YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|110741670, gi...
Organism:	Arabidopsis thaliana
Length:	540 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|110741670, gi....

Description	E-value	Query Range	Subject Range
gi\|11358905, gi\|... - gi\|7573471\|emb\|CAB87785.1\| tRNA synthase-like protein [Arabidopsis thaliana], gi\|15241405\|ref\|NP_196...	852.0	[0..1]	[540..1]
gi\|52353567, gi\|... - gi\|52353567\|gb\|AAU44133.1\| putative tRNA synthase [Oryza sativa Japonica Group], gi\|255675942\|dbj\|BA...	463.0	[0..147]	[540..108]
gi\|14719313 - gi\|14719313\|gb\|AAK73131.1\|AC079022_4 putative tRNA synthase [Oryza sativa]	461.0	[0..147]	[540..145]
gi\|28195117, gi\|... - gi\|28195117\|gb\|AAO33771.1\| putative tRNA pseudouridine synthase [Oryza sativa (indica cultivar-group...	416.0	[0..147]	[504..108]
TRUB_VIBCH - tRNA pseudouridine synthase B OS=Vibrio cholerae GN=truB PE=3 SV=1 gi\|121587869, gi... - gi\|121587869\|ref\|ZP_01677626.1\| tRNA pseudouridine 55 synthase [Vibrio cholerae 2740-80], gi\|1215479... gi\|124118436, gi... - gi\|153223100\|ref\|ZP_01953655.1\| tRNA pseudouridine 55 synthase [Vibrio cholerae MAK 757], gi\|1241184... gi\|153818688, gi... - gi\|153818688\|ref\|ZP_01971355.1\| tRNA pseudouridine 55 synthase [Vibrio cholerae NCTC 8457], gi\|12651... gi\|229608844, gi... - gi\|229608844\|ref\|YP_002879492.1\| tRNA pseudouridine synthase B [Vibrio cholerae MJ-1236], gi\|2293714... gi\|229509234, gi... - gi\|229509234\|ref\|ZP_04398719.1\| tRNA pseudouridine synthase B [Vibrio cholerae B33], gi\|229353806\|gb... gi\|229344247, gi... - gi\|229519558\|ref\|ZP_04409001.1\| tRNA pseudouridine synthase B [Vibrio cholerae RC9], gi\|229344247\|gb... gi\|229357956, gi... - gi\|229505733\|ref\|ZP_04395243.1\| tRNA pseudouridine synthase B [Vibrio cholerae BX 330286], gi\|229357... TRUB_VIBCM - tRNA pseudouridine synthase B OS=Vibrio cholerae serotype O1 (strain M66-2) GN=truB PE=3 SV=1 TRUB_VIBCH - tRNA pseudouridine synthase B OS=Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N1696... gi\|254846584, gi... - gi\|75831565\|ref\|ZP_00760827.1\| COG0130: Pseudouridine synthase [Vibrio cholerae MO10], gi\|254850879\|... gi\|75815894, gi\|... - gi\|75815894\|ref\|ZP_00746382.1\| COG0130: Pseudouridine synthase [Vibrio cholerae V52], gi\|121728409\|r...	298.0	[0..311]	[539..1]
TRUB_VIBC3 - tRNA pseudouridine synthase B OS=Vibrio cholerae serotype O1 (strain ATCC 39541 / Classical Ogawa 39...	298.0	[0..311]	[539..1]
TRUB_AROAE - tRNA pseudouridine synthase B OS=Aromatoleum aromaticum (strain EbN1) GN=truB PE=3 SV=1	297.0	[0..307]	[539..1]
gi\|225354812, gi... - gi\|254226548\|ref\|ZP_04920131.1\| tRNA pseudouridine 55 synthase [Vibrio cholerae V51], gi\|225354812\|r... gi\|149739687, gi... - gi\|153826507\|ref\|ZP_01979174.1\| tRNA pseudouridine 55 synthase [Vibrio cholerae MZO-2], gi\|149739687... gi\|229512907, gi... - gi\|229512907\|ref\|ZP_04402374.1\| tRNA pseudouridine synthase B [Vibrio cholerae TMA 21], gi\|229350156... gi\|229332223, gi... - gi\|229530450\|ref\|ZP_04419838.1\| tRNA pseudouridine synthase B [Vibrio cholerae 12129(1)], gi\|2293322...	297.0	[0..311]	[539..1]
TRUB_SHIBS - tRNA pseudouridine synthase B OS=Shigella boydii serotype 4 (strain Sb227) GN=truB PE=3 SV=1	296.0	[0..311]	[537..2]

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Predicted Domain #1

Region A:
Residues: [1-145]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MAKSLHFTRL MSSSARMSMT SPLFFSSVKP WRNIHKPYLA SLFLSTTSTR YPLQYDMIIN  60
   61 RPTQSSLSQN RRRPPKAIES GAPDSAEPEF DSWVDNKLAM EREQGRPGSG DPEMDKAKRK 120
  121 YYSKRRKRLY GSDSEDENSS RKSDE

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #2

Region A:
Residues: [146-320]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GFVELKPEVV EFDRLHQREE ELYFYDTFAY PWEKDKHYKM VYQLEKKYYP DQCLDKAFLQ  60
   61 PGEVLKKSDD SGKVRGKKKV VAALGGKRSE VKRIGMENCD EDDDKLVFFD EVKEKEEKKK 120
  121 SEDDVVVVTE KKVEQFFKGL TKSPNEKGMA SGGGDGEPFL VTRNGELPPR WDGPN

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #3

Region A:
Residues: [321-540]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GTVLLVNKPK GWTSFTVCGK LRRLVKVKKV GHAGTLDPMA TGLLIVCVGK ATKVVDRYQG  60
   61 MIKGYSGVFR LGEATSTLDA DSPVIQRESW EHIKDDDIKK ALTSFLGEIW QVPPMFSAIK 120
  121 VGGEKMYEKA RRGETVELSP RRISIFQFDI ERSLDDRQNL IFRVICSKGT YIRSLCADLA 180
  181 KALGSCAHLT ALRRDSIGEY SANDAWEFNE LEAAITKNYF

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	79.69897
Match:	1r3fA
Description:	Crystal Structure of tRNA Pseudouridine Synthase TruB and Its RNA Complex: RNA-protein Recognition Through a Combination of Rigid Docking and Induced Fit
Matching Structure (courtesy of the PDB):

TMHMM	2.0c	PSIPRED	v2.61
SignalP	3.0	COILS	1999
DISOPRED	v0.2	NCBI nr	03/2009
PSI-BLAST	2.2.22	FFAS	ffas03
PDB	10/2008	Pfam	22
HMMER	2.3.2

View Structure Prediction Details

Top Sequence Alignment Hits