YRC Public Data Repository - Protein Structure Prediction

Protein:	YDAO_ECOLI
Organism:	Escherichia coli
Length:	311 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

[What does the above image mean?]

[Show Ginzu Version Information]

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 YDAO_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|12515408, gi\|... - gi\|15801821\|ref\|NP_287839.1\| C32 tRNA thiolase [Escherichia coli O157:H7 EDL933], gi\|12515408\|gb\|AAG... gi\|242377120, gi... - gi\|251784847\|ref\|YP_002999151.1\| hypothetical protein B21_01331 [Escherichia coli BL21], gi\|24237712... TTCA_ECO57 - tRNA 2-thiocytidine biosynthesis protein TtcA OS=Escherichia coli O157:H7 GN=ttcA PE=3 SV=1 gi\|253773654, gi... - gi\|254288230\|ref\|YP_003053978.1\| predicted C32 tRNA thiolase [Escherichia coli BL21(DE3)], gi\|253977... gi\|253973324, gi... - gi\|254161423\|ref\|YP_003044531.1\| predicted C32 tRNA thiolase [Escherichia coli B str. REL606], gi\|25... gi\|15831182, gi\|... - gi\|15831182\|ref\|NP_309955.1\| C32 tRNA thiolase [Escherichia coli O157:H7 str. Sakai], gi\|13361393\|db... gi\|194437000, gi... - gi\|83587485\|ref\|ZP_00926113.1\| COG0037: Predicted ATPase of the PP-loop superfamily implicated in ce... TTCA_SHISS - tRNA 2-thiocytidine biosynthesis protein TtcA OS=Shigella sonnei (strain Ss046) GN=ttcA PE=3 SV=1 gi\|189367043, gi... - gi\|189367043\|gb\|EDU85459.1\| protein YdaO [Escherichia coli O157:H7 str. EC4501], gi\|168762635\|ref\|ZP... TTCA_ECOSE - tRNA 2-thiocytidine biosynthesis protein TtcA OS=Escherichia coli (strain SE11) GN=ttcA PE=3 SV=1 gi\|217317600, gi... - gi\|217329161\|ref\|ZP_03445241.1\| C32 tRNA thiolase [Escherichia coli O157:H7 str. TW14588], gi\|217317... gi\|25305883, gi\|... - pir\|\|H90869 hypothetical protein ECs1928 [imported] - Escherichia coli (strain O157:H7, substrain R...	269.0	[0..1]	[311..1]
TTCA_ECOL5 - tRNA 2-thiocytidine biosynthesis protein TtcA OS=Escherichia coli O6:K15:H31 (strain 536 / UPEC) GN=... gi\|27526304 - gi\|27526304\|emb\|CAD42727.1\| YdaO protein [Escherichia coli] gi\|227886219, gi... - gi\|227886219\|ref\|ZP_04004024.1\| PP-loop superfamily ATPase MesJ [Escherichia coli 83972], gi\|2278364... gi\|190908654, gi... - gi\|75242142\|ref\|ZP_00725936.1\| COG0037: Predicted ATPase of the PP-loop superfamily implicated in ce... TTCA_ECOL6 - tRNA 2-thiocytidine biosynthesis protein TtcA OS=Escherichia coli O6 GN=ttcA PE=3 SV=1 TTCA_ECOL6 - tRNA 2-thiocytidine biosynthesis protein TtcA OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928... TTCA_ECO81 - tRNA 2-thiocytidine biosynthesis protein TtcA OS=Escherichia coli O81 (strain ED1a) GN=ttcA PE=3 SV=...	269.0	[0..1]	[311..1]
gi\|83569429, gi\|... - gi\|83569429\|ref\|ZP_00920882.1\| COG0037: Predicted ATPase of the PP-loop superfamily implicated in ce...	269.0	[0..1]	[311..1]
TTCA_ECOUT - tRNA 2-thiocytidine biosynthesis protein TtcA OS=Escherichia coli (strain UTI89 / UPEC) GN=ttcA PE=3... gi\|237705374, gi... - gi\|237705374\|ref\|ZP_04535855.1\| tRNA 2-thiocytidine biosynthesis protein ttcA [Escherichia sp. 3_2_5... TTCA_ECO45 - tRNA 2-thiocytidine biosynthesis protein TtcA OS=Escherichia coli O45:K1 (strain S88 / ExPEC) GN=ttc...	268.0	[0..1]	[311..1]
TTCA_SHIDS - tRNA 2-thiocytidine biosynthesis protein TtcA OS=Shigella dysenteriae serotype 1 (strain Sd197) GN=t...	267.0	[0..1]	[311..1]
gi\|121486021 - gi\|121486021\|gb\|ABM54890.1\| ATPase [Escherichia coli] gi\|208815195, gi... - gi\|208815195\|ref\|ZP_03256374.1\| PP-loop family protein [Escherichia coli O157:H7 str. EC4045], gi\|20... gi\|124527902, gi... - gi\|124527902\|ref\|ZP_01699291.1\| PP-loop domain protein [Escherichia coli B], gi\|124501066\|gb\|EAY4853... gi\|208740261, gi... - gi\|208820138\|ref\|ZP_03260458.1\| PP-loop family protein [Escherichia coli O157:H7 str. EC4042], gi\|20... gi\|195938013 - gi\|195938013\|ref\|ZP_03083395.1\| C32 tRNA thiolase [Escherichia coli O157:H7 str. EC4024] gi\|208810905, gi... - gi\|208810905\|ref\|ZP_03252738.1\| PP-loop family protein [Escherichia coli O157:H7 str. EC4206], gi\|20... TTCA_ECOLU - tRNA 2-thiocytidine biosynthesis protein TtcA OS=Escherichia coli O17:K52:H18 (strain UMN026 / ExPEC... gi\|254592339, gi... - gi\|254792939\|ref\|YP_003077776.1\| putative tRNA 2-thiocytidine (s(2)C32) synthase [Escherichia coli O... TTCA_ECO5E - tRNA 2-thiocytidine biosynthesis protein TtcA OS=Escherichia coli O157:H7 (strain EC4115 / EHEC) GN=... TTCA_ECO8A - tRNA 2-thiocytidine biosynthesis protein TtcA OS=Escherichia coli O8 (strain IAI1) GN=ttcA PE=3 SV=1 gi\|189356826, gi... - gi\|189356826\|gb\|EDU75245.1\| PP-loop family protein [Escherichia coli O157:H7 str. EC4401], gi\|168756... gi\|189361597, gi... - gi\|189361597\|gb\|EDU80016.1\| PP-loop family protein [Escherichia coli O157:H7 str. EC4486], gi\|168769... gi\|188016561, gi... - gi\|188016561\|gb\|EDU54683.1\| PP-loop family protein [Escherichia coli O157:H7 str. EC4113], gi\|168749... gi\|168788326, gi... - gi\|189371828\|gb\|EDU90244.1\| PP-loop family protein [Escherichia coli O157:H7 str. EC869], gi\|1687883... gi\|189377987, gi... - gi\|189377987\|gb\|EDU96403.1\| PP-loop family protein [Escherichia coli O157:H7 str. EC508], gi\|1687996... gi\|168775173, gi... - gi\|187769348\|gb\|EDU33192.1\| PP-loop family protein [Escherichia coli O157:H7 str. EC4196], gi\|168775... gi\|168782878, gi... - gi\|188999726\|gb\|EDU68712.1\| PP-loop family protein [Escherichia coli O157:H7 str. EC4076], gi\|168782... TTCA_ECOLC - tRNA 2-thiocytidine biosynthesis protein TtcA OS=Escherichia coli (strain ATCC 8739 / DSM 1576 / Cro... gi\|75515035, gi\|... - gi\|75515035\|ref\|ZP_00737239.1\| COG0037: Predicted ATPase of the PP-loop superfamily implicated in ce... gi\|192959518, gi... - gi\|75239993\|ref\|ZP_00723954.1\| COG0037: Predicted ATPase of the PP-loop superfamily implicated in ce... gi\|191165079, gi... - gi\|75231857\|ref\|ZP_00718198.1\| COG0037: Predicted ATPase of the PP-loop superfamily implicated in ce... gi\|194426010, gi... - gi\|75212785\|ref\|ZP_00712783.1\| COG0037: Predicted ATPase of the PP-loop superfamily implicated in ce... TTCA_ECOHS - tRNA 2-thiocytidine biosynthesis protein TtcA OS=Escherichia coli O9:H4 (strain HS) GN=ttcA PE=3 SV=... TTCA_ECO24 - tRNA 2-thiocytidine biosynthesis protein TtcA OS=Escherichia coli O139:H28 (strain E24377A / ETEC) G...	267.0	[0..1]	[311..1]
TTCA_SHIB3 - tRNA 2-thiocytidine biosynthesis protein TtcA OS=Shigella boydii serotype 18 (strain CDC 3083-94 / B...	267.0	[0..1]	[311..1]
TTCA_SHIBS - tRNA 2-thiocytidine biosynthesis protein TtcA OS=Shigella boydii serotype 4 (strain Sb227) GN=ttcA P...	266.0	[0..1]	[311..1]
gi\|197264456, gi... - gi\|197264456\|ref\|ZP_03164530.1\| YdaO [Salmonella enterica subsp. enterica serovar Saintpaul str. SAR... TTCA_SALTY - tRNA 2-thiocytidine biosynthesis protein TtcA OS=Salmonella typhimurium GN=ttcA PE=1 SV=1 gi\|205350986, gi... - gi\|205350986\|gb\|EDZ37617.1\| YdaO [Salmonella enterica subsp. enterica serovar Hadar str. RI_05P066],... TTCA_SALA4 - tRNA 2-thiocytidine biosynthesis protein TtcA OS=Salmonella agona (strain SL483) GN=ttcA PE=3 SV=1 gi\|205324962, gi... - gi\|205324962\|gb\|EDZ12801.1\| YdaO [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA29]... TTCA_SALTY - tRNA 2-thiocytidine biosynthesis protein TtcA OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATC... TTCA_SALTY - tRNA 2-thiocytidine biosynthesis protein ttcA OS=Salmonella typhimurium GN=ttcA PE=1 SV=1	265.0	[0..1]	[311..1]
TTCA_SHIFL - tRNA 2-thiocytidine biosynthesis protein TtcA OS=Shigella flexneri GN=ttcA PE=3 SV=1 gi\|24113173, gi\|... - gi\|24113173\|ref\|NP_707683.1\| C32 tRNA thiolase [Shigella flexneri 2a str. 301], gi\|24052163\|gb\|AAN43... gi\|30041115, gi\|... - gi\|30062867\|ref\|NP_837038.1\| C32 tRNA thiolase [Shigella flexneri 2a str. 2457T], gi\|30041115\|gb\|AAP... TTCA_SHIF8 - tRNA 2-thiocytidine biosynthesis protein TtcA OS=Shigella flexneri serotype 5b (strain 8401) GN=ttcA...	265.0	[0..1]	[311..1]

Back

Predicted Domain #1

Region A:
Residues: [1-311]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MQENQQITKK EQYNLNKLQK RLRRNVGEAI ADFNMIEEGD RIMVCLSGGK DSYTMLEILR  60
   61 NLQQSAPINF SLVAVNLDQK QPGFPEHVLP EYLEKLGVEY KIVEENTYGI VKEKIPEGKT 120
  121 TCSLCSRLRR GILYRTATEL GATKIALGHH RDDILQTLFL NMFYGGKMKG MPPKLMSDDG 180
  181 KHIVIRPLAY CREKDIQRFA DAKAFPIIPC NLCGSQPNLQ RQVIADMLRD WDKRYPGRIE 240
  241 TMFSAMQNVV PSHLCDTNLF DFKGITHGSE VVNGGDLAFD REEIPLQPAC WQPEEDENQL 300
  301 DELRLNVVEV K

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	46.09691
Match:	1gpmA
Description:	GMP synthetase; GMP synthetase, central domain; GMP synthetase C-terminal dimerisation domain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
ligase activity	3.1231826863016	bayes_pls_golite062009
catalytic activity	0.828867994386867	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: