YRC Public Data Repository - Protein Structure Prediction

Protein:	RPE1
Organism:	Saccharomyces cerevisiae
Length:	238 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 RPE1.

Description	E-value	Query Range	Subject Range
gi\|114583049 - gi\|114583049\|ref\|XP_001146078.1\| PREDICTED: ribulose-5-phosphate-3-epimerase isoform 9 [Pan troglody... RPE - ribulose-5-phosphate-3-epimerase gi\|190689795, gi... - gi\|190691163\|gb\|ACE87356.1\| ribulose-5-phosphate-3-epimerase protein [synthetic construct], gi\|19068... CCDS2388.1_1 - null gi\|109100810 - gi\|109100810\|ref\|XP_001109838.1\| PREDICTED: ribulose-5-phosphate-3-epimerase isoform 5 [Macaca mulat...	3.0E-59	[5..236]	[6..226]
RPE_MOUSE - Ribulose-phosphate 3-epimerase OS=Mus musculus GN=Rpe PE=1 SV=1 gi\|149016015 - gi\|149016015\|gb\|EDL75296.1\| similar to Ribulose-5-phosphate-3-epimerase, isoform CRA_b [Rattus norve...	6.0E-59	[5..236]	[6..226]
gi\|190409386 - gi\|190409386\|gb\|EDV12651.1\| D-ribulose-5-Phosphate 3-epimerase [Saccharomyces cerevisiae RM11-1a] RPE1 - D-ribulose-5-phosphate 3-epimerase, catalyzes a reaction in the non-oxidative part of the pentose-ph... RPE_YEAST - Ribulose-phosphate 3-epimerase OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RPE1 PE=1... gi\|151945007 - gi\|151945007\|gb\|EDN63262.1\| D-ribulose-5-phosphate 3-epimerase [Saccharomyces cerevisiae YJM789]	7.0E-59	[1..238]	[1..238]
gi\|12722019, gi\|... - gi\|15603484\|ref\|NP_246558.1\| ribulose-phosphate 3-epimerase [Pasteurella multocida subsp. multocida ...	3.0E-56	[1..228]	[16..235]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	4.0E-56	[1..233]	[1515..1740]
gi\|257471588\|ref... - ribulose-phosphate 3-epimerase [Buchnera aphidicola str. LSR1 (Acyrthosiphon pisum)] gi\|25292406 - gi\|25292406\|pir\|\|F84992 ribulose-phosphate 3-epimerase (EC 5.1.3.1) [imported] - Buchnera sp. (strai... gi\|219624726, gi... - gi\|219681883\|ref\|YP_002468269.1\| ribulose-phosphate 3-epimerase [Buchnera aphidicola str. 5A (Acyrth... gi\|311087916\|gb\|... - ribulose-phosphate 3-epimerase [Buchnera aphidicola str. JF98 (Acyrthosiphon pisum)] RPE_BUCAI - Ribulose-phosphate 3-epimerase OS=Buchnera aphidicola subsp. Acyrthosiphon pisum (strain APS) GN=rpe... gi\|311087423\|gb\|... - ribulose-phosphate 3-epimerase [Buchnera aphidicola str. JF99 (Acyrthosiphon pisum)] RPE_BUCAI - Ribulose-phosphate 3-epimerase OS=Buchnera aphidicola subsp. Acyrthosiphon pisum GN=rpe PE=3 SV=1	4.0E-56	[1..236]	[1..227]
gi\|51591318, gi\|... - gi\|51598036\|ref\|YP_072227.1\| ribulose-phosphate 3-epimerase [Yersinia pseudotuberculosis IP 32953], ... gi\|25292417 - pir\|\|AH0019 ribulose-phosphate 3-epimerase (EC 5.1.3.1) [imported] - Yersinia pestis (strain CO92) gi\|89105796 - gi\|89105796\|ref\|ZP_01178309.1\| COG0036: Pentose-5-phosphate-3-epimerase [Yersinia pestis biovar Orie... gi\|15978260, gi\|... - gi\|218927366\|ref\|YP_002345241.1\| ribulose-phosphate 3-epimerase [Yersinia pestis CO92], gi\|16120498\|... gi\|108809305, gi... - gi\|108809305\|ref\|YP_653221.1\| ribulose-phosphate 3-epimerase [Yersinia pestis Antiqua], gi\|108781218... gi\|108777718, gi... - gi\|229904607\|ref\|ZP_04519718.1\| D-ribulose-5-phosphate 3-epimerase [Yersinia pestis Nepal516], gi\|22... Q664M3\|Q664M3_YERPS - Ribulose-phosphate 3-epimerase precursor - Yersinia pseudotuberculosis gi\|170022490, gi... - gi\|170022490\|ref\|YP_001718995.1\| ribulose-phosphate 3-epimerase [Yersinia pseudotuberculosis YPIII],... gi\|167468239 - gi\|167468239\|ref\|ZP_02332943.1\| ribulose-phosphate 3-epimerase [Yersinia pestis FV-1] gi\|149290245, gi... - gi\|150260837\|ref\|ZP_01917565.1\| ribulose-phosphate 3-epimerase [Yersinia pestis CA88-4125], gi\|14929... gi\|145209101, gi... - gi\|145597405\|ref\|YP_001161480.1\| ribulose-phosphate 3-epimerase [Yersinia pestis Pestoides F], gi\|14... gi\|186700261, gi... - gi\|186897235\|ref\|YP_001874347.1\| ribulose-phosphate 3-epimerase [Yersinia pseudotuberculosis PB1/+],... gi\|162352707, gi... - gi\|77634596\|ref\|ZP_00796693.1\| COG0036: Pentose-5-phosphate-3-epimerase [Yersinia pestis Angola], gi... gi\|117675373, gi... - gi\|77631136\|ref\|ZP_00793722.1\| COG0036: Pentose-5-phosphate-3-epimerase [Yersinia pseudotuberculosis... gi\|229706432, gi... - gi\|229836364\|ref\|ZP_04456531.1\| D-ribulose-5-phosphate 3-epimerase [Yersinia pestis Pestoides A], gi... gi\|166010606, gi... - gi\|166010606\|ref\|ZP_02231504.1\| ribulose-phosphate 3-epimerase [Yersinia pestis biovar Antiqua str. ... gi\|229696377, gi... - gi\|229840011\|ref\|ZP_04460170.1\| D-ribulose-5-phosphate 3-epimerase [Yersinia pestis biovar Orientali... gi\|229842092, gi... - gi\|229842092\|ref\|ZP_04462247.1\| D-ribulose-5-phosphate 3-epimerase [Yersinia pestis biovar Orientali... gi\|167425716, gi... - gi\|167425716\|ref\|ZP_02317469.1\| ribulose-phosphate 3-epimerase [Yersinia pestis biovar Mediaevalis s... gi\|166205673, gi... - gi\|166213375\|ref\|ZP_02239410.1\| ribulose-phosphate 3-epimerase [Yersinia pestis biovar Antiqua str. ...	4.0E-54	[1..231]	[1..223]
gi\|52695847, gi\|... - pir\|\|S75576 ribulose-phosphate 3-epimerase (EC 5.1.3.1) - Synechocystis sp. (strain PCC 6803), gi\|5... RPE_SYNY3 - Ribulose-phosphate 3-epimerase OS=Synechocystis sp. (strain ATCC 27184 / PCC 6803 / N-1) GN=rpe PE=1... RPE_SYNY3 - Ribulose-phosphate 3-epimerase OS=Synechocystis sp. (strain PCC 6803 / Kazusa) GN=rpe PE=1 SV=3	7.0E-54	[1..228]	[1..222]
gi\|227883516, gi... - gi\|227883516\|ref\|ZP_04001321.1\| ribulose-phosphate 3-epimerase [Escherichia coli 83972], gi\|22783939... gi\|237703113, gi... - gi\|237703113\|ref\|ZP_04533594.1\| ribulose-phosphate 3-epimerase [Escherichia sp. 3_2_53FAA], gi\|22690... EG11960 - D-ribulose-5-phosphate 3-epimerase / D-ribulose-5-phosphate 3-epimerase gi\|238902477, gi... - gi\|238902477\|ref\|YP_002928273.1\| D-ribulose-5-phosphate 3-epimerase [Escherichia coli BW2952], gi\|23... gi\|242378912, gi... - gi\|251786639\|ref\|YP_003000943.1\| hypothetical protein B21_03190 [Escherichia coli BL21], gi\|24237891... gi\|253979371, gi... - gi\|254290064\|ref\|YP_003055812.1\| ribulose-phosphate 3-epimerase [Escherichia coli BL21(DE3)], gi\|253... gi\|115514778, gi... - gi\|117625654\|ref\|YP_858977.1\| ribulose-phosphate 3-epimerase [Escherichia coli APEC O1], gi\|11551477... gi\|226839056, gi... - gi\|254038550\|ref\|ZP_04872606.1\| ribulose-phosphate 3-epimerase [Escherichia sp. 1_1_43], gi\|22683905... gi\|124528160, gi... - gi\|124528160\|ref\|ZP_01699493.1\| Ribulose-phosphate 3-epimerase [Escherichia coli B], gi\|124500815\|gb... gi\|253975215, gi... - gi\|254163314\|ref\|YP_003046422.1\| ribulose-phosphate 3-epimerase [Escherichia coli B str. REL606], gi... gi\|254795300, gi... - gi\|254795300\|ref\|YP_003080137.1\| D-ribulose-5-phosphate 3-epimerase [Escherichia coli O157:H7 str. T... gi\|209397258, gi... - gi\|209397258\|ref\|YP_002272820.1\| ribulose-phosphate 3-epimerase [Escherichia coli O157:H7 str. EC411... gi\|208820658, gi... - gi\|208820658\|ref\|ZP_03260978.1\| ribulose-phosphate 3-epimerase [Escherichia coli O157:H7 str. EC4042... gi\|215266739, gi... - gi\|215488667\|ref\|YP_002331098.1\| ribulose-phosphate 3-epimerase [Escherichia coli O127:H6 str. E2348... gi\|209914097, gi... - gi\|209920838\|ref\|YP_002294922.1\| ribulose-phosphate 3-epimerase [Escherichia coli SE11], gi\|20991409... gi\|218555931, gi... - gi\|218555931\|ref\|YP_002388844.1\| ribulose-phosphate 3-epimerase [Escherichia coli IAI1], gi\|21836269... gi\|217326586, gi... - gi\|217326586\|ref\|ZP_03442670.1\| ribulose-phosphate 3-epimerase [Escherichia coli O157:H7 str. TW1458... gi\|218691662, gi... - gi\|218691662\|ref\|YP_002399874.1\| ribulose-phosphate 3-epimerase [Escherichia coli ED1a], gi\|21842922... gi\|218367212, gi... - gi\|218560443\|ref\|YP_002393356.1\| ribulose-phosphate 3-epimerase [Escherichia coli S88], gi\|218367212... gi\|168797153, gi... - gi\|189380033\|gb\|EDU98449.1\| ribulose-phosphate 3-epimerase [Escherichia coli O157:H7 str. EC508], gi... gi\|168785187, gi... - gi\|189374480\|gb\|EDU92896.1\| ribulose-phosphate 3-epimerase [Escherichia coli O157:H7 str. EC869], gi... gi\|170082903, gi... - gi\|170082903\|ref\|YP_001732223.1\| D-ribulose-5-phosphate 3-epimerase [Escherichia coli str. K-12 subs... gi\|169753306, gi... - gi\|170018378\|ref\|YP_001723332.1\| ribulose-phosphate 3-epimerase [Escherichia coli ATCC 8739], gi\|169... gi\|195934874 - gi\|195934874\|ref\|ZP_03080256.1\| ribulose-phosphate 3-epimerase [Escherichia coli O157:H7 str. EC4024... gi\|170680384, gi... - gi\|170680384\|ref\|YP_001745629.1\| ribulose-phosphate 3-epimerase [Escherichia coli SMS-3-5], gi\|17051... gi\|208735138, gi... - gi\|208813861\|ref\|ZP_03255190.1\| ribulose-phosphate 3-epimerase [Escherichia coli O157:H7 str. EC4045... gi\|208807259, gi... - gi\|208807259\|ref\|ZP_03249596.1\| ribulose-phosphate 3-epimerase [Escherichia coli O157:H7 str. EC4206... gi\|15833482, gi\|... - gi\|15833482\|ref\|NP_312255.1\| ribulose-phosphate 3-epimerase [Escherichia coli O157:H7 str. Sakai], g... gi\|218372115, gi... - gi\|218702129\|ref\|YP_002409758.1\| ribulose-phosphate 3-epimerase [Escherichia coli IAI39], gi\|2183721... gi\|110345212, gi... - gi\|110643620\|ref\|YP_671350.1\| ribulose-phosphate 3-epimerase [Escherichia coli 536], gi\|110345212\|gb... gi\|218353798, gi... - gi\|218697066\|ref\|YP_002404733.1\| ribulose-phosphate 3-epimerase [Escherichia coli 55989], gi\|2183537... gi\|110807218, gi... - gi\|110807218\|ref\|YP_690738.1\| ribulose-phosphate 3-epimerase [Shigella flexneri 5 str. 8401], gi\|110... gi\|218434073, gi... - gi\|218706976\|ref\|YP_002414495.1\| ribulose-phosphate 3-epimerase [Escherichia coli UMN026], gi\|218434... gi\|91212858, gi\|... - gi\|91212858\|ref\|YP_542844.1\| ribulose-phosphate 3-epimerase [Escherichia coli UTI89], gi\|91074432\|gb... gi\|75241524, gi\|... - gi\|75241524\|ref\|ZP_00725369.1\| COG0036: Pentose-5-phosphate-3-epimerase [Escherichia coli F11], gi\|1... gi\|193061664, gi... - gi\|75260325\|ref\|ZP_00731593.1\| COG0036: Pentose-5-phosphate-3-epimerase [Escherichia coli E22], gi\|1... gi\|75228960, gi\|... - gi\|75228960\|ref\|ZP_00715552.1\| COG0036: Pentose-5-phosphate-3-epimerase [Escherichia coli B7A], gi\|1... gi\|75236987, gi\|... - gi\|75236987\|ref\|ZP_00721043.1\| COG0036: Pentose-5-phosphate-3-epimerase [Escherichia coli E110019], ... gi\|81247152, gi\|... - gi\|82545741\|ref\|YP_409688.1\| ribulose-phosphate 3-epimerase [Shigella boydii Sb227], gi\|81247152\|gb\|... gi\|85676655, gi\|... - gi\|89110624\|ref\|AP_004404.1\| D-ribulose-5-phosphate 3-epimerase [Escherichia coli str. K-12 substr. ... gi\|75516146, gi\|... - gi\|75516146\|ref\|ZP_00738264.1\| COG0036: Pentose-5-phosphate-3-epimerase [Escherichia coli 53638], gi... gi\|73857368, gi\|... - gi\|74313891\|ref\|YP_312310.1\| ribulose-phosphate 3-epimerase [Shigella sonnei Ss046], gi\|73857368\|gb\|... gi\|83585103, gi\|... - gi\|83585103\|ref\|ZP_00923755.1\| COG0036: Pentose-5-phosphate-3-epimerase [Escherichia coli 101-1], gi... gi\|157162862, gi... - gi\|75197317\|ref\|ZP_00707387.1\| COG0036: Pentose-5-phosphate-3-epimerase [Escherichia coli HS], gi\|15... gi\|194414964, gi... - gi\|75211752\|ref\|ZP_00711816.1\| COG0036: Pentose-5-phosphate-3-epimerase [Escherichia coli B171], gi\|... gi\|187427127, gi... - gi\|75179996\|ref\|ZP_00699983.1\| COG0036: Pentose-5-phosphate-3-epimerase [Shigella boydii BS512], gi\|... RPE_ECOL6 - Ribulose-phosphate 3-epimerase OS=Escherichia coli O6 GN=rpe PE=3 SV=1 gi\|157155929, gi... - gi\|75188160\|ref\|ZP_00701427.1\| COG0036: Pentose-5-phosphate-3-epimerase [Escherichia coli E24377A], ... gi\|189359178, gi... - gi\|189359178\|gb\|EDU77597.1\| ribulose-phosphate 3-epimerase [Escherichia coli O157:H7 str. EC4401], g... gi\|188014200, gi... - gi\|188014200\|gb\|EDU52322.1\| ribulose-phosphate 3-epimerase [Escherichia coli O157:H7 str. EC4113], g... gi\|189364543, gi... - gi\|189364543\|gb\|EDU82962.1\| ribulose-phosphate 3-epimerase [Escherichia coli O157:H7 str. EC4486], g... gi\|168759407, gi... - gi\|189369699\|gb\|EDU88115.1\| ribulose-phosphate 3-epimerase [Escherichia coli O157:H7 str. EC4501], g... gi\|189002650, gi... - gi\|189002650\|gb\|EDU71636.1\| ribulose-phosphate 3-epimerase [Escherichia coli O157:H7 str. EC4076], g... gi\|168772726, gi... - gi\|187771378\|gb\|EDU35222.1\| ribulose-phosphate 3-epimerase [Escherichia coli O157:H7 str. EC4196], g... gi\|24114649, gi\|... - gi\|24114649\|ref\|NP_709159.1\| ribulose-phosphate 3-epimerase [Shigella flexneri 2a str. 301], gi\|2405... RPE_SHIFL - Ribulose-phosphate 3-epimerase OS=Shigella flexneri GN=rpe PE=3 SV=1 gi\|30065330, gi\|... - gi\|30065330\|ref\|NP_839501.1\| ribulose-phosphate 3-epimerase [Shigella flexneri 2a str. 2457T], gi\|30... RPE_ECOL6 - Ribulose-phosphate 3-epimerase OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) GN=rpe... EG11960 - D-ribulose-5-phosphate 3-epimerase / D-ribulose-5-phosphate 3-epimerase RPE_ECOLI - Ribulose-phosphate 3-epimerase (EC 5.1.3.1) (Pentose-5-phosphate 3-epimerase) (PPE) (R5P3E) - Escher... RPE_ECO57 - Ribulose-phosphate 3-epimerase OS=Escherichia coli O157:H7 GN=rpe PE=3 SV=1 gi\|12518006, gi\|... - gi\|15803889\|ref\|NP_289925.1\| ribulose-phosphate 3-epimerase [Escherichia coli O157:H7 EDL933], gi\|12...	2.0E-53	[1..233]	[1..225]
gi\|153223460, gi... - gi\|153223460\|ref\|ZP_01953883.1\| ribulose-phosphate 3-epimerase [Vibrio cholerae MAK 757], gi\|1241181... gi\|121547642, gi... - gi\|121588099\|ref\|ZP_01677847.1\| ribulose-phosphate 3-epimerase [Vibrio cholerae 2740-80], gi\|1215476... gi\|183179608, gi... - gi\|183179608\|ref\|ZP_02957819.1\| ribulose-phosphate 3-epimerase [Vibrio cholerae MZO-3], gi\|183013019... gi\|125620693, gi... - gi\|254226800\|ref\|ZP_04920373.1\| ribulose-phosphate 3-epimerase [Vibrio cholerae V51], gi\|225354553\|r... gi\|125619178, gi... - gi\|254851164\|ref\|ZP_05240514.1\| ribulose-phosphate 3-epimerase [Vibrio cholerae MO10], gi\|254846869\|... gi\|126520939, gi... - gi\|153821554\|ref\|ZP_01974221.1\| ribulose-phosphate 3-epimerase [Vibrio cholerae B33], gi\|126520939\|g... gi\|153819037, gi... - gi\|153819037\|ref\|ZP_01971704.1\| ribulose-phosphate 3-epimerase [Vibrio cholerae NCTC 8457], gi\|12651... gi\|254285819, gi... - gi\|254285819\|ref\|ZP_04960781.1\| ribulose-phosphate 3-epimerase [Vibrio cholerae AM-19226], gi\|197752... gi\|254222319, gi... - gi\|254222319\|ref\|ZP_04916191.1\| ribulose-phosphate 3-epimerase [Vibrio cholerae RC385], gi\|194536466... gi\|148874448, gi... - gi\|153830049\|ref\|ZP_01982716.1\| ribulose-phosphate 3-epimerase [Vibrio cholerae 623-39], gi\|14887444... gi\|149741243, gi... - gi\|153825097\|ref\|ZP_01977764.1\| ribulose-phosphate 3-epimerase [Vibrio cholerae MZO-2], gi\|149741243... gi\|9657215, gi\|1... - gi\|9657215\|gb\|AAF95766.1\| ribulose-phosphate 3-epimerase [Vibrio cholerae O1 biovar El Tor str. N169... gi\|11270182 - pir\|\|G82052 ribulose-phosphate 3-epimerase VC2625 [imported] - Vibrio cholerae (strain N16961 serogr... gi\|227010629, gi... - gi\|227082741\|ref\|YP_002811292.1\| ribulose-phosphate 3-epimerase [Vibrio cholerae M66-2], gi\|22701062...	4.0E-53	[1..230]	[13..234]

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Predicted Domain #1

Region A:
Residues: [1-238]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MVKPIIAPSI LASDFANLGC ECHKVINAGA DWLHIDVMDG HFVPNITLGQ PIVTSLRRSV  60
   61 PRPGDASNTE KKPTAFFDCH MMVENPEKWV DDFAKCGADQ FTFHYEATQD PLHLVKLIKS 120
  121 KGIKAACAIK PGTSVDVLFE LAPHLDMALV MTVEPGFGGQ KFMEDMMPKV ETLRAKFPHL 180
  181 NIQVDGGLGK ETIPKAAKAG ANVIVAGTSV FTAADPHDVI SFMKEEVSKE LRSRDLLD

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	421.94696
Match:	1rpxA_
Description:	D-ribulose-5-phosphate 3-epimerase
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
ribulose-phosphate 3-epimerase activity	3.28372503209224	bayes_pls_golite062009
catalytic activity	2.44231061702877	bayes_pls_golite062009
intramolecular oxidoreductase activity	1.86158562896415	bayes_pls_golite062009
intramolecular oxidoreductase activity, interconverting aldoses and ketoses	1.36492964250879	bayes_pls_golite062009
isomerase activity	0.935800409577999	bayes_pls_golite062009
racemase and epimerase activity, acting on carbohydrates and derivatives	0.764608070506109	bayes_pls_golite062009
orotidine-5'-phosphate decarboxylase activity	0.758594564254247	bayes_pls_golite062009
binding	0.595171555788202	bayes_pls_golite062009
racemase and epimerase activity	0.288948763149344	bayes_pls_golite062009
carboxy-lyase activity	0.1100847613283	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: