YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|20466624, gi\|...
Organism:	Arabidopsis thaliana
Length:	516 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|20466624, gi|....

Description	E-value	Query Range	Subject Range
gi\|15810403 - gi\|15810403\|gb\|AAL07089.1\| putative nonsense-mediated mRNA decay protein [Arabidopsis thaliana]	742.0	[0..1]	[516..1]
NMD3 - NMD3 homolog (S. cerevisiae) gi\|190691981, gi... - gi\|190691981\|gb\|ACE87765.1\| NMD3 homolog (S. cerevisiae) protein [synthetic construct], gi\|190690621...	708.0	[0..1]	[515..1]
gi\|55727749 - gi\|55727749\|emb\|CAH90625.1\| hypothetical protein [Pongo abelii] NMD3_PONAB - 60S ribosomal export protein NMD3 OS=Pongo abelii GN=NMD3 PE=2 SV=1	705.0	[0..1]	[515..1]
gi\|114590191 - gi\|114590191\|ref\|XP_516854.2\| PREDICTED: NMD3 homolog [Pan troglodytes]	705.0	[0..1]	[515..1]
gi\|74003699 - gi\|74003699\|ref\|XP_545261.2\| PREDICTED: similar to NMD3 homolog [Canis familiaris]	705.0	[0..1]	[515..167]
gi\|50752520 - gi\|50752520\|ref\|XP_422813.1\| PREDICTED: similar to Hypothetical protein MGC76205 [Gallus gallus]	698.0	[0..1]	[515..165]
NMD3_MOUSE - 60S ribosomal export protein NMD3 OS=Mus musculus GN=Nmd3 PE=1 SV=1	697.0	[0..1]	[515..1]
gi\|149048327, gi... - gi\|171846766\|gb\|AAI61998.1\| Nmd3 protein [Rattus norvegicus], gi\|157818501\|ref\|NP_001101152.1\| NMD3 ...	696.0	[0..1]	[515..1]
gi\|44983944 - gi\|44983944\|gb\|AAS52980.1\| AER299Cp [Ashbya gossypii ATCC 10895] gi\|44983944, gi\|... - gi\|45190902\|ref\|NP_985156.1\| AER299Cp [Ashbya gossypii ATCC 10895], gi\|44983944\|gb\|AAS52980.1\| AER29...	696.0	[0..11]	[514..10]

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Predicted Domain #1

Region A:
Residues: [1-108]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSVMDESGMF NVQQTIGSVL CCKCGVPMAP NAANMCVNCL RSEVDITEGL QKSIQIFYCP  60
   61 ECTCYLQPPK TWIKCQWESK ELLTFCIKRL KNLNKVKLKN AEFVWTEP

[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: [109-183]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 HSKRIKVKLT VQAEVLNGAV LEQSYPVEYT VRDNLCESCS RFQANPDQWV ASIQLRQHVS  60
   61 HRRTFFYLEQ LILRH

[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: [184-253]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DAASRAIRIQ QVDQGIDFFF GNKSHANSFV EFLRKVVPIE YRQDQQLVSH DVKSSLYNYK  60
   61 YTYSVKICPV

[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 #4

Region A:
Residues: [254-456]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 CREDLVCLPS KVASGLGNLG PLVVCTKVSD NITLLDPRTL RCAFLDARQY WRSGFRSALT  60
   61 SRQLVKYFVF DVEPPVGEAT VGGQKYALSY VQIARESDIG KMFYVQTHLG HILKPGDQAL 120
  121 GYDIYGANVN DNEMEKYRLS VKNGLPEAIL IKKCYEEQRE RKQKKSRNWK LKSLPMEMDD 180
  181 SRGRVDPEKT DKEYEEFLRD LEE

[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 #5

Region A:
Residues: [457-516]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NPELRFNISL YRDKDYQASE TASMTDGEGA PSVPIEELLA DLDLSFEEED DDDEDDMAAE  60
   61

[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.

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