YRC Public Data Repository - Protein Structure Prediction

Protein:	YSH1
Organism:	Saccharomyces cerevisiae
Length:	779 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 YSH1.

Description	E-value	Query Range	Subject Range
YSH1 - Putative endoribonuclease, subunit of the mRNA cleavage and polyadenylation specificity complex; req... gi\|190405336 - gi\|190405336\|gb\|EDV08603.1\| hypothetical protein SCRG_04228 [Saccharomyces cerevisiae RM11-1a] gi\|151940984 - gi\|151940984\|gb\|EDN59365.1\| cleavage factor II (CF II) component [Saccharomyces cerevisiae YJM789] YSH1_YEAST - Endoribonuclease YSH1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=YSH1 PE=1 SV=1	0.0	[1..779]	[1..779]
CPSF3_BOVIN - Cleavage and polyadenylation specificity factor subunit 3 OS=Bos taurus GN=CPSF3 PE=1 SV=1	0.0	[4..778]	[7..683]
CPSF3 - cleavage and polyadenylation specific factor 3, 73kDa	0.0	[4..778]	[7..683]
ysh1 - mRNA cleavage and polyadenylation specificity factor complex subunit Ysh1 YSH1_SCHPO - Endoribonuclease ysh1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=ysh1 PE=2 SV=1	0.0	[1..777]	[29..711]
YSH1_NEUCR - Endoribonuclease ysh-1 OS=Neurospora crassa GN=ysh-1 PE=3 SV=1 YSH1_NEUCR - Endoribonuclease ysh-1 OS=Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 ...	0.0	[6..777]	[21..801]
CPSF3_ARATH - Cleavage and polyadenylation specificity factor subunit 3-I OS=Arabidopsis thaliana GN=CPSF73-I PE=1...	0.0	[5..778]	[18..688]
gi\|19074699, gi\|... - gi\|19074699\|ref\|NP_586205.1\| similarity to HYPOTHETICAL PROTEIN Y162_METJA [Encephalitozoon cuniculi... gi\|19074699 - gi\|19074699\|ref\|NP_586205.1\| similarity to HYPOTHETICAL PROTEIN Y162_METJA [Encephalitozoon cuniculi...	0.0	[3..730]	[88..717]

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Predicted Domain #1

Region A:
Residues: [1-170]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MERTNTTTFK FFSLGGSNEV GRSCHILQYK GKTVMLDAGI HPAYQGLASL PFYDEFDLSK  60
   61 VDILLISHFH LDHAASLPYV MQRTNFQGRV FMTHPTKAIY RWLLRDFVRV TSIGSSSSSM 120
  121 GTKDEGLFSD EDLVDSFDKI ETVDYHSTVD VNGIKFTAFH AGHVLGAAMF

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	14.522879
Match:	1smlA_
Description:	Zn metallo-beta-lactamase
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [171-431]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 QIEIAGLRVL FTGDYSREVD RHLNSAEVPP LSSNVLIVES TFGTATHEPR LNRERKLTQL  60
   61 IHSTVMRGGR VLLPVFALGR AQEIMLILDE YWSQHADELG GGQVPIFYAS NLAKKCMSVF 120
  121 QTYVNMMNDD IRKKFRDSQT NPFIFKNISY LRNLEDFQDF GPSVMLASPG MLQSGLSRDL 180
  181 LERWCPEDKN LVLITGYSIE GTMAKFIMLE PDTIPSINNP EITIPRRCQV EEISFAAHVD 240
  241 FQENLEFIEK ISAPNIILVH G

[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 #3

Region A:
Residues: [432-529]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 EANPMGRLKS ALLSNFASLK GTDNEVHVFN PRNCVEVDLE FQGVKVAKAV GNIVNEIYKE  60
   61 ENVEIKEEIA AKIEPIKEEN EDNLDSQAEK GLVDEEEH

[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 #4

Region A:
Residues: [530-779]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KDIVVSGILV SDDKNFELDF LSLSDLREHH PDLSTTILRE RQSVRVNCKK ELIYWHILQM  60
   61 FGEAEVLQDD DRVTNQEPKV KEESKDNLTN TGKLILQIMG DIKLTIVNTL AVVEWTQDLM 120
  121 NDTVADSIIA ILMNVDSAPA SVKLSSHSCD DHDHNNVQSN AQGKIDEVER VKQISRLFKE 180
  181 QFGDCFTLFL NKDEYASNKE ETITGVVTIG KSTAKIDFNN MKILECNSNP LKGRVESLLN 240
  241 IGGNLVTPLC

[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.

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