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View Structure Prediction Details

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 are all of our structure predictions for this domain.
Click here to view only most confident match.

Found no 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 are all of our structure predictions for this domain.
Click here to view only most confident match.

    MCM
Score
GO
Score
GO
Term
SCOP
Match
SCOP Description
View Download 0.623 0.256 mRNA cleavage b.1.2 Fibronectin type III
View Download 0.584 0.221 mRNA cleavage d.93.1 SH2 domain
View Download 0.519 0.034 mRNA cleavage a.24.13 Domain of the SRP/SRP receptor G-proteins
View Download 0.538 0.012 mRNA cleavage d.70.1 Yest killer toxins
View Download 0.513 N/A N/A d.54.1 Enolase N-terminal domain-like
View Download 0.488 N/A N/A d.93.1 SH2 domain
View Download 0.463 N/A N/A d.54.1 Enolase N-terminal domain-like
View Download 0.459 N/A N/A d.43.1 Elongation factor Ts (EF-Ts), dimerisation domain
View Download 0.457 N/A N/A b.40.2 Bacterial enterotoxins
View Download 0.455 N/A N/A d.226.1 GIY-YIG endonuclease
View Download 0.423 N/A N/A d.54.1 Enolase N-terminal domain-like
View Download 0.377 N/A N/A d.94.2 Putative transcriptional regulator TM1602, C-terminal domain
View Download 0.365 N/A N/A d.10.1 DNA-binding domain
View Download 0.359 N/A N/A c.55.7 Methylated DNA-protein cysteine methyltransferase domain
View Download 0.355 N/A N/A d.189.1 PX domain
View Download 0.354 N/A N/A b.4.1 HSP40/DnaJ peptide-binding domain
View Download 0.343 N/A N/A d.93.1 SH2 domain
View Download 0.303 N/A N/A d.15.7 Immunoglobulin-binding domains
View Download 0.302 N/A N/A a.69.1 C-terminal domain of alpha and beta subunits of F1 ATP synthase
View Download 0.301 N/A N/A f.36.1 Neurotransmitter-gated ion-channel pransmembrane pore
View Download 0.286 N/A N/A d.93.1 SH2 domain
View Download 0.273 N/A N/A d.15.2 CAD & PB1 domains
View Download 0.270 N/A N/A d.15.1 Ubiquitin-like
View Download 0.256 N/A N/A a.74.1 Cyclin-like
View Download 0.251 N/A N/A d.106.1 Sterol carrier protein, SCP
View Download 0.250 N/A N/A d.186.1 Head-to-tail joining protein W, gpW
View Download 0.240 N/A N/A b.40.4 Nucleic acid-binding proteins
View Download 0.238 N/A N/A d.58.35 Pseudouridine synthase
View Download 0.237 N/A N/A a.45.1 Glutathione S-transferase (GST), C-terminal domain
View Download 0.237 N/A N/A a.4.1 Homeodomain-like
View Download 0.231 N/A N/A a.7.3 Succinate dehydrogenase/fumarate reductase flavoprotein C-terminal domain
View Download 0.230 N/A N/A b.40.4 Nucleic acid-binding proteins
View Download 0.229 N/A N/A a.24.7 FKBP12-rapamycin-binding domain of FKBP-rapamycin-associated protein (FRAP)
View Download 0.225 N/A N/A b.40.4 Nucleic acid-binding proteins
View Download 0.223 N/A N/A a.74.1 Cyclin-like
View Download 0.222 N/A N/A d.237.1 Hypothetical protein YjiA, C-terminal domain
View Download 0.222 N/A N/A a.181.1 Antibiotic binding domain of TipA-like multidrug resistance regulators
View Download 0.220 N/A N/A a.46.1 Methionine synthase domain
View Download 0.213 N/A N/A d.93.1 SH2 domain
View Download 0.208 N/A N/A a.24.15 FAD-dependent thiol oxidase
View Download 0.204 N/A N/A d.106.1 Sterol carrier protein, SCP

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 are all of our structure predictions for this domain.
Click here to view only most confident match.

Found no structure predictions for this domain.


YRC Informatics Platform - Version 3.0
Created and Maintained by: Michael Riffle