YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|229900519, gi...
Organism:	Yersinia pestis Nepal516
Length:	253 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|229900519, gi....

Description	E-value	Query Range	Subject Range
gi\|187731170, gi... - gi\|75177797\|ref\|ZP_00697862.1\| COG2820: Uridine phosphorylase [Shigella boydii BS512], gi\|187731170\|... gi\|157155953, gi... - gi\|75188573\|ref\|ZP_00701840.1\| COG2820: Uridine phosphorylase [Escherichia coli E24377A], gi\|1571559... gi\|13364237, gi\|... - gi\|15834015\|ref\|NP_312788.1\| uridine phosphorylase [Escherichia coli O157:H7], gi\|13364237\|dbj\|BAB38... gi\|75209542, gi\|... - gi\|75209542\|ref\|ZP_00709763.1\| COG2820: Uridine phosphorylase [Escherichia coli B171], gi\|194429224\|... gi\|209753080, gi... - pir\|\|G86070 uridine phosphorylase [imported] - Escherichia coli (strain O157:H7, substrain EDL933),... gi\|75238281, gi\|... - gi\|75238281\|ref\|ZP_00722280.1\| COG2820: Uridine phosphorylase [Escherichia coli E110019], gi\|1930680... gi\|217325150, gi... - gi\|217325150\|ref\|ZP_03441234.1\| uridine phosphorylase [Escherichia coli O157:H7 str. TW14588], gi\|21... gi\|12518708, gi\|... - gi\|15804423\|ref\|NP_290463.1\| uridine phosphorylase [Escherichia coli O157:H7 EDL933], gi\|12518708\|gb... gi\|209921310, gi... - gi\|209921310\|ref\|YP_002295394.1\| uridine phosphorylase [Escherichia coli SE11], gi\|209914569\|dbj\|BAG... gi\|218707464, gi... - gi\|218707464\|ref\|YP_002414983.1\| uridine phosphorylase [Escherichia coli UMN026], gi\|218434561\|emb\|C... gi\|218363166, gi... - gi\|218556397\|ref\|YP_002389311.1\| uridine phosphorylase [Escherichia coli IAI1], gi\|218363166\|emb\|CAR... gi\|254795829, gi... - gi\|254795829\|ref\|YP_003080666.1\| uridine phosphorylase [Escherichia coli O157:H7 str. TW14359], gi\|2... gi\|189376681, gi... - gi\|189376681\|gb\|EDU95097.1\| uridine phosphorylase [Escherichia coli O157:H7 str. EC508], gi\|16880110... gi\|13364237, gi\|... - gi\|15834015\|ref\|NP_312788.1\| uridine phosphorylase [Escherichia coli O157:H7 str. Sakai], gi\|1336423... gi\|189373448, gi... - gi\|189373448\|gb\|EDU91864.1\| uridine phosphorylase [Escherichia coli O157:H7 str. EC869], gi\|16878667... gi\|195938123 - gi\|195938123\|ref\|ZP_03083505.1\| uridine phosphorylase [Escherichia coli O157:H7 str. EC4024] gi\|170022147, gi... - gi\|170022147\|ref\|YP_001727101.1\| uridine phosphorylase [Escherichia coli ATCC 8739], gi\|169757075\|gb... gi\|208811937, gi... - gi\|208811937\|ref\|ZP_03253266.1\| uridine phosphorylase [Escherichia coli O157:H7 str. EC4045], gi\|208... gi\|208806527, gi... - gi\|208806527\|ref\|ZP_03248864.1\| uridine phosphorylase [Escherichia coli O157:H7 str. EC4206], gi\|208... gi\|124530432, gi... - gi\|124530432\|ref\|ZP_01701090.1\| uridine phosphorylase [Escherichia coli B], gi\|124499198\|gb\|EAY46691... gi\|209157215, gi... - gi\|209395815\|ref\|YP_002273350.1\| uridine phosphorylase [Escherichia coli O157:H7 str. EC4115], gi\|20... gi\|208741896, gi... - gi\|208821773\|ref\|ZP_03262093.1\| uridine phosphorylase [Escherichia coli O157:H7 str. EC4042], gi\|208... gi\|75256245, gi\|... - gi\|75256245\|ref\|ZP_00727923.1\| COG2820: Uridine phosphorylase [Escherichia coli E22], gi\|193065675\|r... gi\|75512614, gi\|... - gi\|75512614\|ref\|ZP_00735126.1\| COG2820: Uridine phosphorylase [Escherichia coli 53638], gi\|188492565... gi\|81243136, gi\|... - gi\|82778988\|ref\|YP_405337.1\| uridine phosphorylase [Shigella dysenteriae Sd197], gi\|81243136\|gb\|ABB6... gi\|189359154, gi... - gi\|189359154\|gb\|EDU77573.1\| uridine phosphorylase [Escherichia coli O157:H7 str. EC4401], gi\|1687537... gi\|82546184, gi\|... - gi\|82546184\|ref\|YP_410131.1\| uridine phosphorylase [Shigella boydii Sb227], gi\|81247595\|gb\|ABB68303.... gi\|188015450, gi... - gi\|188015450\|gb\|EDU53572.1\| uridine phosphorylase [Escherichia coli O157:H7 str. EC4113], gi\|1687503... gi\|168768117, gi... - gi\|189362726\|gb\|EDU81145.1\| uridine phosphorylase [Escherichia coli O157:H7 str. EC4486], gi\|1687681... gi\|189365958, gi... - gi\|189365958\|gb\|EDU84374.1\| uridine phosphorylase [Escherichia coli O157:H7 str. EC4501], gi\|1687639... gi\|189001432, gi... - gi\|189001432\|gb\|EDU70418.1\| uridine phosphorylase [Escherichia coli O157:H7 str. EC4076], gi\|1687807... gi\|168775613, gi... - gi\|187768908\|gb\|EDU32752.1\| uridine phosphorylase [Escherichia coli O157:H7 str. EC4196], gi\|1687756...	2.0E-57	[1..253]	[1..253]
gi\|83569333, gi\|... - gi\|83569333\|ref\|ZP_00920788.1\| COG2820: Uridine phosphorylase [Shigella dysenteriae 1012], gi\|194434...	3.0E-57	[1..253]	[1..253]
gi\|73857821, gi\|... - gi\|74314344\|ref\|YP_312763.1\| uridine phosphorylase [Shigella sonnei Ss046], gi\|73857821\|gb\|AAZ90528....	3.0E-57	[1..253]	[1..253]
gi\|110345763, gi... - gi\|110644171\|ref\|YP_671901.1\| uridine phosphorylase [Escherichia coli 536], gi\|110345763\|gb\|ABG72000... gi\|75237640, gi\|... - gi\|75237640\|ref\|ZP_00721660.1\| COG2820: Uridine phosphorylase [Escherichia coli F11], gi\|191173934\|r... gi\|115515229, gi... - gi\|117626105\|ref\|YP_859428.1\| uridine phosphorylase [Escherichia coli APEC O1], gi\|115515229\|gb\|ABJ0... gi\|194422460, gi... - gi\|83585914\|ref\|ZP_00924553.1\| COG2820: Uridine phosphorylase [Escherichia coli 101-1], gi\|194438656... gi\|237702860, gi... - gi\|237702860\|ref\|ZP_04533341.1\| uridine phosphorylase [Escherichia sp. 3_2_53FAA], gi\|226903031\|gb\|E... gi\|227888561, gi... - gi\|227888561\|ref\|ZP_04006366.1\| uridine phosphorylase [Escherichia coli 83972], gi\|227834400\|gb\|EEJ4... gi\|254163784, gi... - gi\|254163784\|ref\|YP_003046892.1\| uridine phosphorylase [Escherichia coli B str. REL606], gi\|25397568... gi\|162138324 - gi\|162138324\|ref\|YP_543359.2\| uridine phosphorylase [Escherichia coli UTI89] gi\|254290534, gi... - gi\|254290534\|ref\|YP_003056282.1\| uridine phosphorylase [Escherichia coli BL21(DE3)], gi\|253979841\|gb... gi\|170521506, gi... - gi\|170683788\|ref\|YP_001746159.1\| uridine phosphorylase [Escherichia coli SMS-3-5], gi\|170521506\|gb\|A... gi\|218367677, gi... - gi\|218560908\|ref\|YP_002393821.1\| uridine phosphorylase [Escherichia coli S88], gi\|218367677\|emb\|CAR0...	5.0E-57	[1..253]	[1..253]
gi\|110617025, gi... - gi\|110807477\|ref\|YP_690997.1\| uridine phosphorylase [Shigella flexneri 5 str. 8401], gi\|110617025\|gb... gi\|56384000, gi\|... - gi\|56480449\|ref\|NP_709637.2\| uridine phosphorylase [Shigella flexneri 2a str. 301], gi\|56384000\|gb\|A... gi\|30043132, gi\|... - gi\|30064872\|ref\|NP_839043.1\| uridine phosphorylase [Shigella flexneri 2a str. 2457T], gi\|30043132\|gb...	5.0E-57	[1..253]	[1..253]
gi\|71041660, gi\|... - gi\|71041676\|pdb\|1U1G\|F Chain F, Structure Of E. Coli Uridine Phosphorylase Complexed To 5- (M-(Benzy...	7.0E-57	[1..253]	[4..256]
UDP_ECOLI - Uridine phosphorylase (EC 2.4.2.3) (UrdPase) (UPase) - Escherichia coli gi\|169891146, gi... - gi\|170083311\|ref\|YP_001732631.1\| uridine phosphorylase [Escherichia coli str. K-12 substr. DH10B], g... EG11045 - uridine phosphorylase / Uridine phosphorylase gi\|157163307, gi... - gi\|75197714\|ref\|ZP_00707784.1\| COG2820: Uridine phosphorylase [Escherichia coli HS], gi\|157163307\|re... gi\|218354284, gi... - gi\|218697552\|ref\|YP_002405219.1\| uridine phosphorylase [Escherichia coli 55989], gi\|218354284\|emb\|CA... gi\|238902906, gi... - gi\|238902906\|ref\|YP_002928702.1\| uridine phosphorylase [Escherichia coli BW2952], gi\|238863771\|gb\|AC... gi\|75230792, gi\|... - gi\|75230792\|ref\|ZP_00717255.1\| COG2820: Uridine phosphorylase [Escherichia coli B7A], gi\|191166084\|r... gi\|242379370, gi... - gi\|251787097\|ref\|YP_003001401.1\| hypothetical protein B21_03667 [Escherichia coli BL21], gi\|24237937... gi\|89110189, gi\|... - gi\|89110189\|ref\|AP_003969.1\| uridine phosphorylase [Escherichia coli str. K-12 substr. W3110], gi\|85... EG11045 - uridine phosphorylase / Uridine phosphorylase	7.0E-57	[1..253]	[1..253]
gi\|21957137, gi\|... - gi\|22124359\|ref\|NP_667782.1\| uridine phosphorylase [Yersinia pestis KIM], gi\|21957137\|gb\|AAM84033.1\|... gi\|45437882, gi\|... - gi\|45443015\|ref\|NP_994554.1\| uridine phosphorylase [Yersinia pestis biovar Microtus str. 91001], gi\|...	7.0E-56	[1..253]	[16..268]
gi\|16762166 - gi\|16762166\|ref\|NP_457783.1\| uridine phosphorylase [Salmonella enterica subsp. enterica serovar Typh... gi\|62182436, gi\|... - gi\|62182436\|ref\|YP_218853.1\| uridine phosphorylase [Salmonella enterica subsp. enterica serovar Chol... UDP_SALTY - Uridine phosphorylase OS=Salmonella typhimurium GN=udp PE=1 SV=2 gi\|56415822, gi\|... - gi\|56415822\|ref\|YP_152897.1\| uridine phosphorylase [Salmonella enterica subsp. enterica serovar Para... gi\|238912972 - gi\|238912972\|ref\|ZP_04656809.1\| uridine phosphorylase [Salmonella enterica subsp. enterica serovar T... gi\|197288719, gi... - gi\|197288719\|gb\|EDY28094.1\| uridine phosphorylase [Salmonella enterica subsp. enterica serovar Schwa... gi\|168233903, gi... - gi\|205332098\|gb\|EDZ18862.1\| uridine phosphorylase [Salmonella enterica subsp. enterica serovar Kentu... gi\|205328156, gi... - gi\|205328156\|gb\|EDZ14920.1\| uridine phosphorylase [Salmonella enterica subsp. enterica serovar 4,[5]... gi\|205322165, gi... - gi\|205322165\|gb\|EDZ10004.1\| uridine phosphorylase [Salmonella enterica subsp. enterica serovar Saint... gi\|205340964, gi... - gi\|205340964\|gb\|EDZ27728.1\| uridine phosphorylase [Salmonella enterica subsp. enterica serovar Welte... gi\|168467615, gi... - gi\|195629976\|gb\|EDX48636.1\| uridine phosphorylase [Salmonella enterica subsp. enterica serovar Newpo... gi\|168263140, gi... - gi\|205348152\|gb\|EDZ34783.1\| uridine phosphorylase [Salmonella enterica subsp. enterica serovar Hadar... gi\|168244659, gi... - gi\|205336526\|gb\|EDZ23290.1\| uridine phosphorylase [Salmonella enterica subsp. enterica serovar Heide... lcl\|NC_016856.1_... - [gene=udp] [protein=uridine phosphorylase] [protein_id=YP_005240233.1] [location=4188555..4189316] UDP_SALTI - Uridine phosphorylase OS=Salmonella typhi GN=udp PE=3 SV=2 UDP_SALTY - Uridine phosphorylase OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=udp PE=1 SV... gi\|29143655, gi\|... - gi\|29143655\|ref\|NP_806997.1\| uridine phosphorylase [Salmonella enterica subsp. enterica serovar Typh... UDP_SALTI - Uridine phosphorylase OS=Salmonella typhi GN=udp PE=3 SV=2 UDP_SALTY - Uridine phosphorylase OS=Salmonella typhimurium GN=udp PE=1 SV=2 gi\|213052866 - gi\|213052866\|ref\|ZP_03345744.1\| uridine phosphorylase [Salmonella enterica subsp. enterica serovar T... gi\|206710971, gi... - gi\|207859168\|ref\|YP_002245819.1\| uridine phosphorylase [Salmonella enterica subsp. enterica serovar ... gi\|205274254, gi... - gi\|205354473\|ref\|YP_002228274.1\| uridine phosphorylase [Salmonella enterica subsp. enterica serovar ... gi\|199605300, gi... - gi\|200388202\|ref\|ZP_03214814.1\| uridine phosphorylase [Salmonella enterica subsp. enterica serovar V... gi\|214002441 - gi\|214002441\|ref\|ZP_03413176.1\| uridine phosphorylase [Salmonella enterica subsp. enterica serovar T... gi\|213646458 - gi\|213646458\|ref\|ZP_03376511.1\| uridine phosphorylase [Salmonella enterica subsp. enterica serovar T... gi\|213618924 - gi\|213618924\|ref\|ZP_03372750.1\| uridine phosphorylase [Salmonella enterica subsp. enterica serovar T... gi\|213427344 - gi\|213427344\|ref\|ZP_03360094.1\| uridine phosphorylase [Salmonella enterica subsp. enterica serovar T... gi\|194711046, gi... - gi\|194735544\|ref\|YP_002116894.1\| uridine phosphorylase [Salmonella enterica subsp. enterica serovar ... gi\|194471613, gi... - gi\|194471613\|ref\|ZP_03077597.1\| uridine phosphorylase [Salmonella enterica subsp. enterica serovar K... gi\|194451896, gi... - gi\|194451896\|ref\|YP_002047978.1\| uridine phosphorylase [Salmonella enterica subsp. enterica serovar ... gi\|194442435, gi... - gi\|194442435\|ref\|YP_002043197.1\| uridine phosphorylase [Salmonella enterica subsp. enterica serovar ... gi\|197939579, gi... - gi\|198245063\|ref\|YP_002217895.1\| uridine phosphorylase [Salmonella enterica subsp. enterica serovar ... gi\|197096229, gi... - gi\|197364752\|ref\|YP_002144389.1\| uridine phosphorylase [Salmonella enterica subsp. enterica serovar ... gi\|197239990, gi... - gi\|197261735\|ref\|ZP_03161809.1\| uridine phosphorylase [Salmonella enterica subsp. enterica serovar S... gi\|197211632, gi... - gi\|197247929\|ref\|YP_002148894.1\| uridine phosphorylase [Salmonella enterica subsp. enterica serovar ... gi\|224585783, gi... - gi\|224585783\|ref\|YP_002639582.1\| uridine phosphorylase [Salmonella enterica subsp. enterica serovar ...	1.0E-55	[1..253]	[1..253]
UDP_KLEAE - Uridine phosphorylase OS=Klebsiella aerogenes GN=udp PE=3 SV=1 UDP_ENTAE - Uridine phosphorylase OS=Enterobacter aerogenes GN=udp PE=3 SV=1	1.0E-55	[1..253]	[1..253]

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Predicted Domain #1

Region A:
Residues: [1-253]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MAKSDVFHLG LTKNDLQGAT LAIVPGDPQR VEKIAKLMDN PVHLASHREF TSWRAELDGK  60
   61 AVIVCSTGIG GPSTSIAVEE LAQLGVRTFL RIGTTGAIQP HINVGDVLVT TAAVRLDGAS 120
  121 LHFAPMEFPA VADFSCTTAL VNAAKSVGAT THIGITASSD TFYPGQERYD TFSGRVVRHF 180
  181 KGSMEEWQSM GVMNYEMESA TLLTMCASQG LRAGMVAGVI VNRTQQEIPN EETMKATESH 240
  241 AVKIVVEAAR HLL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	58.39794
Match:	1k3fA
Description:	Uridine phosphorylase
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
purine-nucleoside phosphorylase activity	3.68206997938506	bayes_pls_golite062009
transferase activity, transferring glycosyl groups	3.66765825367784	bayes_pls_golite062009
catalytic activity	2.18268586151113	bayes_pls_golite062009
transferase activity, transferring pentosyl groups	2.01261001022129	bayes_pls_golite062009
S-methyl-5-thioadenosine phosphorylase activity	1.6959166270803	bayes_pls_golite062009
transferase activity	1.42022417161912	bayes_pls_golite062009
nucleobase binding	1.33291775180025	bayes_pls_golite062009
nucleoside binding	1.11256863177576	bayes_pls_golite062009
purine binding	1.00226077276304	bayes_pls_golite062009
binding	0.192121943858605	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: