YRC Public Data Repository - Protein Structure Prediction

Protein:	RNC_LISMO
Organism:	Listeria monocytogenes EGD-e
Length:	229 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 RNC_LISMO.

Description	E-value	Query Range	Subject Range
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	249.0	[0..1]	[226..1]
gi\|153183297, gi... - gi\|254899498\|ref\|ZP_05259422.1\| ribonuclease III [Listeria monocytogenes J0161], gi\|153183297\|ref\|ZP... gi\|127765093, gi... - gi\|254912363\|ref\|ZP_05262375.1\| ribonuclease III [Listeria monocytogenes J2818], gi\|153191314\|ref\|ZP... gi\|153175037, gi... - gi\|254829200\|ref\|ZP_05233887.1\| ribonuclease III [Listeria monocytogenes FSL N3-165], gi\|153175037\|r... gi\|254872588 - gi\|254872588\|ref\|ZP_05245298.1\| ribonuclease III [Listeria monocytogenes FSL N1-017] gi\|47097388, gi\|... - gi\|47097388\|ref\|ZP_00234939.1\| ribonuclease III [Listeria monocytogenes str. 1/2a F6854], gi\|4701423... gi\|153179844, gi... - gi\|254936690\|ref\|ZP_05268387.1\| ribonuclease III [Listeria monocytogenes F6900], gi\|153179844\|ref\|ZP... RNC_LISMH - Ribonuclease 3 OS=Listeria monocytogenes serotype 4a (strain HCC23) GN=rnc PE=3 SV=1	249.0	[0..1]	[226..1]
gi\|254852713 - gi\|254852713\|ref\|ZP_05242061.1\| ribonuclease III [Listeria monocytogenes FSL R2-503] RNC_LISMF - Ribonuclease 3 OS=Listeria monocytogenes serotype 4b (strain F2365) GN=rnc PE=3 SV=1 gi\|254826153 - gi\|254826153\|ref\|ZP_05231154.1\| ribonuclease III [Listeria monocytogenes FSL J1-194] gi\|47017785, gi\|... - gi\|47093844\|ref\|ZP_00231588.1\| ribonuclease III [Listeria monocytogenes str. 4b H7858], gi\|47017785\|... gi\|254878077 - gi\|254878077\|ref\|ZP_05250787.1\| ribonuclease III [Listeria monocytogenes FSL J2-071] RNC_LISMC - Ribonuclease 3 OS=Listeria monocytogenes serotype 4b (strain CLIP80459) GN=rnc PE=3 SV=1 gi\|153167648, gi... - gi\|153167648\|ref\|ZP_01927752.1\| ribonuclease III [Listeria monocytogenes FSL N1-017], gi\|133726747\|g... gi\|254933277, gi... - gi\|254933277\|ref\|ZP_05266636.1\| ribonuclease III [Listeria monocytogenes HPB2262], gi\|153202802\|ref\|... RNC_LISMC - Ribonuclease 3 OS=Listeria monocytogenes serotype 4b (strain Clip81459) GN=rnc PE=3 SV=1	248.0	[0..1]	[226..1]
RNC_STRTD - Ribonuclease 3 OS=Streptococcus thermophilus (strain ATCC BAA-491 / LMD-9) GN=rnc PE=3 SV=1	242.0	[0..1]	[226..1]
gi\|89086647, gi\|... - gi\|89098685\|ref\|ZP_01171567.1\| Rnc [Bacillus sp. NRRL B-14911], gi\|89086647\|gb\|EAR65766.1\| Rnc [Baci...	241.0	[0..3]	[227..19]
gi\|55739198, gi\|... - gb\|AAV62839.1\| ribonuclease III [Streptococcus thermophilus CNRZ1066], gb\|AAV60927.1\| ribonuclease ... RNC_STRT1 - Ribonuclease 3 OS=Streptococcus thermophilus (strain CNRZ 1066) GN=rnc PE=3 SV=1 RNC_STRT2 - Ribonuclease 3 OS=Streptococcus thermophilus (strain ATCC BAA-250 / LMG 18311) GN=rnc PE=3 SV=1	240.0	[0..1]	[226..9]
RNC_GEOKA - Ribonuclease 3 OS=Geobacillus kaustophilus (strain HTA426) GN=rnc PE=3 SV=1 RNC_GEOKA - Ribonuclease 3 OS=Geobacillus kaustophilus GN=rnc PE=3 SV=1	240.0	[0..3]	[226..17]
gi\|1389549 - gi\|1389549\|dbj\|BAA10976.1\| ORF3 [Bacillus subtilis]	239.0	[0..2]	[228..18]
RNC_ENTFA - Ribonuclease 3 OS=Enterococcus faecalis (strain ATCC 700802 / V583) GN=rnc PE=3 SV=1 RNC_ENTFA - Ribonuclease 3 OS=Enterococcus faecalis GN=rnc PE=3 SV=1 gi\|238857142, gi... - gi\|238857142\|ref\|ZP_04647393.1\| ribonuclease III [Enterococcus faecalis TUSoD Ef11], gi\|238830231\|gb...	236.0	[0..5]	[226..7]
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	235.0	[0..2]	[229..33]

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Predicted Domain #1

Region A:
Residues: [1-229]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNQWEELQES VGFDFKNVEL LKQAFTHSSY VNEHRRENVK DNERLEFLGD AVLELTVSDY  60
   61 LFNKYPDMAE GHMTKMRAAI VCEPSLVEFA EAVHFSKYVR LGKGEEKAGG RTRPALLADV 120
  121 FESFIGALYL DNGIDKVVTF LERVIFPKID AGAYLQTVDY KTQLQEIVQR DRDVLIEYDI 180
  181 LGETGPAHNK AFDAQVIVNG QVLGKGSGRT KKQAEQSAAQ FAINKLIHR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	54.221849
Match:	1o0wA
Description:	RNase III endonuclease catalytic domain; RNase III, C-terminal domain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
RNA binding	2.103878681691	bayes_pls_golite062009
endoribonuclease activity	2.02847548000256	bayes_pls_golite062009
endonuclease activity	1.52328576888271	bayes_pls_golite062009
binding	1.36306903445995	bayes_pls_golite062009
nucleic acid binding	1.33734225890407	bayes_pls_golite062009
double-stranded RNA binding	0.80785216315429	bayes_pls_golite062009
catalytic activity	0.328884095744829	bayes_pls_golite062009
protein binding	0.018276859224266	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: