YRC Public Data Repository - Protein Structure Prediction

Protein:	pub1
Organism:	Schizosaccharomyces pombe
Length:	767 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 pub1.

Description	E-value	Query Range	Subject Range
gi\|1519444, gi\|2... - pir\|\|S66562 ubiquitin-protein ligase (EC 6.3.2.19) - fission yeast (Schizosaccharomyces pombe), gi...	706.0	[0..1]	[767..1]
gi\|40882335 - gi\|40882335\|emb\|CAF06157.1\| probable ubiquitin-protein ligase [Neurospora crassa]	674.0	[0..2]	[767..7]
RSP5_ASPTN - Probable E3 ubiquitin-protein ligase hulA OS=Aspergillus terreus (strain NIH 2624 / FGSC A1156) GN=h...	670.0	[0..2]	[767..3]
gi\|90302010, gi\|... - gi\|90302010\|gb\|EAS31641.1\| hypothetical protein CIMG_07120 [Coccidioides immitis RS], gi\|119184699\|r...	666.0	[0..2]	[767..3]
RSP5_EMENI - E3 ubiquitin-protein ligase RSP5 OS=Emericella nidulans (strain FGSC A4 / ATCC 38163 / CBS 112.46 / ... RSP5_EMENI - E3 ubiquitin-protein ligase RSP5 OS=Emericella nidulans GN=hulA PE=1 SV=1	664.0	[0..2]	[767..3]
gi\|111066368 - gi\|111066368\|gb\|EAT87488.1\| hypothetical protein SNOG_05097 [Phaeosphaeria nodorum SN15]	661.0	[0..10]	[767..9]
gi\|46137513, gi\|... - gi\|46137513\|ref\|XP_390448.1\| hypothetical protein FG10272.1 [Gibberella zeae PH-1], gi\|42547127\|gb\|E...	658.0	[0..12]	[767..8]
gi\|58270120, gi\|... - gi\|58270120\|ref\|XP_572216.1\| ubiquitin-protein ligase [Cryptococcus neoformans var. neoformans JEC21... gi\|134091939, gi... - gi\|50255156\|gb\|EAL17894.1\| hypothetical protein CNBL0210 [Cryptococcus neoformans var. neoformans B-...	658.0	[0..9]	[767..15]
gi\|44982579 - gi\|44982579\|gb\|AAS51865.1\| ADL055Cp [Ashbya gossypii ATCC 10895] gi\|44982579, gi\|... - gi\|45187818\|ref\|NP_984041.1\| ADL055Cp [Ashbya gossypii ATCC 10895], gi\|44982579\|gb\|AAS51865.1\| ADL05...	658.0	[0..10]	[767..3]

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Predicted Domain #1

Region A:
Residues: [1-129]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSNSAQSRRI RVTIVAADGL YKRDVFRFPD PFAVLTVDGE QTHTTTAIKK TLNPYWNETF  60
   61 EVNVTDNSTI AIQVFDQKKF KKKGQGFLGV INLRVGDVLD LAIGGDEMLT RDLKKSNENT 120
  121 VVHGKIIIN

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	19.39794
Match:	2jqzA
Description:	No description for 2jqzA was found.

Predicted Domain #2

Region A:
Residues: [130-290]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LSTTAQSTLQ VPSSAASGAR TQRTSITNDP QSSQSSSVSR NPASSRAGSP TRDNAPAASP  60
   61 ASSEPRTFSS FEDQYGRLPP GWERRTDNLG RTYYVDHNTR STTWIRPNLS SVAGAAAAEL 120
  121 HSSASSANVT EGVQPSSSNA ARRTEASVLT SNATTAGSGE L

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	2.48
Match:	1tk7A
Description:	NMR structure of WW domains (WW3-4) from Suppressor of Deltex
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
ubiquitin-protein ligase activity	7.10194828712949	bayes_pls_golite062009
small conjugating protein ligase activity	6.82547847405261	bayes_pls_golite062009
acid-amino acid ligase activity	6.04482261304601	bayes_pls_golite062009
ligase activity, forming carbon-nitrogen bonds	5.16615441408338	bayes_pls_golite062009
ligase activity	4.31802364495945	bayes_pls_golite062009
transcription activator activity	3.38259251431615	bayes_pls_golite062009
transcription regulator activity	3.182048695645	bayes_pls_golite062009
binding	2.56070278040924	bayes_pls_golite062009
protein binding	2.42069774848849	bayes_pls_golite062009
transcription factor binding	1.94857953695695	bayes_pls_golite062009
transcription cofactor activity	1.79381302696181	bayes_pls_golite062009
transcription repressor activity	1.7678419433602	bayes_pls_golite062009
transcription coactivator activity	1.67777735708173	bayes_pls_golite062009
histone methyltransferase activity	1.67021314973391	bayes_pls_golite062009
protein methyltransferase activity	0.9455445085372	bayes_pls_golite062009
protein-lysine N-methyltransferase activity	0.863094487787088	bayes_pls_golite062009
lysine N-methyltransferase activity	0.863094487787088	bayes_pls_golite062009
histone-lysine N-methyltransferase activity	0.863094487787088	bayes_pls_golite062009
transcription corepressor activity	0.782679886083722	bayes_pls_golite062009
catalytic activity	0.231344568578849	bayes_pls_golite062009

Predicted Domain #3

Region A:
Residues: [291-379]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PPGWEQRYTP EGRPYFVDHN TRTTTWVDPR RQQYIRSYGG PNNATIQQQP VSQLGPLPSG  60
   61 WEMRLTNTAR VYFVDHNTKT TTWDDPRLP

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	5.0
Match:	1tk7A
Description:	NMR structure of WW domains (WW3-4) from Suppressor of Deltex
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
ubiquitin-protein ligase activity	7.19063870734022	bayes_pls_golite062009
small conjugating protein ligase activity	6.90783262781184	bayes_pls_golite062009
acid-amino acid ligase activity	6.09904629433884	bayes_pls_golite062009
ligase activity, forming carbon-nitrogen bonds	5.1950291192201	bayes_pls_golite062009
ligase activity	4.32965319288714	bayes_pls_golite062009
transcription activator activity	3.61296179666474	bayes_pls_golite062009
transcription regulator activity	3.2682543222543	bayes_pls_golite062009
binding	2.62219069341981	bayes_pls_golite062009
protein binding	2.51948432647454	bayes_pls_golite062009
transcription factor binding	2.18630749239417	bayes_pls_golite062009
transcription cofactor activity	2.07432061489599	bayes_pls_golite062009
transcription coactivator activity	2.02433252968502	bayes_pls_golite062009
histone methyltransferase activity	1.90194027965368	bayes_pls_golite062009
transcription repressor activity	1.81795522051605	bayes_pls_golite062009
protein-lysine N-methyltransferase activity	1.14806422628668	bayes_pls_golite062009
histone-lysine N-methyltransferase activity	1.14806422628668	bayes_pls_golite062009
lysine N-methyltransferase activity	1.14806422628668	bayes_pls_golite062009
protein methyltransferase activity	1.121001087082	bayes_pls_golite062009
transcription corepressor activity	0.911388717587011	bayes_pls_golite062009
catalytic activity	0.210712504691113	bayes_pls_golite062009
histone methyltransferase activity (H3-K36 specific)	0.173723075520888	bayes_pls_golite062009

Predicted Domain #4

Region A:
Residues: [380-767]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SSLDQNVPQY KRDFRRKLIY FLSQPALHPL PGQCHIKVRR NHIFEDSYAE IMRQSATDLK  60
   61 KRLMIKFDGE DGLDYGGLSR EYFFLLSHEM FNPFYCLFEY SSVDNYTLQI NPHSGINPEH 120
  121 LNYFKFIGRV IGLAIFHRRF VDAFFVVSFY KMILQKKVTL QDMESMDAEY YRSLVWILDN 180
  181 DITGVLDLTF SVEDNCFGEV VTIDLKPNGR NIEVTEENKR EYVDLVTVWR IQKRIEEQFN 240
  241 AFHEGFSELI PQELINVFDE RELELLIGGI SEIDMEDWKK HTDYRSYSEN DQIIKWFWEL 300
  301 MDEWSNEKKS RLLQFTTGTS RIPVNGFKDL QGSDGPRKFT IEKAGEPNKL PKAHTCFNRL 360
  361 DLPPYTSKKD LDHKLSIAVE ETIGFGQE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	140.0
Match:	1nd7A
Description:	Conformational Flexibility Underlies Ubiquitin Ligation Mediated by the WWP1 HECT domain E3 Ligase
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
ubiquitin-protein ligase activity	11.7414753295465	bayes_pls_golite062009
small conjugating protein ligase activity	11.4871643691645	bayes_pls_golite062009
acid-amino acid ligase activity	10.4323719338452	bayes_pls_golite062009
ligase activity, forming carbon-nitrogen bonds	9.13168684685485	bayes_pls_golite062009
ligase activity	7.74494807432593	bayes_pls_golite062009
sodium channel inhibitor activity	6.01425793895251	bayes_pls_golite062009
phosphothreonine binding	5.90497053948475	bayes_pls_golite062009
phosphoserine binding	5.90497053948475	bayes_pls_golite062009
ion channel inhibitor activity	2.86572445544473	bayes_pls_golite062009
channel inhibitor activity	2.86572445544473	bayes_pls_golite062009
binding	2.51893471705946	bayes_pls_golite062009
protein binding	2.44418607577971	bayes_pls_golite062009
transcription regulator activity	2.32249912875549	bayes_pls_golite062009
nucleic acid binding	2.12515000812201	bayes_pls_golite062009
DNA binding	1.96906809911381	bayes_pls_golite062009
SMAD binding	1.72092268696303	bayes_pls_golite062009
	1.3844044305632	bayes_pls_golite062009
transcription repressor activity	1.38110732864799	bayes_pls_golite062009
R-SMAD binding	1.37268018792758	bayes_pls_golite062009
channel regulator activity	1.37005888814694	bayes_pls_golite062009
transcription activator activity	1.36023462068212	bayes_pls_golite062009
sodium channel regulator activity	1.19047973745862	bayes_pls_golite062009
receptor binding	1.15852292149378	bayes_pls_golite062009
catalytic activity	1.15152367676155	bayes_pls_golite062009
activin binding	0.883990007327631	bayes_pls_golite062009
transcription factor binding	0.803487897091874	bayes_pls_golite062009
small conjugating protein binding	0.68109357273955	bayes_pls_golite062009
ubiquitin binding	0.60123113960943	bayes_pls_golite062009
ubiquitin-ubiquitin ligase activity	0.598436219078807	bayes_pls_golite062009
nuclear hormone receptor binding	0.470794254334721	bayes_pls_golite062009

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: