YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|254163108, gi...
Organism:	Escherichia coli B str. REL606
Length:	734 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|254163108, gi....

Description	E-value	Query Range	Subject Range
gi\|13363518, gi\|... - gi\|15833299\|ref\|NP_312072.1\| polynucleotide phosphorylase [Escherichia coli O157:H7], gi\|13363518\|db... gi\|74313701, gi\|... - gi\|74313701\|ref\|YP_312120.1\| polynucleotide phosphorylase/polyadenylase [Shigella sonnei Ss046], gi\|... gi\|209920641, gi... - gi\|209920641\|ref\|YP_002294725.1\| polynucleotide phosphorylase/polyadenylase [Escherichia coli SE11],... gi\|209758380, gi... - pir\|\|H85979 polynucleotide phosphorylase [imported] - Escherichia coli (strain O157:H7, substrain E... gi\|218353603, gi... - gi\|218696871\|ref\|YP_002404538.1\| polynucleotide phosphorylase/polyadenylase [Escherichia coli 55989]... gi\|218701935, gi... - gi\|218701935\|ref\|YP_002409564.1\| polynucleotide phosphorylase/polyadenylase [Escherichia coli IAI39]... gi\|12517775, gi\|... - gi\|15803706\|ref\|NP_289740.1\| polynucleotide phosphorylase/polyadenylase [Escherichia coli O157:H7 ED... gi\|13363518, gi\|... - gi\|15833299\|ref\|NP_312072.1\| polynucleotide phosphorylase/polyadenylase [Escherichia coli O157:H7 st...	726.0	[0..1]	[717..1]
gi\|218429020, gi... - gi\|218691456\|ref\|YP_002399668.1\| polynucleotide phosphorylase/polyadenylase [Escherichia coli ED1a],... gi\|227887888, gi... - gi\|227887888\|ref\|ZP_04005693.1\| polynucleotide phosphorylase/polyadenylase [Escherichia coli 83972],... gi\|117625460, gi... - gi\|117625460\|ref\|YP_858783.1\| polynucleotide phosphorylase/polyadenylase [Escherichia coli APEC O1],... gi\|110643405, gi... - gi\|110643405\|ref\|YP_671135.1\| polynucleotide phosphorylase/polyadenylase [Escherichia coli 536], gi\|... gi\|218367005, gi... - gi\|218560236\|ref\|YP_002393149.1\| polynucleotide phosphorylase/polyadenylase [Escherichia coli S88], ...	725.0	[0..1]	[717..1]
gi\|81247007, gi\|... - gi\|82545596\|ref\|YP_409543.1\| polynucleotide phosphorylase/polyadenylase [Shigella boydii Sb227], gi\|...	725.0	[0..1]	[717..1]
gi\|91212585, gi\|... - gi\|91212585\|ref\|YP_542571.1\| polynucleotide phosphorylase/polyadenylase [Escherichia coli UTI89], gi... gi\|26110175, gi\|... - gi\|26249747\|ref\|NP_755787.1\| polynucleotide phosphorylase/polyadenylase [Escherichia coli CFT073], g...	725.0	[0..1]	[717..7]
gi\|30042763, gi\|... - gi\|30064504\|ref\|NP_838675.1\| polynucleotide phosphorylase/polyadenylase [Shigella flexneri 2a str. 2... gi\|56383829, gi\|... - gi\|56480278\|ref\|NP_708965.2\| polynucleotide phosphorylase/polyadenylase [Shigella flexneri 2a str. 3...	724.0	[0..1]	[717..1]
gi\|82778478, gi\|... - gi\|82778478\|ref\|YP_404827.1\| polynucleotide phosphorylase/polyadenylase [Shigella dysenteriae Sd197]...	723.0	[0..1]	[717..1]
gi\|78701235, gi\|... - gi\|78701235\|ref\|ZP_00865687.1\| Polyribonucleotide nucleotidyltransferase [Alkalilimnicola ehrlichei ...	712.0	[0..3]	[719..2]
EG10743 - polynucleotide phosphorylase /polyadenylase / Polynucleotide phosphorylase; exoribonuclease; PNPase c... EG10743 - polynucleotide phosphorylase /polyadenylase / Polynucleotide phosphorylase; exoribonuclease; PNPase c... gi\|194422295, gi... - gi\|83585805\|ref\|ZP_00924446.1\| COG1185: Polyribonucleotide nucleotidyltransferase (polynucleotide ph... PNP_ECOBW - Polyribonucleotide nucleotidyltransferase OS=Escherichia coli (strain K12 / MC4100 / BW2952) GN=pnp ... PNP_ECOHS - Polyribonucleotide nucleotidyltransferase OS=Escherichia coli O9:H4 (strain HS) GN=pnp PE=3 SV=1 gi\|253323044, gi... - gi\|253772000\|ref\|YP_003034831.1\| Polyribonucleotide nucleotidyltransferase [Escherichia coli BL21(DE... gi\|254038330, gi... - gi\|254038330\|ref\|ZP_04872388.1\| polynucleotide phosphorylase/polyadenylase [Escherichia sp. 1_1_43],... PNP_ECOLI - Polyribonucleotide nucleotidyltransferase (EC 2.7.7.8) (Polynucleotide phosphorylase) (PNPase) - Esc... PNP_ECODH - Polyribonucleotide nucleotidyltransferase OS=Escherichia coli (strain K12 / DH10B) GN=pnp PE=3 SV=2	706.0	[0..24]	[717..1]
gi\|188495596, gi... - gi\|75513379\|ref\|ZP_00735803.1\| COG1185: Polyribonucleotide nucleotidyltransferase (polynucleotide ph... gi\|193061952, gi... - gi\|75260094\|ref\|ZP_00731372.1\| COG1185: Polyribonucleotide nucleotidyltransferase (polynucleotide ph... gi\|75211115, gi\|... - gi\|75211115\|ref\|ZP_00711228.1\| COG1185: Polyribonucleotide nucleotidyltransferase (polynucleotide ph... PNP_ECO24 - Polyribonucleotide nucleotidyltransferase OS=Escherichia coli O139:H28 (strain E24377A / ETEC) GN=pn... gi\|187775793, gi... - gi\|187775793\|ref\|ZP_02798176.2\| polyribonucleotide nucleotidyltransferase [Escherichia coli O157:H7 ... gi\|189358585, gi... - gi\|189401923\|ref\|ZP_02779152.2\| polyribonucleotide nucleotidyltransferase [Escherichia coli O157:H7 ... gi\|189361407, gi... - gi\|189403294\|ref\|ZP_02794589.2\| polyribonucleotide nucleotidyltransferase [Escherichia coli O157:H7 ... gi\|188024828, gi... - gi\|188024828\|ref\|ZP_02774262.2\| polyribonucleotide nucleotidyltransferase [Escherichia coli O157:H7 ... gi\|189010332, gi... - gi\|189010332\|ref\|ZP_02806314.2\| polyribonucleotide nucleotidyltransferase [Escherichia coli O157:H7 ... PNP_ECO55 - Polyribonucleotide nucleotidyltransferase OS=Escherichia coli (strain 55989 / EAEC) GN=pnp PE=3 SV=2 PNP_ECO57 - Polyribonucleotide nucleotidyltransferase OS=Escherichia coli O157:H7 GN=pnp PE=3 SV=2 PNP_ECO7I - Polyribonucleotide nucleotidyltransferase OS=Escherichia coli O7:K1 (strain IAI39 / ExPEC) GN=pnp PE... PNP_ECO5E - Polyribonucleotide nucleotidyltransferase OS=Escherichia coli O157:H7 (strain EC4115 / EHEC) GN=pnp ... PNP_ECOSE - Polyribonucleotide nucleotidyltransferase OS=Escherichia coli (strain SE11) GN=pnp PE=3 SV=2 gi\|217319969, gi... - gi\|217327602\|ref\|ZP_03443685.1\| polyribonucleotide nucleotidyltransferase [Escherichia coli O157:H7 ... PNP_SHISS - Polyribonucleotide nucleotidyltransferase OS=Shigella sonnei (strain Ss046) GN=pnp PE=3 SV=2 gi\|254594515, gi... - gi\|254795115\|ref\|YP_003079952.1\| polynucleotide phosphorylase/polyadenylase [Escherichia coli O157:H... gi\|189405568, gi... - gi\|189405568\|ref\|ZP_02822772.2\| polyribonucleotide nucleotidyltransferase [Escherichia coli O157:H7 ... gi\|194417987, gi... - gi\|194433724\|ref\|ZP_03065999.1\| polyribonucleotide nucleotidyltransferase [Shigella dysenteriae 1012... gi\|189367622, gi... - gi\|189404087\|ref\|ZP_02787137.2\| polyribonucleotide nucleotidyltransferase [Escherichia coli O157:H7 ... gi\|189374178, gi... - gi\|189404797\|ref\|ZP_02811056.2\| polyribonucleotide nucleotidyltransferase [Escherichia coli O157:H7 ... gi\|208734172, gi... - gi\|208812895\|ref\|ZP_03254224.1\| polyribonucleotide nucleotidyltransferase [Escherichia coli O157:H7 ... gi\|208818367, gi... - gi\|208818367\|ref\|ZP_03258687.1\| polyribonucleotide nucleotidyltransferase [Escherichia coli O157:H7 ... gi\|195938384 - gi\|195938384\|ref\|ZP_03083766.1\| polynucleotide phosphorylase/polyadenylase [Escherichia coli O157:H7... gi\|208729396, gi... - gi\|208809595\|ref\|ZP_03251932.1\| polyribonucleotide nucleotidyltransferase [Escherichia coli O157:H7 ...	706.0	[0..24]	[717..1]
PNP_ECOL6 - Polyribonucleotide nucleotidyltransferase OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / U... PNP_ECOSM - Polyribonucleotide nucleotidyltransferase OS=Escherichia coli (strain SMS-3-5 / SECEC) GN=pnp PE=3 S... PNP_ECOUT - Polyribonucleotide nucleotidyltransferase OS=Escherichia coli (strain UTI89 / UPEC) GN=pnp PE=3 SV=2 gi\|237706083, gi... - gi\|237706083\|ref\|ZP_04536564.1\| polynucleotide phosphorylase/polyadenylase [Escherichia sp. 3_2_53FA... gi\|191172253, gi... - gi\|75240811\|ref\|ZP_00724709.1\| COG1185: Polyribonucleotide nucleotidyltransferase (polynucleotide ph... PNP_ECOL6 - Polyribonucleotide nucleotidyltransferase OS=Escherichia coli O6 GN=pnp PE=3 SV=2 PNP_ECOL5 - Polyribonucleotide nucleotidyltransferase OS=Escherichia coli O6:K15:H31 (strain 536 / UPEC) GN=pnp ... PNP_ECOK1 - Polyribonucleotide nucleotidyltransferase OS=Escherichia coli O1:K1 / APEC GN=pnp PE=3 SV=2 PNP_ECO45 - Polyribonucleotide nucleotidyltransferase OS=Escherichia coli O45:K1 (strain S88 / ExPEC) GN=pnp PE=... PNP_ECOLU - Polyribonucleotide nucleotidyltransferase OS=Escherichia coli O17:K52:H18 (strain UMN026 / ExPEC) GN... PNP_ECO81 - Polyribonucleotide nucleotidyltransferase OS=Escherichia coli O81 (strain ED1a) GN=pnp PE=3 SV=2	706.0	[0..24]	[717..1]

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Predicted Domain #1

Region A:
Residues: [1-734]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MRRRSGINTS AVRYCLRKRK DITLLNPIVR KFQYGQHTVT LETGMMARQA TAAVMVSMDD  60
   61 TAVFVTVVGQ KKAKPGQDFF PLTVNYQERT YAAGRIPGSF FRREGRPSEG ETLIARLIDR 120
  121 PIRPLFPEGF VNEVQVIATV VSVNPQVNPD IVAMIGASAA LSLSGIPFNG PIGAARVGYI 180
  181 NDQYVLNPTQ DELKESKLDL VVAGTEAAVL MVESEAQLLS EDQMLGAVVF GHEQQQVVIQ 240
  241 NINELVKEAG KPRWDWQPEP VNEALNARVA ALAEARLSDA YRITDKQERY AQVDVIKSET 300
  301 IATLLAEDET LDENELGEIL HAIEKNVVRS RVLAGEPRID GREKDMIRGL DVRTGVLPRT 360
  361 HGSALFTRGE TQALVTATLG TARDAQVLDE LMGERTDTFL FHYNFPPYSV GETGMVGSPK 420
  421 RREIGHGRLA KRGVLAVMPD MDKFPYTVRV VSEITESNGS SSMASVCGAS LALMDAGVPI 480
  481 KAAVAGIAMG LVKEGDNYVV LSDILGDEDH LGDMDFKVAG SRDGISALQM DIKIEGITKE 540
  541 IMQVALNQAK GARLHILGVM EQAINAPRGD ISEFAPRIHT IKINPDKIKD VIGKGGSVIR 600
  601 ALTEETGTTI EIEDDGTVKI AATDGEKAKH AIRRIEEITA EIEVGRVYTG KVTRIVDFGA 660
  661 FVAIGGGKEG LVHISQIADK RVEKVTDYLQ MGQEVPVKVL EVDRQGRIRL SIKEATEQSQ 720
  721 PAAAPEAPAA EQGE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	150.0
Match:	1e3hA
Description:	Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3; Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domains 1 and 4; Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 6; Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domains 2 and 5
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
ribonuclease activity	3.62650207668685	bayes_pls_golite062009
transcription regulator activity	2.64513435028798	bayes_pls_golite062009
exoribonuclease activity	2.49584565422948	bayes_pls_golite062009
3'-5'-exoribonuclease activity	2.48625785660839	bayes_pls_golite062009
exoribonuclease activity, producing 5'-phosphomonoesters	2.46667410843173	bayes_pls_golite062009
RNA binding	1.96263727771326	bayes_pls_golite062009
nucleic acid binding	1.06121115244578	bayes_pls_golite062009
transcription termination factor activity	1.01993495617192	bayes_pls_golite062009
binding	0.953779727473657	bayes_pls_golite062009
structural constituent of ribosome	0.82905129800799	bayes_pls_golite062009
ATP-dependent peptidase activity	0.66778558090199	bayes_pls_golite062009
structural molecule activity	0.61730676636766	bayes_pls_golite062009
carbohydrate kinase activity	0.51810239718467	bayes_pls_golite062009
DNA binding	0.42372608430605	bayes_pls_golite062009
	0.416217645025381	bayes_pls_golite062009
hydrolase activity	0.355379071501158	bayes_pls_golite062009
catalytic activity	0.10089766806364	bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups	0.0287026367466632	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: