YRC Public Data Repository - Protein Structure Prediction

Protein:	YLL056C
Organism:	Saccharomyces cerevisiae
Length:	298 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 YLL056C.

Description	E-value	Query Range	Subject Range
gi\|10505382 - gi\|10505382\|gb\|AAG18457.1\|AF306787_1 AprE [Streptomyces tenebrarius]	1.0E-93	[1..296]	[1..311]
gi\|7437238 - pir\|\|H69105 dTDP-glucose 4,6-dehydratase - Methanobacterium thermoautotrophicum (strain Delta H) gi\|15679777, gi\|... - gi\|2622920\|gb\|AAB86255.1\| dTDP-glucose 4,6-dehydratase [Methanothermobacter thermautotrophicus str. ...	2.0E-93	[2..298]	[3..309]
gi\|4240415 - gi\|4240415\|gb\|AAD13546.1\| NDP-hexose 4,6-dehydratase homolog [Streptomyces cyanogenus]	7.0E-92	[2..296]	[3..308]
gi\|209753446, gi... - pir\|\|A91219 dTDP-glucose 4,6-dehydratase [imported] - Escherichia coli (strain O157:H7, substrain R... gi\|189362621, gi... - gi\|189362621\|gb\|EDU81040.1\| dTDP-glucose 4,6-dehydratase [Escherichia coli O157:H7 str. EC4486], gi\|... gi\|189365802, gi... - gi\|189365802\|gb\|EDU84218.1\| dTDP-glucose 4,6-dehydratase [Escherichia coli O157:H7 str. EC4501], gi\|... gi\|13364196, gi\|... - gi\|15833975\|ref\|NP_312748.1\| dTDP-glucose 4,6-dehydratase [Escherichia coli O157:H7], gi\|13364196\|db... gi\|189358938, gi... - gi\|189358938\|gb\|EDU77357.1\| dTDP-glucose 4,6-dehydratase [Escherichia coli O157:H7 str. EC4401], gi\|... gi\|168751746, gi... - gi\|188014279\|gb\|EDU52401.1\| dTDP-glucose 4,6-dehydratase [Escherichia coli O157:H7 str. EC4113], gi\|... gi\|217325882, gi... - gi\|217325882\|ref\|ZP_03441966.1\| dTDP-glucose 4,6-dehydratase [Escherichia coli O157:H7 str. TW14588]... gi\|209399629, gi... - gi\|209399629\|ref\|YP_002273306.1\| dTDP-glucose 4,6-dehydratase [Escherichia coli O157:H7 str. EC4115]... gi\|13364196, gi\|... - gi\|15833975\|ref\|NP_312748.1\| dTDP-glucose 4,6-dehydratase [Escherichia coli O157:H7 str. Sakai], gi\|... gi\|189376800, gi... - gi\|189376800\|gb\|EDU95216.1\| dTDP-glucose 4,6-dehydratase [Escherichia coli O157:H7 str. EC508], gi\|1... gi\|189373224, gi... - gi\|189373224\|gb\|EDU91640.1\| dTDP-glucose 4,6-dehydratase [Escherichia coli O157:H7 str. EC869], gi\|1... gi\|168780684, gi... - gi\|189001405\|gb\|EDU70391.1\| dTDP-glucose 4,6-dehydratase [Escherichia coli O157:H7 str. EC4076], gi\|... gi\|168775664, gi... - gi\|187768885\|gb\|EDU32729.1\| dTDP-glucose 4,6-dehydratase [Escherichia coli O157:H7 str. EC4196], gi\|... gi\|208818281, gi... - gi\|208818281\|ref\|ZP_03258601.1\| dTDP-glucose 4,6-dehydratase [Escherichia coli O157:H7 str. EC4042],... gi\|208813029, gi... - gi\|208813029\|ref\|ZP_03254358.1\| dTDP-glucose 4,6-dehydratase [Escherichia coli O157:H7 str. EC4045],... gi\|254595186, gi... - gi\|254795786\|ref\|YP_003080623.1\| dTDP-D-glucose 4,6-dehydratase [Escherichia coli O157:H7 str. TW143... gi\|208725490, gi... - gi\|208805689\|ref\|ZP_03248026.1\| dTDP-glucose 4,6-dehydratase [Escherichia coli O157:H7 str. EC4206],... gi\|195938077 - gi\|195938077\|ref\|ZP_03083459.1\| dTDP-glucose 4,6-dehydratase [Escherichia coli O157:H7 str. EC4024]	2.0E-91	[2..296]	[3..329]
gi\|25292344 - pir\|\|C86065 dTDP-glucose 4,6-dehydratase [imported] - Escherichia coli (strain O157:H7, substrain E... gi\|12518652, gi\|... - gi\|15804379\|ref\|NP_290419.1\| dTDP-glucose 4,6-dehydratase [Escherichia coli O157:H7 EDL933], gi\|1251...	1.0E-90	[2..296]	[3..329]
gi\|17227534, gi\|... - gi\|17227534\|ref\|NP_484082.1\| dTDP-glucose 4-6-dehydratase [Nostoc sp. PCC 7120], gi\|17135016\|dbj\|BAB... gi\|25292391 - pir\|\|AF1811 dTDP-glucose 4-6-dehydratase [imported] - Nostoc sp. (strain PCC 7120)	4.0E-90	[1..297]	[16..343]
gi\|9055396 - gi\|9055396\|gb\|AAF82605.1\| dTDP-glucose 4,6-dehydratase [Streptomyces rimosus subsp. paromomycinus]	4.0E-89	[1..296]	[1..306]
gi\|5458599, gi\|1... - gi\|5458599\|emb\|CAB50087.1\| rfbB dTDP-glucose 4,6-dehydratase [Pyrococcus abyssi GE5], gi\|14521381\|re... gi\|5458599, gi\|7... - pir\|\|B75098 dtdp-glucose 4,6-dehydratase (rfbb) PAB0785 - Pyrococcus abyssi (strain Orsay), gi\|54585...	6.0E-89	[1..298]	[1..310]
gi\|9957829 - gi\|9957829\|gb\|AAG09509.1\|AF279618_1 dTDP-D-glucose-4,6-dehydratase [Salmonella enterica]	8.0E-89	[1..297]	[1..335]
gi\|16357461 - gi\|16357461\|gb\|AAL18013.1\| dTDP-glucose 4,6-dehydratase [Aneurinibacillus thermoaerophilus]	1.0E-88	[1..298]	[1..311]

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Predicted Domain #1

Region A:
Residues: [1-166]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MKVFITGASG FIGSAVLSEL ISSGHEVVGL ARSDEAAAKI KSIDPAAKIL RGDLKDLEIL  60
   61 KKGATESDGV IHLGFVHDFK NFEQCCEIDR QATVAMLESL KGSNKPFLYT NGTLSLRPNK 120
  121 VANEQDGIDE DSKILRAVTE QVALSYKDKG VSARIVRLPF SVHGKG

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [192-227]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NAWAAVHRLD TAPLFRLVLE KGKTGQVYHC VGEQGI

[Run NCBI BLAST on this sequence.]

Region C:
Residues: [264-288]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TRDGPVSSEG TRKELGWQPQ QIGLL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	90.154902
Match:	1bxkA_
Description:	dTDP-glucose 4,6-dehydratase (RmlB)
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
catalytic activity	1.79741889688267	bayes_pls_golite062009
oxidoreductase activity	0.881088609158401	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [167-191]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DKAFVPILMN IAKAAGKSGY VGQGT

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [228-263]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PFKDIARVIG EILNVPVASI PVDDAESHFG FLTCFV

[Run NCBI BLAST on this sequence.]

Region C:
Residues: [289-298]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 EDIRANYSLN

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	90.154902
Match:	1bxkA_
Description:	dTDP-glucose 4,6-dehydratase (RmlB)
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: