKTSAGN QGIESETEKG 120
  121 KITKQEQSDN LDSSTASVLP ASITTVPQDD NIETTGNTES SDKGAKIQ

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #10

Region A:
Residues: [1179-1355]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TFAKDLDLLS SQLSEMGLDF VGEDAYKQVL RLSRRLINGD LEHQWFEESL RQAYNNKAFK  60
   61 LYTIDKVTQS LVKHAHTLMT DAKTAEIMAL FVKDRNASTT SAKDQIIYRL QVRSHMSNTE 120
  121 NMFRIEFDKR TLHVSIQYIA LDDLTLKEPK ADEDKWKYYV TSYALPHPTE GIPHEKL

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #11

Region A:
Residues: [1356-1449]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KIPFLERLIE FGQDIDGTEV DEEFSPEGIS VSTLKIKIQP ITYQLHIENG SYDVFTRKAT  60
   61 NKYPTIANDN TQKGMVSQKK ELISKFLDCA VGLR

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #12

Region A:
Residues: [1450-1536]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NNLDEAQKLS MQKKWENLKD SIAKTSAGNQ GIESETEKGK ITKQEQSDNL DSSTASVLPA  60
   61 SITTVPQDDN IETTGNTESS DKGAKIQ

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

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:

Predicted functions: