YRC Public Data Repository - Protein Structure Prediction

Protein:	RR12_ATRBE
Organism:	Atropa belladonna
Length:	123 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 RR12_ATRBE.

Description	E-value	Query Range	Subject Range
gi\|71730663, gi\|... - gi\|71899534\|ref\|ZP_00681690.1\| Ribosomal protein S12, bacterial and chloroplast form [Xylella fastid...	194.0	[0..1]	[123..42]
gi\|74275829, gi\|... - gi\|75437463\|ref\|ZP_00733433.1\| 30S ribosomal protein S12 [Actinobacillus succinogenes 130Z], gi\|7427...	194.0	[0..1]	[123..19]
gi\|69216533 - gi\|69216533\|gb\|AAZ03932.1\| ribosomal protein S12 [Ginkgo biloba]	191.0	[0..1]	[123..1]
gi\|24114606, gi\|... - ref\|NP_709116.1\| 30S ribosomal subunit protein S12 [Shigella flexneri 2a str. 301], gb\|AAN44823.1\| ... gi\|26249940, gi\|... - gi\|26249940\|ref\|NP_755980.1\| 30S ribosomal protein S12 [Escherichia coli CFT073], gi\|26110368\|gb\|AAN... gi\|226902337, gi... - gi\|237703073\|ref\|ZP_04533554.1\| 30S ribosomal subunit protein S12 [Escherichia sp. 3_2_53FAA], gi\|22... gi\|254038504, gi... - gi\|254038504\|ref\|ZP_04872560.1\| 30S ribosomal subunit protein S12 [Escherichia sp. 1_1_43], gi\|22683... gi\|91074392, gi\|... - gi\|91212818\|ref\|YP_542804.1\| 30S ribosomal subunit protein S12 [Escherichia coli UTI89], gi\|91074392...	190.0	[0..1]	[123..21]
gi\|56313632, gi\|... - gi\|56477589\|ref\|YP_159178.1\| 30S ribosomal protein S12 [Azoarcus sp. EbN1], gi\|56313632\|emb\|CAI08277...	190.0	[0..1]	[123..13]
RS12_SODGM - 30S ribosomal protein S12 OS=Sodalis glossinidius (strain morsitans) GN=rpsL PE=3 SV=1	190.0	[0..1]	[123..1]
RS12_VIBCB - 30S ribosomal protein S12 OS=Vibrio campbellii (strain ATCC BAA-1116 / BB120) GN=rpsL PE=3 SV=1 gi\|163802784, gi... - gi\|163802784\|ref\|ZP_02196674.1\| 30S ribosomal protein S12 [Vibrio campbellii AND4], gi\|159173491\|gb\|... RS12_VIBPA - 30S ribosomal protein S12 OS=Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633) GN=rpsL PE... gi\|90437894, gi\|... - gi\|90580823\|ref\|ZP_01236625.1\| 30S ribosomal protein S12 [Vibrio angustum S14], gi\|90437894\|gb\|EAS63... RS12_VIBPA - 30S ribosomal protein S12 OS=Vibrio parahaemolyticus GN=rpsL PE=3 SV=1 gi\|89049064, gi\|... - gi\|89075242\|ref\|ZP_01161673.1\| 30S ribosomal protein S12 [Photobacterium sp. SKA34], gi\|89049064\|gb\|...	190.0	[0..1]	[123..1]
gi\|150260751, gi... - gi\|150260751\|ref\|ZP_01917479.1\| 30S ribosomal protein S12 [Yersinia pestis CA88-4125], gi\|149290159\|... gi\|165940004, gi... - gi\|89102813\|ref\|ZP_01175421.1\| COG0048: Ribosomal protein S12 [Yersinia pestis biovar Orientalis str... RS12_YERPA - 30S ribosomal protein S12 OS=Yersinia pestis bv. Antiqua (strain Antiqua) GN=rpsL PE=3 SV=1 RS12_YERPN - 30S ribosomal protein S12 OS=Yersinia pestis bv. Antiqua (strain Nepal516) GN=rpsL PE=3 SV=1 RS12_YERPS - 30S ribosomal protein S12 OS=Yersinia pseudotuberculosis serotype I (strain IP32953) GN=rpsL PE=3 SV... RS12_YERPE - 30S ribosomal protein S12 OS=Yersinia pestis GN=rpsL PE=3 SV=1 gi\|45440059, gi\|... - gi\|45440059\|ref\|NP_991598.1\| 30S ribosomal protein S12 [Yersinia pestis biovar Microtus str. 91001],... gi\|218927407, gi... - gi\|218927407\|ref\|YP_002345282.1\| 30S ribosomal protein S12 [Yersinia pestis CO92], gi\|16120539\|ref\|N... RS12_YERE8 - 30S ribosomal protein S12 OS=Yersinia enterocolitica serotype O:8 / biotype 1B (strain NCTC 13174 / ... gi\|77978220 - gi\|77978220\|ref\|ZP_00833652.1\| COG0048: Ribosomal protein S12 [Yersinia intermedia ATCC 29909] RS12_YERPG - 30S ribosomal protein S12 OS=Yersinia pestis bv. Antiqua (strain Angola) GN=rpsL PE=3 SV=1 gi\|238715958, gi... - gi\|77957338\|ref\|ZP_00821397.1\| COG0048: Ribosomal protein S12 [Yersinia bercovieri ATCC 43970], gi\|2... gi\|77962733 - gi\|77962733\|ref\|ZP_00826550.1\| COG0048: Ribosomal protein S12 [Yersinia mollaretii ATCC 43969] gi\|238722943, gi... - gi\|77974995\|ref\|ZP_00830532.1\| COG0048: Ribosomal protein S12 [Yersinia frederiksenii ATCC 33641], g... RS12_YERPS - 30S ribosomal protein S12 OS=Yersinia pseudotuberculosis GN=rpsL PE=3 SV=1 gi\|229836317, gi... - gi\|229836317\|ref\|ZP_04456484.1\| 30S ribosomal subunit protein S12 [Yersinia pestis Pestoides A], gi\|... RS12_YERP3 - 30S ribosomal protein S12 OS=Yersinia pseudotuberculosis serotype O:1b (strain IP 31758) GN=rpsL PE=... gi\|229696425, gi... - gi\|229840059\|ref\|ZP_04460218.1\| 30S ribosomal subunit protein S12 [Yersinia pestis biovar Orientalis... gi\|166213290, gi... - gi\|166213290\|ref\|ZP_02239325.1\| ribosomal protein S12 [Yersinia pestis biovar Antiqua str. B42003004... gi\|229690451, gi... - gi\|229842141\|ref\|ZP_04462296.1\| 30S ribosomal subunit protein S12 [Yersinia pestis biovar Orientalis... gi\|166010450, gi... - gi\|166010450\|ref\|ZP_02231348.1\| ribosomal protein S12 [Yersinia pestis biovar Antiqua str. E1979001]... gi\|238709121, gi... - gi\|238752694\|ref\|ZP_04614165.1\| 30S ribosomal protein S12 [Yersinia rohdei ATCC 43380], gi\|238709121... gi\|167425635, gi... - gi\|167425635\|ref\|ZP_02317388.1\| ribosomal protein S12 [Yersinia pestis biovar Mediaevalis str. K1973... gi\|238758757, gi... - gi\|238758757\|ref\|ZP_04619931.1\| 30S ribosomal protein S12 [Yersinia aldovae ATCC 35236], gi\|23870305... gi\|167418992, gi... - gi\|167418992\|ref\|ZP_02310745.1\| ribosomal protein S12 [Yersinia pestis biovar Orientalis str. MG05-1... gi\|238698039, gi... - gi\|238763737\|ref\|ZP_04624696.1\| 30S ribosomal protein S12 [Yersinia kristensenii ATCC 33638], gi\|238... RS12_YERPB - 30S ribosomal protein S12 OS=Yersinia pseudotuberculosis serotype IB (strain PB1/+) GN=rpsL PE=3 SV=... RS12_YERPY - 30S ribosomal protein S12 OS=Yersinia pseudotuberculosis serotype O:3 (strain YPIII) GN=rpsL PE=3 SV... gi\|21960987, gi\|... - gi\|22127853\|ref\|NP_671276.1\| 30S ribosomal protein S12 [Yersinia pestis KIM], gi\|21960987\|gb\|AAM8752... gi\|165927847, gi... - gi\|165927847\|ref\|ZP_02223679.1\| ribosomal protein S12 [Yersinia pestis biovar Orientalis str. F19910...	189.0	[0..1]	[123..1]
gi\|62129585, gi\|... - gi\|62181952\|ref\|YP_218369.1\| 30S ribosomal protein S12 [Salmonella enterica subsp. enterica serovar ...	189.0	[0..1]	[123..21]
gi\|145640559, gi... - gi\|145640559\|ref\|ZP_01796143.1\| 30S ribosomal protein S7 [Haemophilus influenzae R3021], gi\|14498248... RS12_HAEIE - 30S ribosomal protein S12 OS=Haemophilus influenzae (strain PittEE) GN=rpsL PE=3 SV=1 gi\|145268858, gi... - gi\|145637944\|ref\|ZP_01793585.1\| 30S ribosomal protein S7 [Haemophilus influenzae PittHH], gi\|1452688... gi\|145638509, gi... - gi\|145638509\|ref\|ZP_01794118.1\| tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA [Ha... gi\|144985831, gi... - gi\|145633462\|ref\|ZP_01789191.1\| tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA [Ha... gi\|145266881, gi... - gi\|145635869\|ref\|ZP_01791559.1\| tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA [Ha... gi\|145629759, gi... - gi\|145629759\|ref\|ZP_01785554.1\| 30S ribosomal protein S7 [Haemophilus influenzae 22.1-21], gi\|144977... gi\|145275145, gi... - gi\|145640559\|ref\|ZP_01796143.1\| 30S ribosomal protein S7 [Haemophilus influenzae R3021], gi\|14563188... RS12_HAEIN - 30S ribosomal protein S12 OS=Haemophilus influenzae GN=rpsL PE=3 SV=2 RS12_ACTP7 - 30S ribosomal protein S12 OS=Actinobacillus pleuropneumoniae serotype 7 (strain AP76) GN=rpsL PE=3 S... gi\|42630028 - gi\|42630028\|ref\|ZP_00155573.1\| COG0048: Ribosomal protein S12 [Haemophilus influenzae R2846] gi\|42630860 - gi\|42630860\|ref\|ZP_00156399.1\| COG0048: Ribosomal protein S12 [Haemophilus influenzae R2866] RS12_MANHA - 30S ribosomal protein S12 OS=Mannheimia haemolytica GN=rpsL PE=3 SV=2 RS12_HAEIN - 30S ribosomal protein S12 OS=Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd) GN=r... RS12_HAEIG - 30S ribosomal protein S12 OS=Haemophilus influenzae (strain PittGG) GN=rpsL PE=3 SV=1 gi\|251793283, gi... - gi\|251793283\|ref\|YP_003008011.1\| ribosomal protein S12 [Aggregatibacter aphrophilus NJ8700], gi\|2475... gi\|240950123, gi... - gi\|240950123\|ref\|ZP_04754416.1\| 30S ribosomal protein S12 [Actinobacillus minor NM305], gi\|240295392... gi\|229809646, gi... - gi\|229847408\|ref\|ZP_04467508.1\| 30S ribosomal protein S12 [Haemophilus influenzae 7P49H1], gi\|229809... gi\|229811399, gi... - gi\|229845661\|ref\|ZP_04465785.1\| 30S ribosomal protein S12 [Haemophilus influenzae 6P18H1], gi\|229811... RS12_ACTPJ - 30S ribosomal protein S12 OS=Actinobacillus pleuropneumoniae serotype 3 (strain JL03) GN=rpsL PE=3 S... RS12_HAEI8 - 30S ribosomal protein S12 OS=Haemophilus influenzae (strain 86-028NP) GN=rpsL PE=3 SV=1 RS12_ACTP2 - 30S ribosomal protein S12 OS=Actinobacillus pleuropneumoniae serotype 5b (strain L20) GN=rpsL PE=3 S...	189.0	[0..1]	[123..1]

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Predicted Domain #1

Region A:
Residues: [1-123]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MPTINQLIRN TRQPIRNVTK SPALRGCPQR RGTCTRVYTI TPKKPNSALR KVARVRLTSG  60
   61 FEITAYIPGI GHNLQEHSVV LVRGGRVKDL PGVRYHIVRG TLDAVGVKDR QQGRSKYGVK 120
  121 KPK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	48.0
Match:	1vs5L
Description:	No description for 1vs5L was found.

Predicted functions:

Term	Confidence	Notes
structural constituent of ribosome	7.45319063235379	bayes_pls_golite062009
structural molecule activity	6.87843523680097	bayes_pls_golite062009
misfolded RNA binding	4.4877915495248	bayes_pls_golite062009
nucleic acid binding	3.63363905192127	bayes_pls_golite062009
RNA binding	3.30183895019873	bayes_pls_golite062009
DNA binding	2.84579720873153	bayes_pls_golite062009
	2.80746531284205	bayes_pls_golite062009
binding	2.40532042551671	bayes_pls_golite062009
mRNA binding	1.65819015373151	bayes_pls_golite062009
translation regulator activity	1.46320772716954	bayes_pls_golite062009
translation factor activity, nucleic acid binding	1.40718318783582	bayes_pls_golite062009
translation initiation factor activity	1.27539679024898	bayes_pls_golite062009
protein binding	1.20309946451799	bayes_pls_golite062009
transcription regulator activity	1.1059706841002	bayes_pls_golite062009
structure-specific DNA binding	1.10289736160471	bayes_pls_golite062009
single-stranded DNA binding	0.96886436248958	bayes_pls_golite062009
transcription factor activity	0.540940243804807	bayes_pls_golite062009
ribonuclease activity	0.498439111185072	bayes_pls_golite062009
aminoacyl-tRNA ligase activity	0.474251377131502	bayes_pls_golite062009
ligase activity, forming carbon-oxygen bonds	0.47336621289748	bayes_pls_golite062009
ligase activity, forming aminoacyl-tRNA and related compounds	0.47336621289748	bayes_pls_golite062009
transcription activator activity	0.458219339846021	bayes_pls_golite062009
exoribonuclease activity, producing 5'-phosphomonoesters	0.438266295385131	bayes_pls_golite062009
exoribonuclease activity	0.39131721416336	bayes_pls_golite062009
sequence-specific DNA binding	0.23198185345804	bayes_pls_golite062009
nuclease activity	0.17660139576327	bayes_pls_golite062009
3'-5'-exoribonuclease activity	0.0717589400404304	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: