YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|29136890, gi\|...
Organism:	Salmonella enterica subsp. enterica serovar Typhi str. Ty2
Length:	373 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

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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 gi|29136890, gi|....

Description	E-value	Query Range	Subject Range
gi\|10946239 - gi\|10946239\|gb\|AAG24813.1\| GDP-D-mannose 4,6-dehydratase [Salmonella typhimurium] gi\|62180680, gi\|... - gi\|62180680\|ref\|YP_217097.1\| GDP-D-mannose dehydratase in colanic acid gene cluster [Salmonella ente... gi\|198245271, gi... - gi\|198245271\|ref\|YP_002216196.1\| GDP-mannose 4,6-dehydratase [Salmonella enterica subsp. enterica se... gi\|204321536, gi... - gi\|204928992\|ref\|ZP_03220135.1\| GDP-mannose 4,6-dehydratase [Salmonella enterica subsp. enterica ser... gi\|194738147, gi... - gi\|194738147\|ref\|YP_002115198.1\| GDP-mannose 4,6-dehydratase [Salmonella enterica subsp. enterica se... gi\|197214539, gi... - gi\|197250836\|ref\|YP_002147067.1\| GDP-mannose 4,6-dehydratase [Salmonella enterica subsp. enterica se... gi\|205344976, gi... - gi\|205344976\|gb\|EDZ31740.1\| GDP-mannose 4,6-dehydratase [Salmonella enterica subsp. enterica serovar... gi\|194450416, gi... - gi\|194450416\|ref\|YP_002046159.1\| GDP-mannose 4,6-dehydratase [Salmonella enterica subsp. enterica se... gi\|168259587, gi... - gi\|205351085\|gb\|EDZ37716.1\| GDP-mannose 4,6-dehydratase [Salmonella enterica subsp. enterica serovar... gi\|195631295, gi... - gi\|195631295\|gb\|EDX49855.1\| GDP-mannose 4,6-dehydratase [Salmonella enterica subsp. enterica serovar... gi\|197290635, gi... - gi\|197290635\|gb\|EDY29990.1\| GDP-mannose 4,6-dehydratase [Salmonella enterica subsp. enterica serovar... gi\|168242182, gi... - gi\|205338307\|gb\|EDZ25071.1\| GDP-mannose 4,6-dehydratase [Salmonella enterica subsp. enterica serovar... gi\|205324083, gi... - gi\|205324083\|gb\|EDZ11922.1\| GDP-mannose 4,6-dehydratase [Salmonella enterica subsp. enterica serovar... gi\|10946239\|gb\|A... - GDP-D-mannose 4,6-dehydratase [Salmonella typhimurium] gi\|205330524, gi... - gi\|205330524\|gb\|EDZ17288.1\| GDP-mannose 4,6-dehydratase [Salmonella enterica subsp. enterica serovar... gi\|161362575, gi... - gi\|161613211\|ref\|YP_001587176.1\| hypothetical protein SPAB_00921 [Salmonella enterica subsp. enteric... lcl\|NC_016856.1_... - [gene=gmd] [protein=GDP-D-mannose dehydratase] [protein_id=YP_005238145.1] [location=complement(2244... gi\|207857545, gi... - gi\|207857545\|ref\|YP_002244196.1\| GDP-mannose 4,6-dehydratase [Salmonella enterica subsp. enterica se... gi\|238912538 - gi\|238912538\|ref\|ZP_04656375.1\| GDP-mannose 4,6-dehydratase [Salmonella enterica subsp. enterica ser... gi\|16420642, gi\|... - gi\|16765439\|ref\|NP_461054.1\| GDP-D-mannose dehydratase [Salmonella typhimurium LT2], gi\|16420642\|gb\|...	1.0E-73	[1..373]	[1..373]
gi\|168986364, gi... - gi\|168986364\|dbj\|BAG11903.1\| GDP-mannose dehydratase Gmd [Escherichia coli O55:H7], gi\|168986305\|dbj... gi\|18266399 - gi\|18266399\|gb\|AAL67553.1\|AF461121_4 GDP-mannose dehydratase Gmd [Escherichia coli]	2.0E-73	[1..372]	[1..372]
gi\|191169555, gi... - gi\|75227097\|ref\|ZP_00713917.1\| COG1089: GDP-D-mannose dehydratase [Escherichia coli B7A], gi\|1911695...	2.0E-73	[1..373]	[1..373]
gi\|197361918, gi... - gi\|197361918\|ref\|YP_002141555.1\| GDP-mannose 4,6-dehydratase [Salmonella enterica subsp. enterica se... gi\|56127247, gi\|... - gi\|56412990\|ref\|YP_150065.1\| GDP-mannose 4,6-dehydratase [Salmonella enterica subsp. enterica serova...	3.0E-73	[1..373]	[1..373]
gi\|218690111, gi... - gi\|218690111\|ref\|YP_002398323.1\| GDP-D-mannose dehydratase, NAD(P)-binding [Escherichia coli ED1a], ... GM4D_ECOLI - GDP-mannose 4,6-dehydratase (EC 4.2.1.47) (GDP-D-mannose dehydratase) - Escherichia coli gi\|218352408, gi... - gi\|218695676\|ref\|YP_002403343.1\| GDP-D-mannose dehydratase, NAD(P)-binding [Escherichia coli 55989],... gi\|218369341, gi... - gi\|218699355\|ref\|YP_002406984.1\| GDP-D-mannose dehydratase, NAD(P)-binding [Escherichia coli IAI39],... gi\|218705586, gi... - gi\|218705586\|ref\|YP_002413105.1\| GDP-D-mannose dehydratase, NAD(P)-binding [Escherichia coli UMN026]... gi\|168986378, gi... - gi\|168986378\|dbj\|BAG11917.1\| GDP-D-mannose dehydratase, NAD(P)-binding [Escherichia coli O55:H7], gi... gi\|168986435 - gi\|168986435\|dbj\|BAG11973.1\| GDP-D-mannose dehydratase, NAD(P)-binding [Escherichia coli O55:H6] gi\|208739536, gi... - gi\|208819413\|ref\|ZP_03259733.1\| GDP-mannose 4,6-dehydratase [Escherichia coli O157:H7 str. EC4042], ... gi\|209400542, gi... - gi\|209400542\|ref\|YP_002271296.1\| GDP-mannose 4,6-dehydratase [Escherichia coli O157:H7 str. EC4115],... gi\|209919518, gi... - gi\|209919518\|ref\|YP_002293602.1\| GDP-mannose 4,6-dehydratase [Escherichia coli SE11], gi\|209912777\|d... gi\|215487276, gi... - gi\|215487276\|ref\|YP_002329707.1\| GDP-D-mannose dehydratase, NAD(P)-binding [Escherichia coli O127:H6... gi\|217317389, gi... - gi\|217329621\|ref\|ZP_03445700.1\| GDP-mannose 4,6-dehydratase [Escherichia coli O157:H7 str. TW14588],... gi\|218357009, gi... - gi\|218549468\|ref\|YP_002383259.1\| GDP-D-mannose dehydratase, NAD(P)-binding [Escherichia fergusonii A... gi\|218361389, gi... - gi\|218554621\|ref\|YP_002387534.1\| GDP-D-mannose dehydratase, NAD(P)-binding [Escherichia coli IAI1], ... gi\|218365701, gi... - gi\|218558932\|ref\|YP_002391845.1\| GDP-D-mannose dehydratase, NAD(P)-binding [Escherichia coli S88], g... EG11787 - GDP-D-mannose dehydratase, NAD(P)-binding / Fucose biosynthesis; GDP-D-mannose 4,6-dehydratase gi\|1736759, gi\|8... - gi\|89108873\|ref\|AP_002653.1\| GDP-D-mannose dehydratase, NAD(P)-binding [Escherichia coli str. K-12 s... gi\|91211340, gi\|... - gi\|91211340\|ref\|YP_541326.1\| subunit of GDP-mannose 4,6-dehydratase [Escherichia coli UTI89], gi\|910... gi\|15832112, gi\|... - gi\|15832112\|ref\|NP_310885.1\| GDP-D-mannose dehydratase [Escherichia coli O157:H7 str. Sakai], gi\|133... gi\|168788723, gi... - gi\|189371539\|gb\|EDU89955.1\| GDP-mannose 4,6-dehydratase [Escherichia coli O157:H7 str. EC869], gi\|16... gi\|168799064, gi... - gi\|189378438\|gb\|EDU96854.1\| GDP-mannose 4,6-dehydratase [Escherichia coli O157:H7 str. EC508], gi\|16... gi\|170019620, gi... - gi\|170019620\|ref\|YP_001724574.1\| GDP-mannose 4,6-dehydratase [Escherichia coli ATCC 8739], gi\|169754... gi\|169889518, gi... - gi\|170081683\|ref\|YP_001731003.1\| GDP-D-mannose dehydratase, NAD(P)-binding [Escherichia coli str. K-... gi\|170517810, gi... - gi\|170680092\|ref\|YP_001743088.1\| GDP-mannose 4,6-dehydratase [Escherichia coli SMS-3-5], gi\|17051781... gi\|195938246 - gi\|195938246\|ref\|ZP_03083628.1\| GDP-D-mannose dehydratase, NAD(P)-binding protein [Escherichia coli ... gi\|208727958, gi... - gi\|208808157\|ref\|ZP_03250494.1\| GDP-mannose 4,6-dehydratase [Escherichia coli O157:H7 str. EC4206], ... gi\|208817122, gi... - gi\|208817122\|ref\|ZP_03258214.1\| GDP-mannose 4,6-dehydratase [Escherichia coli O157:H7 str. EC4045], ... gi\|168750437, gi... - gi\|188015395\|gb\|EDU53517.1\| GDP-mannose 4,6-dehydratase [Escherichia coli O157:H7 str. EC4113], gi\|1... gi\|189355154, gi... - gi\|189355154\|gb\|EDU73573.1\| GDP-mannose 4,6-dehydratase [Escherichia coli O157:H7 str. EC4401], gi\|1... gi\|168761796, gi... - gi\|189367768\|gb\|EDU86184.1\| GDP-mannose 4,6-dehydratase [Escherichia coli O157:H7 str. EC4501], gi\|1... gi\|168769807, gi... - gi\|189361242\|gb\|EDU79661.1\| GDP-mannose 4,6-dehydratase [Escherichia coli O157:H7 str. EC4486], gi\|1... gi\|187768950, gi... - gi\|187768950\|gb\|EDU32794.1\| GDP-mannose 4,6-dehydratase [Escherichia coli O157:H7 str. EC4196], gi\|1... gi\|168782338, gi... - gi\|189000085\|gb\|EDU69071.1\| GDP-mannose 4,6-dehydratase [Escherichia coli O157:H7 str. EC4076], gi\|1... gi\|73856055, gi\|... - gi\|74312578\|ref\|YP_310997.1\| GDP-D-mannose dehydratase [Shigella sonnei Ss046], gi\|73856055\|gb\|AAZ88... gi\|81244841, gi\|... - gi\|82543430\|ref\|YP_407377.1\| GDP-D-mannose dehydratase [Shigella boydii Sb227], gi\|81244841\|gb\|ABB65... gi\|75259191, gi\|... - gi\|75259191\|ref\|ZP_00730539.1\| COG1089: GDP-D-mannose dehydratase [Escherichia coli E22], gi\|1930628... gi\|188495761, gi... - gi\|75514083\|ref\|ZP_00736413.1\| COG1089: GDP-D-mannose dehydratase [Escherichia coli 53638], gi\|18849... gi\|254593237, gi... - gi\|254793837\|ref\|YP_003078674.1\| GDP-D-mannose dehydratase, NAD(P)-binding [Escherichia coli O157:H7... gi\|253973946, gi... - gi\|254162045\|ref\|YP_003045153.1\| GDP-D-mannose dehydratase, NAD(P)-binding [Escherichia coli B str. ... gi\|253978140, gi... - gi\|254288833\|ref\|YP_003054581.1\| GDP-D-mannose dehydratase, NAD(P)-binding [Escherichia coli BL21(DE... gi\|238861287, gi... - gi\|238901243\|ref\|YP_002927039.1\| GDP-D-mannose dehydratase, NAD(P)-binding [Escherichia coli BW2952]... gi\|226900874, gi... - gi\|237704508\|ref\|ZP_04534989.1\| GDP-D-mannose dehydratase [Escherichia sp. 3_2_53FAA], gi\|226900874\|... GM4D_SHIFL - GDP-mannose 4,6-dehydratase OS=Shigella flexneri GN=gmd PE=3 SV=1 gi\|75177173, gi\|... - gi\|75177173\|ref\|ZP_00697271.1\| COG1089: GDP-D-mannose dehydratase [Shigella boydii BS512], gi\|187732... gi\|75186851, gi\|... - gi\|75186851\|ref\|ZP_00700118.1\| COG1089: GDP-D-mannose dehydratase [Escherichia coli E24377A], gi\|157... GM4D_ECOL6 - GDP-mannose 4,6-dehydratase OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) GN=gmd PE... gi\|24052464, gi\|... - gi\|24113438\|ref\|NP_707948.1\| GDP-D-mannose dehydratase [Shigella flexneri 2a str. 301], gi\|24052464\|... gi\|83588046, gi\|... - gi\|83588046\|ref\|ZP_00926671.1\| COG1089: GDP-D-mannose dehydratase [Escherichia coli 101-1], gi\|19443... GM4D_ECO57 - GDP-mannose 4,6-dehydratase OS=Escherichia coli O157:H7 GN=gmd PE=3 SV=1 gi\|30063504, gi\|... - gi\|30063504\|ref\|NP_837675.1\| GDP-D-mannose dehydratase [Shigella flexneri 2a str. 2457T], gi\|3004175... gi\|12516247, gi\|... - gi\|15802533\|ref\|NP_288559.1\| GDP-D-mannose dehydratase [Escherichia coli O157:H7 EDL933], gi\|1251624... EG11787 - GDP-D-mannose dehydratase, NAD(P)-binding / Fucose biosynthesis; GDP-D-mannose 4,6-dehydratase gi\|115513373, gi... - gi\|117624249\|ref\|YP_853162.1\| GDP-mannose 4,6-dehydratase [Escherichia coli APEC O1], gi\|115513373\|g... gi\|124500373, gi... - gi\|124528686\|ref\|ZP_01699944.1\| GDP-mannose 4,6-dehydratase [Escherichia coli B], gi\|124500373\|gb\|EA... GM4D_ECOL6 - GDP-mannose 4,6-dehydratase OS=Escherichia coli O6 GN=gmd PE=3 SV=1	4.0E-73	[1..373]	[1..373]
gi\|54401428 - gi\|54401428\|gb\|AAV34512.1\| GDP-mannose dehydratase [Salmonella enterica subsp. enterica serovar Urba...	5.0E-73	[1..372]	[1..372]
gi\|110806020, gi... - gi\|110806020\|ref\|YP_689540.1\| GDP-D-mannose dehydratase [Shigella flexneri 5 str. 8401], gi\|11061556...	1.0E-72	[1..373]	[1..373]
gi\|54401438 - gi\|54401438\|gb\|AAV34519.1\| GDP-mannose dehydratase [Salmonella enterica subsp. salamae serovar Green...	1.0E-72	[1..372]	[1..372]
gi\|194431490, gi... - gi\|83571241\|ref\|ZP_00922682.1\| COG1089: GDP-D-mannose dehydratase [Shigella dysenteriae 1012], gi\|19...	1.0E-72	[1..373]	[1..373]

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Predicted Domain #1

Region A:
Residues: [1-373]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSKVALITGV TGQDGSYLAE FLLEKGYEVH GIKRRASSFN TERVDHIYQD PHSCNPKFHL  60
   61 HYGDLTDASN LTRILQEVQP DEVYNLGAMS HVAVSFESPE YTADVDAMGT LRLLEAIRFL 120
  121 GLEKKTRFYQ ASTSELYGLV QEIPQKETTP FYPRSPYAVA KLYAYWITVN YRESYGIYAC 180
  181 NGILFNHESP RRGETFVTRK ITRAIANIAQ GLESCLYLGN MDSLRDWGHA KDYVRMQWMM 240
  241 LQQEQPEDFV IATGVQYSVR QFVELAAAQL GIKLRFEGEG INEKGIVVSV TGHDAPGVKP 300
  301 RDVIVAVDPC YFRPAEVETL LGDPSKAHEK LGWKPEITLS EMVSEMVAND LEAAKKHSLL 360
  361 KSHGYEVAIA LES

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	73.522879
Match:	1db3A
Description:	GDP-mannose 4,6-dehydratase
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
UDP-glucose 4-epimerase activity	2.13934644118967	bayes_pls_golite062009
catalytic activity	1.79741889688267	bayes_pls_golite062009
oxidoreductase activity, acting on CH-OH group of donors	1.03956654822048	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor	0.82673050487418	bayes_pls_golite062009

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: