YRC Public Data Repository - Protein Structure Prediction

Protein:	PUT3
Organism:	Saccharomyces cerevisiae
Length:	979 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 PUT3.

Description	E-value	Query Range	Subject Range
PUT3_YEAST - Proline utilization trans-activator OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=PUT3... PUT3 - Transcriptional activator of proline utilization genes, constitutively binds PUT1 and PUT2 promoter ...	0.0	[1..979]	[1..979]
gi\|7021392 - gi\|7021392\|gb\|AAF35321.1\|AF222908_1 Cat8 [Candida albicans]	2.0E-98	[2..948]	[20..1056]
THI1_SCHPO - Thiamine repressible genes regulatory protein thi1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 2... thi1 - transcription factor Thi1	2.0E-93	[10..883]	[15..759]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	5.0E-88	[10..852]	[15..728]
SPAC3C7.04 - transcription factor YF54_SCHPO - Uncharacterized transcriptional regulatory protein C3C7.04 OS=Schizosaccharomyces pombe (strain 972 ...	4.0E-87	[11..872]	[17..766]
gi\|245224 - gi\|245224\|gb\|AAB21394.1\| NIT4=protein product involved in nitrate assimilation [Neurospora intermedi... NIT4_NEUCR - Nitrogen assimilation transcription factor nit-4 - Neurospora crassa	2.0E-83	[4..872]	[23..738]

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Predicted Domain #1

Region A:
Residues: [1-132]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MVTDQGSRHS IQSKQPAYVN KQPQKRQQRS SVACLSCRKR HIKCPGGNPC QKCVTSNAIC  60
   61 EYLEPSKKIV VSTKYLQQLQ KDLNDKTEEN NRLKALLLER PVSVRGKDNS DDDERHINNA 120
  121 PSSDTLEVSS AP

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	366.927757
Match:	1ajyA_
Description:	PUT3
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
transcription regulator activity	4.56444258780502	bayes_pls_golite062009
DNA binding	4.26146437716972	bayes_pls_golite062009
nucleic acid binding	4.17369933547911	bayes_pls_golite062009
transcription factor activity	3.049435548132	bayes_pls_golite062009
sequence-specific DNA binding	2.98081393153291	bayes_pls_golite062009
RNA polymerase II transcription factor activity	2.93914501897006	bayes_pls_golite062009
binding	2.91929847152301	bayes_pls_golite062009
specific RNA polymerase II transcription factor activity	2.44382866473054	bayes_pls_golite062009
transcription activator activity	2.24483536326713	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [133-813]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 AAPIFDLMSN SNTASDNDND DDNSNRITNN RSYDHSLEKY YKKAISIFKQ PANANGENGN  60
   61 GANGHEDDDE DDEEISTNFA QRSGRLIESH NGFHYFVGSS SMTLFGLEIQ SLVTKYISVK 120
  121 NFRPLPINTK NKILNSNLNP AISSFINSNN YLFSSYNFLN PISTIVNLNS INDNLSPLMF 180
  181 KIILKSDTDG SSGQEEVIQF QLPSYNYTKL LIDCFINYND GCFYFFNEGL VKCGINKLYL 240
  241 ENKWLYYDNT KKALDNENDP ILQAVWFCKI LLILAVGEMY LGSINNEMLK NYSNQPKLPG 300
  301 SKFFQMGSKI FNCLFSSERL ENVTKKGGIE VLLLYAFFLQ VADYTLASYF YFGQALRTCL 360
  361 ILGLHVDSQS DTLSRYEIEH HRRLWWTVYM FERMLSSKAG LPLSFTDYTI STALPADIDD 420
  421 ETIEEKNSHY VFRKAELISN CVTIVKINAQ ILSKLYQRQP ETNIIITLKV VIKQLLEWRN 480
  481 NLSDSLQVDF TQKDEDFKIS RLSTNMFTEY FQGINLAVRP LLFHFASIQL KRFKTSNTFV 540
  541 NLQNYSATIS SLLTCSLHAS VNTIRSLWSL LQNSMLAMFS YMDREYLFTS SCTLLLFNTA 600
  601 FGIHEQTLYH LDHSLEIFTQ MRNLGNIPAG LRRAQLLTLM ANLDFHGIMN DLITKYNDIL 660
  661 KFDSMNCEND NIVEDSNEPK R

[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 functions:

Term	Confidence	Notes
transcription regulator activity	4.34861813464065	bayes_pls_golite062009
DNA binding	4.03985756894684	bayes_pls_golite062009
nucleic acid binding	3.97978190843512	bayes_pls_golite062009
transcription factor activity	2.87348461329489	bayes_pls_golite062009
binding	2.82809978070212	bayes_pls_golite062009
sequence-specific DNA binding	2.77469997789536	bayes_pls_golite062009
RNA polymerase II transcription factor activity	2.70904317608141	bayes_pls_golite062009
transcription activator activity	2.1512787242583	bayes_pls_golite062009
specific RNA polymerase II transcription factor activity	2.08956709478484	bayes_pls_golite062009

Predicted Domain #3

Region A:
Residues: [814-979]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ETEKCKPHKD GDRIDPSIID CDKSNTNTNM IKNESISNIV SILPEGAKPT LTDYSNGNND  60
   61 VNDINVNNSE PSTFFDIITA SLENSYQTTL TEKGSQVMEK NMDQLDSVHN LNDDDLQQLL 120
  121 EDLGNIDHSD EKLWKEITDQ AMWLGNTMDP TAAAGSEIDF TDYLGP

[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: [454-564]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NVTKKGGIEV LLLYAFFLQV ADYTLASYFY FGQALRTCLI LGLHVDSQSD TLSRYEIEHH  60
   61 RRLWWTVYMF ERMLSSKAGL PLSFTDYTIS TALPADIDDE TIEEKNSHYV F

[Run NCBI BLAST on this sequence.]

Detection Method:	Pfam
Confidence:	26.69897
Match:	PF04082.9
Description:	No description for PF04082.9 was found.

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: [565-778]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 RKAELISNCV TIVKINAQIL SKLYQRQPET NIIITLKVVI KQLLEWRNNL SDSLQVDFTQ  60
   61 KDEDFKISRL STNMFTEYFQ GINLAVRPLL FHFASIQLKR FKTSNTFVNL QNYSATISSL 120
  121 LTCSLHASVN TIRSLWSLLQ NSMLAMFSYM DREYLFTSSC TLLLFNTAFG IHEQTLYHLD 180
  181 HSLEIFTQMR NLGNIPAGLR RAQLLTLMAN LDFH

[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 #6

Region A:
Residues: [779-979]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GIMNDLITKY NDILKFDSMN CENDNIVEDS NEPKRETEKC KPHKDGDRID PSIIDCDKSN  60
   61 TNTNMIKNES ISNIVSILPE GAKPTLTDYS NGNNDVNDIN VNNSEPSTFF DIITASLENS 120
  121 YQTTLTEKGS QVMEKNMDQL DSVHNLNDDD LQQLLEDLGN IDHSDEKLWK EITDQAMWLG 180
  181 NTMDPTAAAG SEIDFTDYLG P

[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: