YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24054314, gi\|...
Organism:	Shigella flexneri 2a str. 301
Length:	143 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|24054314, gi|....

Description	E-value	Query Range	Subject Range
gi\|74314269, gi\|... - gi\|74314269\|ref\|YP_312688.1\| D-ribose pyranase [Shigella sonnei Ss046], gi\|73857746\|gb\|AAZ90453.1\| D... gi\|194425465, gi... - gi\|83588387\|ref\|ZP_00927011.1\| COG1869: ABC-type ribose transport system, auxiliary component [Esche...	212.0	[0..1]	[143..9]
gi\|75214832, gi\|... - gi\|75214832\|ref\|ZP_00713317.1\| COG1869: ABC-type ribose transport system, auxiliary component [Esche...	211.0	[0..1]	[143..9]
gi\|254038967, gi... - gi\|254038967\|ref\|ZP_04873019.1\| RbsP [Escherichia sp. 1_1_43], gi\|226838932\|gb\|EEH70959.1\| RbsP [Esc... gi\|290598, gi\|74... - pir\|\|E65178 high affinity ribose transport protein rbsD - Escherichia coli (strain K-12), gi\|290598... gi\|16131616, gi\|... - gb\|AAC76771.1\| D-ribose high-affinity transport system; membrane-associated protein; membrane-associ...	211.0	[0..1]	[143..9]
gi\|26110924, gi\|... - gi\|26250494\|ref\|NP_756534.1\| D-ribose pyranase [Escherichia coli CFT073], gi\|26110924\|gb\|AAN83108.1\|... gi\|227839248, gi... - gi\|227883970\|ref\|ZP_04001775.1\| D-ribose pyranase [Escherichia coli 83972], gi\|227839248\|gb\|EEJ49714...	210.0	[0..1]	[143..1]
gi\|110644089, gi... - gi\|110644089\|ref\|YP_671819.1\| D-ribose pyranase [Escherichia coli 536], gi\|110345681\|gb\|ABG71918.1\| ... gi\|75242464, gi\|... - gi\|75242464\|ref\|ZP_00726208.1\| COG1869: ABC-type ribose transport system, auxiliary component [Esche...	210.0	[0..1]	[143..1]
gi\|91213275, gi\|... - gi\|91213275\|ref\|YP_543261.1\| D-ribose pyranase [Escherichia coli UTI89], gi\|91074849\|gb\|ABE09730.1\| ... gi\|226902813, gi... - gi\|237703549\|ref\|ZP_04534030.1\| high affinity ribose transporter RbsD [Escherichia sp. 3_2_53FAA], g... gi\|115515143, gi... - gi\|117626019\|ref\|YP_859342.1\| D-ribose pyranase [Escherichia coli APEC O1], gi\|115515143\|gb\|ABJ03218...	210.0	[0..1]	[143..1]
gi\|208812993, gi... - gi\|208812993\|ref\|ZP_03254322.1\| cytoplasmic D-ribose-binding protein RbsD [Escherichia coli O157:H7 ... gi\|217320525, gi... - gi\|217324304\|ref\|ZP_03440388.1\| cytoplasmic D-ribose-binding protein RbsD [Escherichia coli O157:H7 ... gi\|189404855, gi... - gi\|189404855\|ref\|ZP_02811598.2\| cytoplasmic D-ribose-binding protein RbsD [Escherichia coli O157:H7 ... gi\|189376779, gi... - gi\|189406046\|ref\|ZP_02825980.2\| cytoplasmic D-ribose-binding protein RbsD [Escherichia coli O157:H7 ... gi\|189403094, gi... - gi\|189403094\|ref\|ZP_02793041.2\| cytoplasmic D-ribose-binding protein RbsD [Escherichia coli O157:H7 ... gi\|189365072, gi... - gi\|189404523\|ref\|ZP_02790061.2\| cytoplasmic D-ribose-binding protein RbsD [Escherichia coli O157:H7 ... gi\|209753730, gi... - pir\|\|C86061 hypothetical protein rbsD [imported] - Escherichia coli (strain O157:H7, substrain EDL9... gi\|187776462, gi... - gi\|187776462\|ref\|ZP_02802893.2\| cytoplasmic D-ribose-binding protein RbsD [Escherichia coli O157:H7 ... gi\|189358826, gi... - gi\|189401792\|ref\|ZP_02778657.2\| cytoplasmic D-ribose-binding protein RbsD [Escherichia coli O157:H7 ... gi\|15804348, gi\|... - gi\|15804348\|ref\|NP_290387.1\| D-ribose pyranase [Escherichia coli O157:H7 EDL933], gi\|12518608\|gb\|AAG...	209.0	[0..1]	[143..1]
gi\|75227517 - gi\|75227517\|ref\|ZP_00714278.1\| COG1869: ABC-type ribose transport system, auxiliary component [Esche... gi\|75188506 - gi\|75188506\|ref\|ZP_00701773.1\| COG1869: ABC-type ribose transport system, auxiliary component [Esche...	209.0	[0..1]	[143..1]
gi\|77973817, gi\|... - gi\|77973817\|ref\|ZP_00829362.1\| COG1869: ABC-type ribose transport system, auxiliary component [Yersi...	205.0	[0..5]	[143..1]
RBSD_ECOHS - D-ribose pyranase OS=Escherichia coli O9:H4 (strain HS) GN=rbsD PE=3 SV=1 RBSD_ECOSM - D-ribose pyranase OS=Escherichia coli (strain SMS-3-5 / SECEC) GN=rbsD PE=3 SV=2 RBSD_ECOLU - D-ribose pyranase OS=Escherichia coli O17:K52:H18 (strain UMN026 / ExPEC) GN=rbsD PE=3 SV=1 RBSD_ECOLC - D-ribose pyranase OS=Escherichia coli (strain ATCC 8739 / DSM 1576 / Crooks) GN=rbsD PE=3 SV=1 RBSD_ECO55 - D-ribose pyranase OS=Escherichia coli (strain 55989 / EAEC) GN=rbsD PE=3 SV=1 RBSD_ECO7I - D-ribose pyranase OS=Escherichia coli O7:K1 (strain IAI39 / ExPEC) GN=rbsD PE=3 SV=1 RBSD_SHIBS - D-ribose pyranase OS=Shigella boydii serotype 4 (strain Sb227) GN=rbsD PE=3 SV=1 gi\|193063874, gi... - gi\|193063874\|ref\|ZP_03044961.1\| cytoplasmic D-ribose-binding protein RbsD [Escherichia coli E22], gi... gi\|56383975, gi\|... - gi\|56480424\|ref\|NP_709562.2\| D-ribose pyranase [Shigella flexneri 2a str. 301], gi\|56383975\|gb\|AAN45... RBSD_ESCF3 - D-ribose pyranase OS=Escherichia fergusonii (strain ATCC 35469 / DSM 13698 / CDC 0568-73) GN=rbsD PE... RBSD_SHIB3 - D-ribose pyranase OS=Shigella boydii serotype 18 (strain CDC 3083-94 / BS512) GN=rbsD PE=3 SV=1 gi\|188491603, gi... - gi\|188496404\|ref\|ZP_03003674.1\| cytoplasmic D-ribose-binding protein RbsD [Escherichia coli 53638], ... gi\|253975602, gi... - gi\|254163701\|ref\|YP_003046809.1\| predicted cytoplasmic sugar-binding protein [Escherichia coli B str... gi\|30043207, gi\|... - gi\|30064946\|ref\|NP_839117.1\| D-ribose pyranase [Shigella flexneri 2a str. 2457T], gi\|30043207\|gb\|AAP... gi\|124499443, gi... - gi\|124530038\|ref\|ZP_01700821.1\| RbsD or FucU transport [Escherichia coli B], gi\|124499443\|gb\|EAY4693... RBSD_SHISS - D-ribose pyranase OS=Shigella sonnei (strain Ss046) GN=rbsD PE=3 SV=2 RBSD_SHIFL - D-ribose pyranase OS=Shigella flexneri GN=rbsD PE=3 SV=4 RBSD_SHIF8 - D-ribose pyranase OS=Shigella flexneri serotype 5b (strain 8401) GN=rbsD PE=3 SV=1	205.0	[0..5]	[143..1]

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Predicted Domain #1

Region A:
Residues: [1-143]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MEKKMKKGTV LNSDISSVIS RLGHTDTLVV CDAGLPIPKS TTRIDMALTQ GVPSFMQVLG  60
   61 VVTNEMQVEA AIIAEEIKQH NPQLHETLLT HLEQLQKHQG NTIEIRYTTH EQFKQQTAES 120
  121 QAVIRSGECS PYANIILCAG VTF

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	41.522879
Match:	1ogcA
Description:	The Structure of Bacillus subtilis RbsD complexed with D-ribose
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
pentose transmembrane transporter activity	6.2485042058013	bayes_pls_golite062009
D-ribose transmembrane transporter activity	6.2485042058013	bayes_pls_golite062009
D-ribose-importing ATPase activity	6.2485042058013	bayes_pls_golite062009
monosaccharide-transporting ATPase activity	6.16163580465116	bayes_pls_golite062009
carbohydrate transmembrane transporter activity	3.61697726040789	bayes_pls_golite062009
monosaccharide transmembrane transporter activity	3.59380400317869	bayes_pls_golite062009
sugar transmembrane transporter activity	3.23077986789563	bayes_pls_golite062009
carbohydrate-transporting ATPase activity	2.96143396897618	bayes_pls_golite062009
carbohydrate-importing ATPase activity	2.94131146279507	bayes_pls_golite062009
catalytic activity	1.27293510281823	bayes_pls_golite062009
transporter activity	1.01746735264675	bayes_pls_golite062009
transmembrane transporter activity	0.87756239772218	bayes_pls_golite062009
active transmembrane transporter activity	0.72784177997322	bayes_pls_golite062009
P-P-bond-hydrolysis-driven transmembrane transporter activity	0.66323199697211	bayes_pls_golite062009
primary active transmembrane transporter activity	0.65947047335315	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances	0.65175782581698	bayes_pls_golite062009
ATPase activity, coupled to movement of substances	0.65175782581698	bayes_pls_golite062009
ATPase activity, coupled to transmembrane movement of substances	0.65128875691509	bayes_pls_golite062009
substrate-specific transporter activity	0.58773761631758	bayes_pls_golite062009
substrate-specific transmembrane transporter activity	0.45644371872865	bayes_pls_golite062009
ATPase activity, coupled	0.39893464292583	bayes_pls_golite062009
hydrolase activity	0.39195211650109	bayes_pls_golite062009
nucleoside-triphosphatase activity	0.30534945021792	bayes_pls_golite062009
ATPase activity	0.29975321704305	bayes_pls_golite062009
pyrophosphatase activity	0.27836523364225	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides	0.27156652952534	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	0.27078585439886	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: