YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|190408263
Organism:	Saccharomyces cerevisiae RM11-1a
Length:	390 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|190408263.

Description	E-value	Query Range	Subject Range
gi\|151946185 - gi\|151946185\|gb\|EDN64416.1\| YmL30 [Saccharomyces cerevisiae YJM789] gi\|190408263 - gi\|190408263\|gb\|EDV11528.1\| 60S ribosomal protein L3, mitochondrial precursor [Saccharomyces cerevis... MRPL3 - Mitochondrial ribosomal protein of the large subunit RM03_YEAST - 54S ribosomal protein L3, mitochondrial OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=...	1.0E-98	[1..390]	[1..390]
RNC_BACHD - Ribonuclease 3 OS=Bacillus halodurans (strain ATCC BAA-125 / DSM 18197 / FERM 7344 / JCM 9153 / C-12... RNC_BACHD - Ribonuclease 3 OS=Bacillus halodurans GN=rnc PE=3 SV=1	1.0E-57	[91..376]	[11..263]
gi\|126509385, gi... - gi\|153820073\|ref\|ZP_01972740.1\| ribonuclease III [Vibrio cholerae NCTC 8457], gi\|126509385\|gb\|EAZ719... gi\|254845291, gi... - gi\|254849586\|ref\|ZP_05238936.1\| ribonuclease III [Vibrio cholerae MO10], gi\|254845291\|gb\|EET23705.1\|... RNC_VIBCH - Ribonuclease 3 OS=Vibrio cholerae GN=rnc PE=3 SV=1 gi\|229512326, gi... - gi\|229512326\|ref\|ZP_04401805.1\| ribonuclease III [Vibrio cholerae B33], gi\|229352291\|gb\|EEO17232.1\| ... RNC_VIBCM - Ribonuclease 3 OS=Vibrio cholerae serotype O1 (strain M66-2) GN=rnc PE=3 SV=1 gi\|229519462, gi... - gi\|229519462\|ref\|ZP_04408905.1\| ribonuclease III [Vibrio cholerae RC9], gi\|229344151\|gb\|EEO09126.1\| ... gi\|229507479, gi... - gi\|229507479\|ref\|ZP_04396984.1\| ribonuclease III [Vibrio cholerae BX 330286], gi\|229354984\|gb\|EEO199... gi\|229606984, gi... - gi\|229606984\|ref\|YP_002877632.1\| ribonuclease III [Vibrio cholerae MJ-1236], gi\|229369639\|gb\|ACQ6006... RNC_VIBCH - Ribonuclease 3 OS=Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961) GN=rnc PE=3 ... gi\|153222435, gi... - gi\|153222435\|ref\|ZP_01953169.1\| ribonuclease III [Vibrio cholerae MAK 757], gi\|124118872\|gb\|EAY37615... gi\|121590982, gi... - gi\|121590982\|ref\|ZP_01678301.1\| ribonuclease III [Vibrio cholerae 2740-80], gi\|121547159\|gb\|EAX57288...	3.0E-56	[117..370]	[8..222]
RNC_LISMO - Ribonuclease 3 OS=Listeria monocytogenes GN=rnc PE=3 SV=1 RNC_LISMO - Ribonuclease 3 OS=Listeria monocytogenes serovar 1/2a (strain ATCC BAA-679 / EGD-e) GN=rnc PE=3 SV=1 gi\|224501394 - gi\|224501394\|ref\|ZP_03669701.1\| ribonuclease III [Listeria monocytogenes FSL R2-561]	5.0E-56	[115..370]	[6..226]
RNC_LISIN - Ribonuclease 3 OS=Listeria innocua GN=rnc PE=3 SV=1 RNC_LISIN - Ribonuclease 3 OS=Listeria innocua serovar 6a (strain CLIP 11262) GN=rnc PE=3 SV=1	8.0E-56	[115..370]	[6..226]
RNC_STRPN - Ribonuclease 3 OS=Streptococcus pneumoniae GN=rnc PE=3 SV=1 RNC_STRPN - Ribonuclease 3 OS=Streptococcus pneumoniae serotype 4 (strain ATCC BAA-334 / TIGR4) GN=rnc PE=3 SV=1	2.0E-55	[113..369]	[1..226]
RNC_STRP2 - Ribonuclease 3 OS=Streptococcus pneumoniae serotype 2 (strain D39 / NCTC 7466) GN=rnc PE=3 SV=1 gi\|25289225 - pir\|\|F98012 ribonuclease III (EC 3.1.26.3) [imported] - Streptococcus pneumoniae (strain R6) RNC_STRR6 - Ribonuclease 3 OS=Streptococcus pneumoniae (strain ATCC BAA-255 / R6) GN=rnc PE=3 SV=1 gi\|147755517, gi... - gi\|148998680\|ref\|ZP_01826119.1\| ribonuclease III [Streptococcus pneumoniae SP11-BS70], gi\|147755517\|... gi\|147925249, gi... - gi\|148989271\|ref\|ZP_01820651.1\| ribonuclease III [Streptococcus pneumoniae SP6-BS73], gi\|147925249\|g... gi\|168575703, gi... - gi\|183578209\|gb\|EDT98737.1\| ribonuclease III [Streptococcus pneumoniae MLV-016], gi\|168575703\|ref\|ZP... RNC_STRP4 - Ribonuclease 3 OS=Streptococcus pneumoniae serotype 19F (strain G54) GN=rnc PE=3 SV=1	3.0E-55	[113..369]	[1..226]
RNC_STRPQ - Ribonuclease 3 OS=Streptococcus pyogenes serotype M3 (strain SSI-1) GN=rnc PE=3 SV=1 gi\|71910251, gi\|... - gi\|71910251\|ref\|YP_281801.1\| ribonuclease III [Streptococcus pyogenes MGAS5005], gi\|71853033\|gb\|AAZ5... RNC_STRP1 - Ribonuclease 3 OS=Streptococcus pyogenes serotype M1 GN=rnc PE=1 SV=1 RNC_STRPY - (P66670) Ribonuclease III (EC 3.1.26.3) (RNase III) RNC_STRP3 - Ribonuclease 3 OS=Streptococcus pyogenes serotype M3 GN=rnc PE=3 SV=1 gi\|13621744, gi\|... - gi\|15674631\|ref\|NP_268805.1\| ribonuclease III [Streptococcus pyogenes M1 GAS], gi\|13621744\|gb\|AAK335... RNC_STRP8 - Ribonuclease 3 OS=Streptococcus pyogenes serotype M18 GN=rnc PE=3 SV=1 RNC_STRPF - Ribonuclease 3 OS=Streptococcus pyogenes serotype M4 (strain MGAS10750) GN=rnc PE=3 SV=1 RNC_STRP3 - Ribonuclease 3 OS=Streptococcus pyogenes serotype M3 (strain ATCC BAA-595 / MGAS315) GN=rnc PE=3 SV=... RNC_STRP8 - Ribonuclease 3 OS=Streptococcus pyogenes serotype M18 (strain MGAS8232) GN=rnc PE=3 SV=1 RNC_STRPB - Ribonuclease 3 OS=Streptococcus pyogenes serotype M12 (strain MGAS2096) GN=rnc PE=3 SV=1 RNC_STRPC - Ribonuclease 3 OS=Streptococcus pyogenes serotype M12 (strain MGAS9429) GN=rnc PE=3 SV=1	1.0E-54	[113..370]	[4..227]
gi\|170711273, gi... - gi\|170711273\|gb\|EDT23455.1\| ribonuclease III [Clostridium perfringens B str. ATCC 3626], gi\|16821064... gi\|170714262, gi... - gi\|170714262\|gb\|EDT26444.1\| ribonuclease III [Clostridium perfringens CPE str. F4969], gi\|168214195\|... gi\|182380899, gi... - gi\|182380899\|gb\|EDT78378.1\| ribonuclease III [Clostridium perfringens NCTC 8239], gi\|168217005\|ref\|Z... gi\|182625857, gi... - gi\|182625857\|ref\|ZP_02953623.1\| ribonuclease III [Clostridium perfringens D str. JGS1721], gi\|177908... RNC_CLOPE - Ribonuclease 3 OS=Clostridium perfringens (strain 13 / Type A) GN=rnc PE=3 SV=1 RNC_CLOPE - Ribonuclease 3 OS=Clostridium perfringens GN=rnc PE=3 SV=1	2.0E-54	[117..374]	[9..231]
gi\|15595050, gi\|... - gi\|2688625\|gb\|AAC67040.1\| ribonuclease III (rnc) [Borrelia burgdorferi B31], gi\|15595050\|ref\|NP_2128... RNC_BORBU - Ribonuclease 3 OS=Borrelia burgdorferi GN=rnc PE=3 SV=1	5.0E-54	[113..373]	[16..244]

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Predicted Domain #1

Region A:
Residues: [1-106]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MGIVLKRAIA AGMKPFPNST WHWSRTIRPF SQHLSSTCFL QQSSRFTSKR YLHLSTLTQQ  60
   61 EKRFLPESEL AKYKEYYQGL KSTVNEIPES VASKSPSLRT LHKRLQ

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #2

Region A:
Residues: [107-299]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LPNELTYSTL SRCLTCPSAK LPDKINNPTK GAAFVNTVPT NKYLDNHGLN IMGKNLLSYH  60
   61 VTKSIIQKYP RLPTVVLNAA VNAYISEAVL AHIAKYWGIE VETTSVLSRY LKMEPFEFTL 120
  121 GRLKFFNNSL NSKDGIELIT GKNFSETSAL AMSVRSIIAA IWAVTEQKDS QAVYRFIDDH 180
  181 IMSRKLDITK MFQ

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	22.221849
Match:	1jfzA_
Description:	RNase III endonuclease catalytic domain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
structural constituent of ribosome	6.7575603459566	bayes_pls_golite062009
structural molecule activity	6.24187874355454	bayes_pls_golite062009
RNA binding	5.07736605479017	bayes_pls_golite062009
binding	2.71832019206733	bayes_pls_golite062009
nucleic acid binding	2.45216687077957	bayes_pls_golite062009
protein binding	1.64057905923545	bayes_pls_golite062009
endoribonuclease activity	1.62086478301433	bayes_pls_golite062009
double-stranded RNA binding	1.46317494664076	bayes_pls_golite062009
DNA binding	0.770826702436345	bayes_pls_golite062009
transcription regulator activity	0.661231648959158	bayes_pls_golite062009
mRNA binding	0.404665180963566	bayes_pls_golite062009
cytoskeletal protein binding	0.403469167264307	bayes_pls_golite062009
single-stranded RNA binding	0.35650576095599	bayes_pls_golite062009
RNA helicase activity	0.0112094156505713	bayes_pls_golite062009

Predicted Domain #3

Region A:
Residues: [300-390]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 FEQPTRELAM LCRREGLEKP VSKLVAESGR LSKSPVFIVH VFSGEETLGE GYGSSLKEAK  60
   61 ARAATDALMK WYCYEPLAQQ EPVIDPGTVV V

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	12.39794
Match:	1di2A_
Description:	Double-stranded RNA-binding protein A, second dsRBD
Matching Structure (courtesy of the PDB):

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: