YRC Public Data Repository - Protein Structure Prediction

Protein:	VHS3
Organism:	Saccharomyces cerevisiae
Length:	674 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 VHS3.

Description	E-value	Query Range	Subject Range
VHS3_YEAST - Phosphopantothenoylcysteine decarboxylase subunit VHS3 OS=Saccharomyces cerevisiae (strain ATCC 2045... VHS3 - Negative regulatory subunit of protein phosphatase 1 Ppz1p and also a subunit of the phosphopantothe...	0.0	[1..574]	[1..574]
TYSY_SCHPO - Probable thymidylate synthase OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPAC15E1.04 ... SPAC15E1.04 - thymidylate synthase	3.0E-63	[356..597]	[8..237]
gi\|15978163, gi\|... - gi\|16120401\|ref\|NP_403714.1\| phosphopantothenoylcysteine synthase/decarboxylase [Yersinia pestis CO9... gi\|150260888, gi... - gi\|150260888\|ref\|ZP_01917616.1\| DNA/pantothenate metabolism flavoprotein [Yersinia pestis CA88-4125]... gi\|51594403, gi\|... - gi\|51594403\|ref\|YP_068594.1\| phosphopantothenoylcysteine synthase/decarboxylase [Yersinia pseudotube... Q66GD7\|Q66GD7_YERPS - DNA/pantothenate metabolism flavoprotein - Yersinia pseudotuberculosis gi\|165936230, gi... - gi\|165936230\|ref\|ZP_02224799.1\| phosphopantothenoylcysteine decarboxylase/phosphopantothenate--cyste... gi\|45434769, gi\|... - gi\|45439914\|ref\|NP_991453.1\| phosphopantothenoylcysteine synthase/decarboxylase [Yersinia pestis bio... gi\|25322282 - pir\|\|AI0006 DNA/pantothenate metabolism flavoprotein [imported] - Yersinia pestis (strain CO92)	3.0E-61	[383..577]	[5..190]
gi\|15964111 - gi\|15964111\|ref\|NP_384464.1\| bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothen... gi\|15073287 - gi\|15073287\|emb\|CAC41795.1\| Probable coenzyme A biosynthesis bifunctional protein CoaBC : Phosphopan...	9.0E-61	[383..579]	[3..191]
gi\|17988579, gi\|... - gi\|17988579\|ref\|NP_541212.1\| bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothen... gi\|25322294 - pir\|\|AI3538 phosphopantothenoylcysteine decarboxylase (EC 4.1.1.36) [imported] - Brucella melitensis...	4.0E-60	[382..579]	[1..190]
gi\|209754632, gi... - pir\|\|A65165 pantothenate metabolism flavoprotein dfp - Escherichia coli (strain K-12), pir\|\|C86040... gi\|30043346, gi\|... - gi\|30065085\|ref\|NP_839256.1\| phosphopantothenoylcysteine synthase/decarboxylase [Shigella flexneri 2... gi\|15833768, gi\|... - gi\|15833768\|ref\|NP_312541.1\| phosphopantothenoylcysteine synthase/decarboxylase [Escherichia coli O1... gi\|26110715, gi\|... - gi\|26250285\|ref\|NP_756325.1\| phosphopantothenoylcysteine synthase/decarboxylase [Escherichia coli CF... gi\|1790070, gi\|4... - gi\|49176381\|ref\|NP_418096.3\| phosphopantothenoylcysteine synthase/decarboxylase [Escherichia coli K1... gi\|15833768, gi\|... - gi\|15833768\|ref\|NP_312541.1\| phosphopantothenoylcysteine synthase/decarboxylase [Escherichia coli O1... gi\|208813668, gi... - gi\|208813668\|ref\|ZP_03254997.1\| phosphopantothenoylcysteine decarboxylase/phosphopantothenate--cyste... gi\|209157232, gi... - gi\|209395832\|ref\|YP_002273117.1\| phosphopantothenoylcysteine decarboxylase/phosphopantothenate--cyst... gi\|15804180, gi\|... - gi\|15804180\|ref\|NP_290219.1\| phosphopantothenoylcysteine synthase/decarboxylase [Escherichia coli O1...	2.0E-59	[369..577]	[18..212]
gi\|14023511, gi\|... - gi\|14023511\|dbj\|BAB50117.1\| pantothenate metabolism flavoprotein [Mesorhizobium loti MAFF303099], gi...	2.0E-58	[383..580]	[27..216]
gi\|290489 - gi\|290489\|gb\|AAA61992.1\| dfp (CG Site No. 18430)	2.0E-58	[369..577]	[18..212]
gi\|41023401 - gi\|41023401\|emb\|CAE52655.1\| hypothetical protein [Fowlpox virus (isolate HP-438[Munich])] gi\|9634784, gi\|7... - gi\|9634784\|ref\|NP_039077.1\| HAL3 domain [Fowlpox virus], gi\|7271612\|gb\|AAF44458.1\|AF198100_105 ORF F...	3.0E-58	[387..567]	[5..179]

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Predicted Domain #1

Region A:
Residues: [1-281]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTNKSSLKNN RKGVASNTLS GAEQANIGSS AMPDTNSTGP FSSVSSLDTP VVRKSTSPTG  60
   61 SQTKSIMNAS GTSGAVVSNT PEPGLKRIPT VTFSDPKLGS LRSDVEQTPP NQVARQSSEK 120
  121 KATSVHIAAE GANQGRNLKD INTKVPKDGE ASASSFSTPT SILSNADMGN NISSLLAKKL 180
  181 SFTGGTDSIL NSDNSSDSPR KEHPHFYVED PLHTPSVRSR SNSTSPRPSV VVNTFNPINI 240
  241 EREGSISKTG EPTLLESVLE EAMSPNAVSN PLKRENIMTN M

[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: [282-375]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DPRLPQDDGK LHVLFGATGS LSVFKLKHMI RKLEEIYGRD KICIQVILTN SATKFFAMKY  60
   61 MRKNKKQHNS IDTSFNSTNS NAGNITGNKK KVAS

[Run NCBI BLAST on this sequence.]

Detection Method:	Pcons
Confidence:	1.88
Match:	1mvlA
Description:	4'-phosphopantothenoylcysteine decarboxylase (PPC decarboxylase, halotolerance protein Hal3a)
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [376-592]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LEKFSIQKTS SNSAASQTNN KQEEEKQMAS TTGFPSTLGG SRTYSNSSNV VSQHPQIELP  60
   61 AHIQFWTDQD EWDVWRQRTD PVLHIELRRW ADILVVAPLT ANTLAKIALG LCDNLLTSVI 120
  121 RAWNPTFPIF LAPSMGSGTF NSIMTKKHFR IIQEEMPWVT VFKPSEKVMG INGDIGLSGM 180
  181 MDANEIVGKI VVKLGGYPDV SAGKEEEEDE DNDEEDD

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	371.9897
Match:	1e20A_
Description:	4'-phosphopantothenoylcysteine decarboxylase (PPC decarboxylase, halotolerance protein Hal3a)
Matching Structure (courtesy of the PDB):

Predicted Domain #4

Region A:
Residues: [593-674]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NKKNDTGGKD EDNDDDDDDD DDDDDDDDDD DDDDDDDDDD DDDDDDDDDD DDDDDDDDED  60
   61 DEDEDEDDEG KKKEDKGGLQ RS

[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 functions:

Term	Confidence	Notes
phosphopantothenoylcysteine decarboxylase activity	3.86093811191169	bayes_pls_golite062009
phosphopantothenate--cysteine ligase activity	2.64345867885176	bayes_pls_golite062009
carboxy-lyase activity	1.79168084682693	bayes_pls_golite062009
catalytic activity	1.51672397362026	bayes_pls_golite062009
carbon-carbon lyase activity	1.03827559540394	bayes_pls_golite062009
binding	0.69350040563585	bayes_pls_golite062009
protein binding	0.003958060867923	bayes_pls_golite062009

Predicted Domain #5

Region A:
Residues: [574-674]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DVSAGKEEEE DEDNDEEDDN KKNDTGGKDE DNDDDDDDDD DDDDDDDDDD DDDDDDDDDD  60
   61 DDDDDDDDDD DDDDDDDEDD EDEDEDDEGK KKEDKGGLQR S

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	4.69897
Match:	1yo8A
Description:	Strucuture of the C-terminal domain of human thrombospondin-2
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

Predicted functions: