YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|6561964, gi\|1...
Organism:	Arabidopsis thaliana
Length:	519 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|6561964, gi|1....

Description	E-value	Query Range	Subject Range
DUS3L_XENTR - tRNA-dihydrouridine(47) synthase [NAD(P)(+)]-like OS=Xenopus tropicalis GN=dus3l PE=2 SV=2	336.0	[0..31]	[506..97]
DUS3L_XENLA - tRNA-dihydrouridine(47) synthase [NAD(P)(+)]-like OS=Xenopus laevis GN=dus3l PE=2 SV=1	336.0	[0..31]	[506..98]
gi\|76622063 - gi\|76622063\|ref\|XP_887938.1\| PREDICTED: similar to dihydrouridine synthase 3-like isoform 4 [Bos tau...	334.0	[0..17]	[506..79]
gi\|14602971, gi\|... - gi\|24308187\|ref\|NP_064560.1\| dihydrouridine synthase 3-like [Homo sapiens], gi\|14602971\|gb\|AAH09973.... gi\|190690551, gi... - gi\|190691915\|gb\|ACE87732.1\| dihydrouridine synthase 3-like (S. cerevisiae) protein [synthetic constr...	327.0	[0..17]	[506..79]
gi\|41056139, gi\|... - gi\|41056139\|ref\|NP_956968.1\| dihydrouridine synthase 3-like [Danio rerio], gi\|34784014\|gb\|AAH58066.1...	319.0	[0..24]	[506..54]

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Predicted Domain #1

Region A:
Residues: [1-129]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 METRIELKKK ISEIFKDFMT VITQLEELGN AANNFLLRFQ QGLSFLQRPP IVTSSKLIEN  60
   61 IIKKNETRRL KSYIEAGCIN IHDAAQSTRA YVNVAAKNLL IELERLTDEA ALAIESATQL 120
  121 DKDSSDGLQ

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	4.39794
Match:	1rgoA
Description:	Structural Basis for Recognition of the mRNA Class II AU-Rich Element by the Tandem Zinc Finger Domain of TIS11d
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [130-204]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 QVTCDEENET VQLPQGPEVT EYAALIAVIY SMMKQNYVMQ DKIVRSLSLK SSSGELETYS  60
   61 LMWSLRPGVF EFFVA

[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: [205-519]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TFDGATKKKK TKMDYQNKLV LAPMVRVGTL SFRMLAAEYG ADITYGEEII DHKLVKCERR  60
   61 LNVASGTSEF VEKGTDNVVF STCDEEKSRV VFQMGTSDAV RALKASEIVC NDVATIDINM 120
  121 GCPKAFSIQG GMGAALLSKP ELIHDILATL KRNLDVPVTC KIRLLKSPAD TVELARRIEK 180
  181 LGVPALAVHG RKIADRPRDP AKWDEIADVV AALSIPVIAN GDVLEYDDFS RIKTATGAAS 240
  241 VMVARGAMWN ASIFSPKGKS HWEDVKKKYL RKSILWNNDV KSTKYTIKEM IAHHSCLELP 300
  301 EGKSINKADT LEDLA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	53.69897
Match:	1vhnA
Description:	Crystal structure of a putative flavin oxidoreductase with flavin
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