YRC Public Data Repository - Protein Structure Prediction

Protein:	YGL039W
Organism:	Saccharomyces cerevisiae
Length:	348 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 YGL039W.

Description	E-value	Query Range	Subject Range
gi\|170081671, gi... - gi\|170081671\|ref\|YP_001730991.1\| dTDP-glucose 4,6 dehydratase, NAD(P)-binding [Escherichia coli str.... EG12412 - dTDP-glucose 4,6 dehydratase, NAD(P)-binding / TDP-glucose oxidoreductase-4,6 dehydratase gi\|1736731, gi\|8... - gi\|89108861\|ref\|AP_002641.1\| dTDP-glucose 4,6 dehydratase, NAD(P)-binding [Escherichia coli str. K-1... EG12412 - dTDP-glucose 4,6 dehydratase, NAD(P)-binding / TDP-glucose oxidoreductase-4,6 dehydratase RBB1_ECOLI, RFBB... - dTDP-glucose 4,6-dehydratase (EC 4.2.1.46) - Escherichia coli, (P37759) dTDP-glucose 4,6-dehydratase... gi\|238861014, gi... - gi\|238901231\|ref\|YP_002927027.1\| dTDP-glucose 4,6 dehydratase, NAD(P)-binding [Escherichia coli BW29...	0.0	[6..344]	[1..337]
gi\|16611766 - gi\|16611766\|gb\|AAL27347.1\|AF402315_2 dTDP-D-glucose 4,6-dehydratase [Shigella boydii]	0.0	[6..344]	[1..337]
RMLB_SHIFL - dTDP-glucose 4,6-dehydratase OS=Shigella flexneri GN=rfbB PE=3 SV=2 gi\|24052449, gi\|... - gi\|24113426\|ref\|NP_707936.1\| dTDP-glucose 4,6 dehydratase [Shigella flexneri 2a str. 301], gi\|240524... gi\|30063492, gi\|... - gi\|30063492\|ref\|NP_837663.1\| dTDP-glucose 4,6 dehydratase [Shigella flexneri 2a str. 2457T], gi\|3004...	0.0	[6..346]	[1..339]
gi\|9957845 - gi\|9957845\|gb\|AAG09522.1\|AF279621_1 dTDP-D-glucose-4,6-dehydratase [Salmonella enterica]	0.0	[6..344]	[1..337]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	0.0	[6..344]	[1..337]
gi\|213650451 - gi\|213650451\|ref\|ZP_03380504.1\| dTDP-glucose 4,6 dehydratase [Salmonella enterica subsp. enterica se... gi\|213979614 - gi\|213979614\|ref\|ZP_03406873.1\| dTDP-glucose 4,6 dehydratase [Salmonella enterica subsp. enterica se... gi\|214001795 - gi\|214001795\|ref\|ZP_03412530.1\| dTDP-glucose 4,6 dehydratase [Salmonella enterica subsp. enterica se... gi\|213023599 - gi\|213023599\|ref\|ZP_03338046.1\| dTDP-glucose 4,6 dehydratase [Salmonella enterica subsp. enterica se... gi\|213052826 - gi\|213052826\|ref\|ZP_03345704.1\| dTDP-glucose 4,6 dehydratase [Salmonella enterica subsp. enterica se... gi\|213425545 - gi\|213425545\|ref\|ZP_03358295.1\| dTDP-glucose 4,6 dehydratase [Salmonella enterica subsp. enterica se... gi\|56412999, gi\|... - gi\|56412999\|ref\|YP_150074.1\| dTDP-glucose 4,6 dehydratase [Salmonella enterica subsp. enterica serov... gi\|213585955 - gi\|213585955\|ref\|ZP_03367781.1\| dTDP-glucose 4,6 dehydratase [Salmonella enterica subsp. enterica se... gi\|197936445, gi... - gi\|198241929\|ref\|YP_002216184.1\| dTDP-glucose 4,6-dehydratase [Salmonella enterica subsp. enterica s... gi\|204928949, gi... - gi\|204928949\|ref\|ZP_03220092.1\| dTDP-glucose 4,6-dehydratase [Salmonella enterica subsp. enterica se... gi\|205273021, gi... - gi\|205353240\|ref\|YP_002227041.1\| dTDP-glucose 4,6 dehydratase [Salmonella enterica subsp. enterica s... gi\|207857533, gi... - gi\|207857533\|ref\|YP_002244184.1\| dTDP-glucose 4,6 dehydratase [Salmonella enterica subsp. enterica s... gi\|161362587, gi... - gi\|161613223\|ref\|YP_001587188.1\| dTDP-glucose 4,6 dehydratase [Salmonella enterica subsp. enterica s... gi\|167551043, gi... - gi\|205324063\|gb\|EDZ11902.1\| dTDP-glucose 4,6-dehydratase [Salmonella enterica subsp. enterica serova... gi\|168818214, gi... - gi\|205344684\|gb\|EDZ31448.1\| dTDP-glucose 4,6-dehydratase [Salmonella enterica subsp. enterica serova... gi\|197093404, gi... - gi\|197361927\|ref\|YP_002141564.1\| dTDP-glucose 4,6 dehydratase [Salmonella enterica subsp. enterica s... gi\|16761029 - gi\|16761029\|ref\|NP_456646.1\| dTDP-glucose 4,6 dehydratase [Salmonella enterica subsp. enterica serov... gi\|25292364, gi\|... - gi\|25292364\|pir\|\|AF0767 dTDP-glucose 4,6-dehydratase [imported] - Salmonella enterica subsp. enteric... gi\|29141275, gi\|... - gi\|29141275\|ref\|NP_804617.1\| dTDP-glucose 4,6 dehydratase [Salmonella enterica subsp. enterica serov...	0.0	[6..344]	[1..337]
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]	0.0	[7..346]	[3..336]

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Predicted Domain #1

Region A: Residues: [1-89]	1 11 21 31 41 51 \| \| \| \| \| \| 1 MTTEKTVVFV SGATGFIALH VVDDLLKTGY KVIGSGRSQE KNDGLLKKFK SNPNLSMEIV 60 61 EDIAAPNAFD KVFQKHGKEI KVVLHIASP [Run NCBI BLAST on this sequence.]
Region B: Residues: [100-131]	1 11 21 31 41 51 \| \| \| \| \| \| 1 DLLIPAVNGT KSILEAIKNY AADTVEKVVI TS [Run NCBI BLAST on this sequence.]
Region C: Residues: [174-199]	1 11 21 31 41 51 \| \| \| \| \| \| 1 KKFAEKTAWD FLEENQSSIK FTLSTI [Run NCBI BLAST on this sequence.]
Region D: Residues: [250-266]	1 11 21 31 41 51 \| \| \| \| \| \| 1 VSKAHLLAFE KPECAGQ [Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	104.0
Match:	1keuA_
Description:	dTDP-glucose 4,6-dehydratase (RmlB)
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A: Residues: [90-99]	1 11 21 31 41 51 \| \| \| \| \| \| 1 VHFNTTDFEK [Run NCBI BLAST on this sequence.]
Region B: Residues: [132-173]	1 11 21 31 41 51 \| \| \| \| \| \| 1 SVAALASPGD MKDTSFVVNE ESWNKDTWES CQANAVSAYC GS [Run NCBI BLAST on this sequence.]
Region C: Residues: [200-210]	1 11 21 31 41 51 \| \| \| \| \| \| 1 NPGFVFGPQL F [Run NCBI BLAST on this sequence.]
Region D: Residues: [235-249]	1 11 21 31 41 51 \| \| \| \| \| \| 1 DNFYNYSGPF IDVRD [Run NCBI BLAST on this sequence.]
Region E: Residues: [267-277]	1 11 21 31 41 51 \| \| \| \| \| \| 1 RLFLCEDMFC S [Run NCBI BLAST on this sequence.]
Region F: Residues: [305-335]	1 11 21 31 41 51 \| \| \| \| \| \| 1 TFLTKNCCKC DNRKTKNLLG FQFNKFRDCI V [Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	104.0
Match:	1keuA_
Description:	dTDP-glucose 4,6-dehydratase (RmlB)
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [211-234]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ADSLRNGINS SSAIIANLVS YKLG

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [278-304]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 QEALDILNEE FPQLKGKIAT GEPGSGS

[Run NCBI BLAST on this sequence.]

Region C:
Residues: [336-348]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DTASQLLEVQ SKS

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	104.0
Match:	1keuA_
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