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View Structure Prediction Details

Protein: YMD8
Organism: Saccharomyces cerevisiae
Length: 442 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 YMD8.

Description E-value Query
Range
Subject
Range
YMD8 - Putative nucleotide sugar transporter, has similarity to Vrg4p
YMD8_YEAST - Putative nucleotide-sugar transporter YMD8 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) ...
9.0E-70 [1..442] [1..442]
gi|7507776 - gi|7507776|pir||T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans
8.0E-48 [4..416] [123..495]
gi|85110407 - gi|85110407|ref|XP_963444.1| hypothetical protein NCU05453 [Neurospora crassa OR74A]
gi|32409655, gi|... - gi|32409655|ref|XP_325308.1| related to SLY41 protein [MIPS] [Neurospora crassa], gi|28925125|gb|EAA...
2.0E-47 [7..416] [132..501]
gi|9295273 - gi|9295273|gb|AAF86906.1|AF223358_1 triose phosphate/phosphate translocator precursor [Mesembryanthe...
4.0E-44 [8..390] [104..404]
TPT_PEA - Triose phosphate/phosphate translocator, chloroplastic OS=Pisum sativum PE=1 SV=1
4.0E-42 [8..390] [102..402]
TPT_ORYSJ - Triose phosphate/phosphate translocator TPT, chloroplastic OS=Oryza sativa subsp. japonica GN=TPT PE...
7.0E-42 [4..388] [114..416]
TPT_SPIOL - Triose phosphate/phosphate translocator, chloroplastic OS=Spinacia oleracea PE=1 SV=1
3.0E-41 [9..390] [105..404]
gi|13518113 - gi|13518113|gb|AAK27373.1| triose phosphate/phosphate translocator [Oryza sativa]
4.0E-41 [4..386] [114..414]

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Predicted Domain #1
Region A:
Residues: [1-157]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNRTVFLAFV FGWYFCSIAL SIYNRWMFDP KDGLGIGYPV LVTTFHQATL WLLSGIYIKL  60
   61 RHKPVKNVLR KNNGFNWSFF LKFLLPTAVA SAGDIGLSNV SFQYVPLTIY TIIKSSSIAF 120
  121 VLLFGCIFKL EKFHWKLALS VIIMFVGVAL MVFKPSD

[Run NCBI BLAST on this sequence.]

Detection Method: Pfam
Confidence: 2.356547
Match: PF00892
Description: Integral membrane protein DUF6

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 #2
Region A:
Residues: [158-276]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 STSTKNDQAL VIFGSFLVLA SSCLSGLRWV YTQLMLRNNP IQTNTAAAVE ESDGALFTEN  60
   61 EDNVDNEPVV NLANNKMLEN FGESKPHPIH TIHQLAPIMG ITLLLTSLLV EKPFPGIFS

[Run NCBI BLAST on this sequence.]

Detection Method: deduced

Shown below are all of our de novo (Rosetta) predictions for this domain.
Click here to view only most confident match.

    MCM
Score
SCOP
Match
SCOP Description
View Download 0.391 a.7.1 Spectrin repeat
View Download 0.318 a.47.2 t-snare proteins
View Download 0.230 a.29.5 alpha-ketoacid dehydrogenase kinase, N-terminal domain
View Download 0.218 a.1.1 Globin-like

Predicted Domain #3
Region A:
Residues: [277-387]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SSIFRLDTSN GGVGTETTVL SIVRGIVLLI LPGFAVFLLT ICEFSILEQT PVLTVSIVGI  60
   61 VKELLTVIFG IIILSERLSG FYNWLGMLII MADVCYYNYF RYKQDLLQKY H

[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 0.391 N/A N/A a.7.1 Spectrin repeat
View Download 0.318 N/A N/A a.47.2 t-snare proteins
View Download 0.230 N/A N/A a.29.5 alpha-ketoacid dehydrogenase kinase, N-terminal domain
View Download 0.218 N/A N/A a.1.1 Globin-like

Predicted Domain #4
Region A:
Residues: [388-442]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SVSTQDNRNE LKGFQDFEQL GSKKIAPYSI SVDLTNQEYE LDMIAQNVSR SSQQV

[Run NCBI BLAST on this sequence.]

Detection Method: deduced

Shown below are all of our de novo (Rosetta) predictions for this domain.
Click here to view only most confident match.

    MCM
Score
SCOP
Match
SCOP Description
View Download 0.765 a.60.2 RuvA domain 2-like
View Download 0.643 a.5.2 UBA-like
View Download 0.619 a.4.1 Homeodomain-like
View Download 0.580 a.60.1 SAM/Pointed domain
View Download 0.553 a.48.3 Conserved domain common to transcription factors TFIIS, elongin A, CRSP70
View Download 0.493 a.144.1 PABC (PABP) domain
View Download 0.461 a.153.1 Nuclear receptor coactivator interlocking domain
View Download 0.453 a.60.3 C-terminal domain of RNA polymerase alpha subunit
View Download 0.438 d.58.17 Metal-binding domain
View Download 0.437 a.5.1 DNA helicase RuvA subunit, C-terminal domain
View Download 0.409 d.51.1 Eukaryotic type KH-domain (KH-domain type I)
View Download 0.397 a.44.1 Disulphide-bond formation facilitator (DSBA), insertion domain
View Download 0.352 a.60.12 DNA polymerase beta-like, second domain
View Download 0.349 d.58.23 Probable ACP-binding domain of malonyl-CoA ACP transacylase
View Download 0.322 a.4.5 "Winged helix" DNA-binding domain
View Download 0.321 d.141.1 Ribosomal protein L6
View Download 0.314 a.28.1 ACP-like
View Download 0.301 a.4.1 Homeodomain-like
View Download 0.275 a.8.1 Bacterial immunoglobulin/albumin-binding domains
View Download 0.272 a.5.2 UBA-like
View Download 0.269 a.112.1 Description not found.
View Download 0.258 d.58.49 YajQ-like
View Download 0.257 a.4.13 Sigma3 and sigma4 domains of RNA polymerase sigma factors
View Download 0.255 a.4.5 "Winged helix" DNA-binding domain
View Download 0.244 a.60.4 DNA repair protein Rad51, N-terminal domain
View Download 0.233 b.34.1 C-terminal domain of transcriptional repressors
View Download 0.224 g.3.7 Scorpion toxin-like


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