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View Structure Prediction Details

Protein: MRPL3
Organism: Saccharomyces cerevisiae
Length: 390 amino acids
Reference: Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076



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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 MRPL3.

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]

Back

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):

YRC Informatics Platform - Version 3.0
Created and Maintained by: Michael Riffle