YRC Public Data Repository - Protein Structure Prediction

Protein:	RIMO_SHEON
Organism:	Shewanella oneidensis MR-1
Length:	481 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 RIMO_SHEON.

Description	E-value	Query Range	Subject Range
gi\|229606834, gi... - gi\|229606834\|ref\|YP_002877482.1\| ribosomal protein S12p Asp88 methylthiotransferase [Vibrio cholerae... gi\|229345936, gi... - gi\|229516873\|ref\|ZP_04406319.1\| ribosomal protein S12p Asp88 methylthiotransferase [Vibrio cholerae ... gi\|229507328, gi... - gi\|229507328\|ref\|ZP_04396833.1\| ribosomal protein S12p Asp88 methylthiotransferase [Vibrio cholerae ... gi\|254851159, gi... - gi\|75829427\|ref\|ZP_00758730.1\| COG0621: 2-methylthioadenine synthetase [Vibrio cholerae MO10], gi\|25... gi\|121588096, gi... - gi\|121588096\|ref\|ZP_01677844.1\| conserved hypothetical protein [Vibrio cholerae 2740-80], gi\|1215476... RIMO_VIBCH - Ribosomal protein S12 methylthiotransferase RimO OS=Vibrio cholerae serotype O1 (strain ATCC 39315 /... gi\|126510413, gi... - gi\|153819032\|ref\|ZP_01971699.1\| conserved hypothetical protein [Vibrio cholerae NCTC 8457], gi\|12651... RIMO_VIBCH - Ribosomal protein S12 methylthiotransferase RimO OS=Vibrio cholerae GN=rimO PE=3 SV=1 gi\|153821555, gi... - gi\|229509748\|ref\|ZP_04399229.1\| ribosomal protein S12p Asp88 methylthiotransferase [Vibrio cholerae ...	393.0	[0..1]	[471..1]
gi\|150421264, gi... - gi\|75824037\|ref\|ZP_00753506.1\| COG0621: 2-methylthioadenine synthetase [Vibrio cholerae RC385], gi\|2... gi\|183179613, gi... - gi\|183179613\|ref\|ZP_02957824.1\| conserved hypothetical protein [Vibrio cholerae MZO-3], gi\|183013024... tr\|A0A085RGA9\|A0... - Ribosomal protein S12 methylthiotransferase RimO OS=Vibrio cholerae GN=rimO PE=3 SV=1, Ribosomal pro... gi\|229524596, gi... - gi\|229524596\|ref\|ZP_04414001.1\| ribosomal protein S12p Asp88 methylthiotransferase [Vibrio cholerae ... gi\|150423996, gi... - gi\|254285814\|ref\|ZP_04960776.1\| conserved hypothetical protein [Vibrio cholerae AM-19226], gi\|197752...	393.0	[0..1]	[471..1]
RIMO_VIBC3 - Ribosomal protein S12 methylthiotransferase RimO OS=Vibrio cholerae serotype O1 (strain ATCC 39541 /... gi\|121628686, gi... - gi\|75815105\|ref\|ZP_00745631.1\| COG0621: 2-methylthioadenine synthetase [Vibrio cholerae V52], gi\|121...	393.0	[0..1]	[471..1]
gi\|116219978, gi... - gi\|75819071\|ref\|ZP_00749171.1\| COG0621: 2-methylthioadenine synthetase [Vibrio cholerae V51], gi\|254... gi\|148874454, gi... - gi\|153830055\|ref\|ZP_01982722.1\| conserved hypothetical protein [Vibrio cholerae 623-39], gi\|14887445...	392.0	[0..1]	[471..1]
RIMO_VIBVY - Ribosomal protein S12 methylthiotransferase RimO OS=Vibrio vulnificus (strain YJ016) GN=rimO PE=3 SV...	389.0	[0..1]	[473..1]
gi\|78507953, gi\|... - gi\|78684201\|ref\|ZP_00848986.1\| Protein of unknown function UPF0004:Conserved hypothetical protein 11...	386.0	[0..1]	[481..55]
RIMO_VIBVU - Ribosomal protein S12 methylthiotransferase RimO OS=Vibrio vulnificus GN=rimO PE=3 SV=1 RIMO_VIBVU - Ribosomal protein S12 methylthiotransferase RimO OS=Vibrio vulnificus (strain CMCP6) GN=rimO PE=3 SV...	386.0	[0..1]	[473..1]
gi\|88857374, gi\|... - gi\|88857374\|ref\|ZP_01132017.1\| hypothetical protein PTD2_02401 [Pseudoalteromonas tunicata D2], gi\|8...	382.0	[0..1]	[470..1]
RIMO_SHESM - Ribosomal protein S12 methylthiotransferase RimO OS=Shewanella sp. (strain MR-4) GN=rimO PE=3 SV=1 RIMO_SHESR - Ribosomal protein S12 methylthiotransferase RimO OS=Shewanella sp. (strain MR-7) GN=rimO PE=3 SV=1	382.0	[0..1]	[481..1]
RIMO_PSEA6 - Ribosomal protein S12 methylthiotransferase RimO OS=Pseudoalteromonas atlantica (strain T6c / ATCC B...	378.0	[0..1]	[468..1]

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Predicted Domain #1

Region A:
Residues: [1-168]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTVETFHPKQ TTTLETPAKT LEAASADSVN TGNVATGNRI GFVSLGCPKN LVDSERILTQ  60
   61 LRIDGYEVTN SYDNADLVIV NTCGFIDAAV EESLDAVREA LEENGKVIVT GCLGAKENQI 120
  121 REVHPDVLEI TGPHSYEAVL KHVHKYVPKP EHNPFTSLIP QTGVKLTP

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	0.959
Match:	2fug6
Description:	Crystal structure of the hydrophilic domain of respiratory complex I from Thermus thermophilus
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
catalytic activity	1.31391544670091	bayes_pls_golite062009
NADH dehydrogenase activity	1.12687320369727	bayes_pls_golite062009
NADH dehydrogenase (quinone) activity	0.961709183630333	bayes_pls_golite062009
binding	0.880117216098541	bayes_pls_golite062009
NADH dehydrogenase (ubiquinone) activity	0.848226595871555	bayes_pls_golite062009
oxidoreductase activity, acting on NADH or NADPH, quinone or similar compound as acceptor	0.793846453693773	bayes_pls_golite062009
protein binding	0.0998292353431207	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [169-481]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KHYAYLKISE GCDNRCTFCI IPALRGDLDS RGAGSVLDEA KRLVEAGVQE ILVVSQDTSA  60
   61 YGKDKGGRTD FWNGMPVKQD ITSLARQLGK MGAWVRLHYI YPYPWVDDLI PLMAEGLILP 120
  121 YLDIPMQHAS PRILKMMKRP GRVDRQLEAI QRWREICPDL VIRSTFIVGF PGETEEDFEM 180
  181 LLDFLREARL DRVGCFKYSE VEGAVANTIA ELISEEVKED RYHRFMEVQA EISAERLARF 240
  241 VGRTMDILID DVDEEGAIGR SFADAPEIDG MVFINGETEL EPGMLVRAVI THSDEHDLWA 300
  301 ELVDADAEDE VEA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	55.69897
Match:	2qgqA
Description:	No description for 2qgqA was found.

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: