YRC Public Data Repository - Protein Structure Prediction

Protein:	SRD2_ARATH
Organism:	Arabidopsis thaliana
Length:	375 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 SRD2_ARATH.

Description	E-value	Query Range	Subject Range
gi\|6691212, gi\|2... - gi\|6691212\|gb\|AAF24550.1\|AC007508_13 F1K23.20 [Arabidopsis thaliana], gi\|6560748\|gb\|AAF16748.1\|AC010...	481.0	[0..1]	[375..88]
gi\|92881490, gi\|... - gi\|92881490\|gb\|ABE86281.1\| conserved hypothetical protein [Medicago truncatula], gi\|92879296\|gb\|ABE8...	409.0	[0..1]	[375..79]
gi\|157126674, gi... - gi\|157126674\|ref\|XP_001654697.1\| hypothetical protein AaeL_AAEL002106 [Aedes aegypti], gi\|108882483\|...	344.0	[0..1]	[373..13]
gi\|194034112 - gi\|194034112\|ref\|XP_001927778.1\| PREDICTED: similar to small nuclear RNA activating complex, polypep... SNPC3_BOVIN - snRNA-activating protein complex subunit 3 OS=Bos taurus GN=SNAPC3 PE=2 SV=1	307.0	[0..124]	[374..168]
SNPC3_MACFA - snRNA-activating protein complex subunit 3 OS=Macaca fascicularis GN=SNAPC3 PE=2 SV=1 gi\|109111491 - gi\|109111491\|ref\|XP_001110647.1\| PREDICTED: similar to small nuclear RNA activating complex, polypep...	307.0	[0..124]	[374..168]
gi\|167773599 - gi\|167773599\|gb\|ABZ92234.1\| small nuclear RNA activating complex, polypeptide 3, 50kDa [synthetic co... SNAPC3 - small nuclear RNA activating complex, polypeptide 3, 50kDa gi\|55633227 - gi\|55633227\|ref\|XP_528547.1\| PREDICTED: small nuclear RNA activating complex, polypeptide 3, 50kDa i...	306.0	[0..124]	[374..167]
gi\|15929058 - gi\|15929058\|gb\|AAH14985.1\|AAH14985 small nuclear RNA activating complex, polypeptide 3, 50kD [Homo s...	306.0	[0..124]	[374..166]
SNPC3_MOUSE - snRNA-activating protein complex subunit 3 OS=Mus musculus GN=Snapc3 PE=1 SV=2	305.0	[0..124]	[374..163]
gi\|113534696, gi... - gi\|115441771\|ref\|NP_001045165.1\| Os01g0912600 [Oryza sativa (japonica cultivar-group)], gi\|113534696...	304.0	[0..114]	[375..4]
gi\|73971672 - gi\|73971672\|ref\|XP_853813.1\| PREDICTED: similar to small nuclear RNA activating complex, polypeptide...	302.0	[0..60]	[374..96]

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Predicted Domain #1

Region A:
Residues: [1-122]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MAMKEAFPED YLSQEELEPS LNVSHHENPL AGRAKRKRTV KNTEVKKRTL KNTEVMKMTE  60
   61 KKTEEAYLVK VEQLAKLKQK QEEDKAAVTL HCFSKTSETG KDVVAPPEGF EQMQSLRFID 120
  121 NN

[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: [123-186]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 YTKLKPSDIQ GQVDPLFPEV ILCVEIYNSR KVKTQEFLVL GRQMLTELKD NIHCATDQVM  60
   61 QKAG

[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 #3

Region A:
Residues: [187-284]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KYDPSGYFLI EDVFHNDLRN PSAKDYSYPI LDWLWNSKDE ALKKWECVLT GELQKKQKLV  60
   61 LGEAKSVDLP RYRTADMQST HFCDIRFRVG ASYVYCHQ

[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 #4

Region A:
Residues: [285-375]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GDCKHTIVIR DMRMSHPEDV QNRAAYPIMF WPKRRIQKCG VCKIKRASKV AVDDKWASEN  60
   61 SSYFCDVCFE LLHSEEGPLN CDFPVFDYVH E

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	1.03
Match:	1v5nA
Description:	Solution Structure of DC1 Domain of PDI-like Hypothetical Protein from Arabidopsis thaliana
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