YRC Public Data Repository - Protein Structure Prediction

Protein:	YDR541C
Organism:	Saccharomyces cerevisiae
Length:	344 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 YDR541C.

Description	E-value	Query Range	Subject Range
gi\|16611766 - gi\|16611766\|gb\|AAL27347.1\|AF402315_2 dTDP-D-glucose 4,6-dehydratase [Shigella boydii]	5.0E-95	[3..340]	[1..337]
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...	6.0E-95	[3..340]	[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...	8.0E-95	[3..340]	[1..337]
DFRA_MALDO - Bifunctional dihydroflavonol 4-reductase/flavanone 4-reductase OS=Malus domestica GN=DFR PE=1 SV=1	2.0E-94	[2..344]	[5..325]
gi\|160285643, gi... - gi\|209870414\|pdb\|3BXX\|F Chain F, Binding Of Two Substrate Analogue Molecules To Dihydroflavonol 4-Re...	2.0E-94	[2..344]	[5..325]
gi\|9957845 - gi\|9957845\|gb\|AAG09522.1\|AF279621_1 dTDP-D-glucose-4,6-dehydratase [Salmonella enterica]	4.0E-94	[3..340]	[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...	4.0E-94	[3..340]	[1..337]

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Predicted Domain #1

Region A: Residues: [1-86]	1 11 21 31 41 51 \| \| \| \| \| \| 1 MSNTVLVSGA SGFIALHILS QLLKQDYKVI GTVRSHEKEA KLLRQFQHNP NLTLEIVPDI 60 61 SHPNAFDKVL QKRGREIRYV LHTASP [Run NCBI BLAST on this sequence.]
Region B: Residues: [97-128]	1 11 21 31 41 51 \| \| \| \| \| \| 1 DLLIPALEGT KNILNSIKKY AADTVERVVV TS [Run NCBI BLAST on this sequence.]
Region C: Residues: [171-196]	1 11 21 31 41 51 \| \| \| \| \| \| 1 KKFAEKAAWE FTKENEDHIK FKLTTV [Run NCBI BLAST on this sequence.]
Region D: Residues: [247-263]	1 11 21 31 41 51 \| \| \| \| \| \| 1 VALAHLYAFQ KENTAGK [Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	94.69897
Match:	1keuA_
Description:	dTDP-glucose 4,6-dehydratase (RmlB)
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A: Residues: [87-96]	1 11 21 31 41 51 \| \| \| \| \| \| 1 FHYDTTEYEK [Run NCBI BLAST on this sequence.]
Region B: Residues: [129-170]	1 11 21 31 41 51 \| \| \| \| \| \| 1 SCTAIITLAK MDDPSVVFTE ESWNEATWES CQIDGINAYF AS [Run NCBI BLAST on this sequence.]
Region C: Residues: [197-207]	1 11 21 31 41 51 \| \| \| \| \| \| 1 NPSLLFGPQL F [Run NCBI BLAST on this sequence.]
Region D: Residues: [236-246]	1 11 21 31 41 51 \| \| \| \| \| \| 1 DFHSIFIDVR D [Run NCBI BLAST on this sequence.]
Region E: Residues: [264-274]	1 11 21 31 41 51 \| \| \| \| \| \| 1 RLVVTNGKFG N [Run NCBI BLAST on this sequence.]
Region F: Residues: [301-331]	1 11 21 31 41 51 \| \| \| \| \| \| 1 DQVIDRGSTT DNSATRKILG FEFRSLHESV H [Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	94.69897
Match:	1keuA_
Description:	dTDP-glucose 4,6-dehydratase (RmlB)
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [208-235]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DEDVHGHLNT SCEMINGLIH TPVNASVP

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [275-300]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 QDILDILNED FPQLRGLIPL GKPGTG

[Run NCBI BLAST on this sequence.]

Region C:
Residues: [332-344]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DTAAQILKKE NRL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	94.69897
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