YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|6459851, gi\|1...
Organism:	Deinococcus radiodurans R1
Length:	810 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|6459851, gi|1....

Description	E-value	Query Range	Subject Range
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...	0.0	[1..728]	[4..723]
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], ...	0.0	[4..728]	[1..717]
gi\|606104 - gi\|606104\|gb\|AAA57967.1\| polynucleotide phosphorylase [Escherichia coli] gi\|49176320, gi\|... - gi\|49176320\|ref\|NP_417633.3\| polynucleotide phosphorylase/polyadenylase [Escherichia coli K12], gi\|1... gi\|170082701, gi... - gi\|170082701\|ref\|YP_001732021.1\| polynucleotide phosphorylase/polyadenylase [Escherichia coli str. K... gi\|242378709, gi... - gi\|251786436\|ref\|YP_003000740.1\| hypothetical protein B21_02982 [Escherichia coli BL21], gi\|24237870... gi\|606104\|gb\|AAA... - polynucleotide phosphorylase [Escherichia coli] gi\|253979165, gi... - gi\|254289858\|ref\|YP_003055606.1\| polynucleotide phosphorylase/polyadenylase [Escherichia coli BL21(D... gi\|254163108, gi... - gi\|254163108\|ref\|YP_003046216.1\| polynucleotide phosphorylase/polyadenylase [Escherichia coli B str.... gi\|89109929, gi\|... - gi\|89109929\|ref\|AP_003709.1\| polynucleotide phosphorylase/polyadenylase [Escherichia coli str. K-12 ...	0.0	[4..728]	[1..717]
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...	0.0	[4..728]	[1..717]
gi\|81247007, gi\|... - gi\|82545596\|ref\|YP_409543.1\| polynucleotide phosphorylase/polyadenylase [Shigella boydii Sb227], gi\|...	0.0	[4..728]	[1..717]
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...	0.0	[4..728]	[1..717]
gi\|82778478, gi\|... - gi\|82778478\|ref\|YP_404827.1\| polynucleotide phosphorylase/polyadenylase [Shigella dysenteriae Sd197]...	0.0	[4..728]	[1..717]
gi\|84362396 - gi\|84362396\|ref\|ZP_00987022.1\| COG1185: Polyribonucleotide nucleotidyltransferase (polynucleotide ph...	0.0	[31..740]	[1..711]
gi\|167580418 - gi\|167580418\|ref\|ZP_02373292.1\| polynucleotide phosphorylase/polyadenylase [Burkholderia thailandens... PNP_BURTA - Polyribonucleotide nucleotidyltransferase OS=Burkholderia thailandensis (strain E264 / ATCC 700388 /...	0.0	[29..729]	[1..702]
PNP_CHESB - Polyribonucleotide nucleotidyltransferase OS=Chelativorans sp. (strain BNC1) GN=pnp PE=3 SV=1	0.0	[31..734]	[1..702]

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Predicted Domain #1

Region A:
Residues: [1-810]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MPQLKGRAGA GASAFRWMFL SPEQPQARLP PMIGKTFTTM LGGRELSIET GKLAKLVSGS  60
   61 VTVRYGDTLL LVTAQASDTQ SKLDFLPLTV EFEERHYAVG KIPGSFQRRE GRPGEKAILS 120
  121 ARITDRQIRP LFPKGYRHET QVIITVLSAD GQNAPDVLGP IGAAAALSIS DIPWAGPTAC 180
  181 VRVGQIDGQY VVNPTTEQLT RSRMDLVVAG TREAVMMVEC GAQTVSEDDL VGAIEFAHAE 240
  241 MQGVIALIEQ MRAEVGHEKF NFLAEEGPAN DYVPELTEKA KAAGLRDALL THGKKDRSAR 300
  301 LKALRNGLIE GYVPDPTAEG SAELTQALKD AFGKVEKREL RRLILEENLR ADGRDSKTVR 360
  361 PIWIEARPLP TAHGSAVFTR GETQVLGVTT LGTERDEILI DDLTAESGDK FLLHYNFPPY 420
  421 STGEVKRMGG QSRREIGHGN LAKRAIRAVL PSFEEFPYVI RVVGDVLESN GSSSMGTVCA 480
  481 GTLSLMDAGV PLKAPVAGVA MGLVMEGDNY RVLTDILGLE DALGDMDFKV CGTAEGVTAL 540
  541 QMDIKVGGIT PQIMREALAQ AKEGRLHILG KMAEVLAAPR AELSPTAPHI LSLKINPELI 600
  601 GKVIGPGGKQ VRELEAMGAQ VTIEEDGTVR IFSASGESAE AVKARIEAVT KEAKVGEEFE 660
  661 GTVVKIAPFG AFVNLFPGQD GMLHISQLSE QRVENVEDVL TVGDKLKVKI ANIDDRGKID 720
  721 LIRPELEGKV PLREPRAPRG GDRGPRRDSD RGGDRGPRRE FSDRGPRPEG ARSERPEGQR 780
  781 TERPATAPAT QESSQSSDAP AAPVFPRRED

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	138.0
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
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	1.54417931838494	bayes_pls_golite062009
hydrolase activity	1.18773479836745	bayes_pls_golite062009
transcription termination factor activity	1.01993495617192	bayes_pls_golite062009
catalytic activity	0.878454819018611	bayes_pls_golite062009
ATP-dependent peptidase activity	0.66778558090199	bayes_pls_golite062009
nucleic acid binding	0.666538467028341	bayes_pls_golite062009
mRNA binding	0.6661659753234	bayes_pls_golite062009
transcription regulator activity	0.609202649585287	bayes_pls_golite062009
structural constituent of ribosome	0.59064223556107	bayes_pls_golite062009
carbohydrate kinase activity	0.51810239718467	bayes_pls_golite062009
binding	0.478154009944658	bayes_pls_golite062009
	0.416217645025381	bayes_pls_golite062009
structural molecule activity	0.36020344477758	bayes_pls_golite062009
hydrolase activity, acting on ester bonds	0.348601923227652	bayes_pls_golite062009
nuclease activity	0.262228287184671	bayes_pls_golite062009
DNA binding	0.237793607944966	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: