YRC Public Data Repository - Protein Structure Prediction

Protein:	CDH1
Organism:	Saccharomyces cerevisiae
Length:	566 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 CDH1.

Description	E-value	Query Range	Subject Range
gi\|186464325, gi... - gi\|23128981\|ref\|ZP_00110817.1\| COG2319: FOG: WD40 repeat [Nostoc punctiforme PCC 73102], gi\|18668187...	620.0	[0..16]	[564..1165]
YY46_NOSS1 - Uncharacterized WD repeat-containing protein alr3466 OS=Nostoc sp. (strain PCC 7120 / UTEX 2576) GN=... gi\|25530855 - pir\|\|AC2239 WD-40 repeat protein [imported] - Nostoc sp. (strain PCC 7120)	609.0	[0..5]	[566..922]
gi\|75701503, gi\|... - gi\|75907778\|ref\|YP_322074.1\| ribosome assembly protein 4 (RSA4) [Anabaena variabilis ATCC 29413], gi...	598.0	[0..5]	[552..1060]
gi\|48893630, gi\|... - gi\|71673807\|ref\|ZP_00671555.1\| TPR repeat:G-protein beta WD-40 repeat:YD repeat [Trichodesmium eryth...	588.0	[0..2]	[542..967]
gi\|37523925, gi\|... - gi\|37523925\|ref\|NP_927302.1\| WD repeat-containing protein [Gloeobacter violaceus PCC 7421], gi\|35214...	581.0	[0..18]	[555..605]
gi\|148658115, gi... - gi\|148658115\|ref\|YP_001278320.1\| NB-ARC domain-containing protein [Roseiflexus sp. RS-1], gi\|1485702...	574.0	[0..3]	[565..835]

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Predicted Domain #1

Region A:
Residues: [1-120]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSTNLNPFMN NTPSSSPLKG SESKRVSKRP ISSSSSASLL SSPSRRSRPS TVYGDRYIPS  60
   61 RTDIDFNSIV SISSMASVPA LNPSSTEDQV EYQKERQAHE TYNTLLKNEL FGEMLSKDTV 120
  121

[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 #2

Region A:
Residues: [121-458]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GSESSIDRIK NTRPSTRGNV HAENTTRHGY ELERVSTPPP EAAGLEEFSP HSTPVTPRRL  60
   61 FTSQQDEITR PSSNSVRGAS LLTYQQRKGR RLSAASLLQS QFFDSMSPVR PDSKQLLLSP 120
  121 GKQFRQIAKV PYRVLDAPSL ADDFYYSLID WSSTDVLAVA LGKSIFLTDN NTGDVVHLCD 180
  181 TENEYTSLSW IGAGSHLAVG QANGLVEIYD VMKRKCIRTL SGHIDRVACL SWNNHVLTSG 240
  241 SRDHRILHRD VRMPDPFFET IESHTQEVCG LKWNVADNKL ASGGNDNVVH VYEGTSKSPI 300
  301 LTFDEHKAAV KAMAWSPHKR GVLATGGGTA DRRLKIWN

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	63.221849
Match:	1erjA
Description:	Tup1, C-terminal domain
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [459-566]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 VNTSIKMSDI DSGSQICNMV WSKNTNELVT SHGYSKYNLT LWDCNSMDPI AILKGHSFRV  60
   61 LHLTLSNDGT TVVSGAGDET LRYWKLFDKP KAKVQPNSLI FDAFNQIR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	87.69897
Match:	1vyhC
Description:	PAF-AH Holoenzyme: Lis1/Alfa2
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