YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|25407290, gi\|...
Organism:	Arabidopsis thaliana
Length:	381 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|25407290, gi|....

Description	E-value	Query Range	Subject Range
gi\|49526652 - gi\|49526652\|emb\|CAG60279.1\| unnamed protein product [Candida glabrata] gi\|50289821, gi\|... - gi\|50289821\|ref\|XP_447342.1\| hypothetical protein CAGL0I02090g [Candida glabrata CBS138], gi\|4952665...	255.0	[0..52]	[365..797]
gi\|50729132 - gi\|50729132\|ref\|XP_416442.1\| PREDICTED: similar to SRB7 suppressor of RNA polymerase B homolog; RNA ...	205.0	[0..211]	[380..174]
gi\|27754568 - gi\|27754568\|gb\|AAO22731.1\| unknown protein [Arabidopsis thaliana]	180.0	[0..220]	[381..1]
gi\|55667209 - gi\|55667209\|ref\|XP_520809.1\| PREDICTED: SRB7 suppressor of RNA polymerase B homolog isoform 2 [Pan t...	175.0	[0..243]	[381..2]
tr\|M3X3Y9\|M3X3Y9... - Mediator complex subunit 21 OS=Felis catus GN=MED21 PE=4 SV=1 gi\|149714050 - gi\|149714050\|ref\|XP_001502847.1\| PREDICTED: similar to SRB7 [Equus caballus] gi\|73996918 - gi\|73996918\|ref\|XP_852318.1\| PREDICTED: similar to SRB7 suppressor of RNA polymerase B homolog isofo...	173.0	[0..243]	[380..2]
MED21_MACFA - Mediator of RNA polymerase II transcription subunit 21 OS=Macaca fascicularis GN=MED21 PE=2 SV=1 CCDS8711.1_1 - null gi\|109096038 - gi\|109096038\|ref\|XP_001099368.1\| PREDICTED: similar to SRB7 suppressor of RNA polymerase B homolog [...	173.0	[0..243]	[380..2]
gi\|114645559 - gi\|114645559\|ref\|XP_001143632.1\| PREDICTED: SRB7 suppressor of RNA polymerase B homolog isoform 1 [P... MED21 - mediator complex subunit 21 gi\|208966724, gi... - gi\|208966724\|dbj\|BAG73376.1\| mediator complex subunit 21 [synthetic construct], gi\|167774049\|gb\|ABZ9...	173.0	[0..243]	[380..2]
MED21_BOVIN - Mediator of RNA polymerase II transcription subunit 21 OS=Bos taurus GN=MED21 PE=2 SV=1	172.0	[0..243]	[380..2]
MED21_MOUSE - Mediator of RNA polymerase II transcription subunit 21 OS=Mus musculus GN=Med21 PE=1 SV=1	172.0	[0..243]	[379..2]

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Predicted Domain #1

Region A:
Residues: [1-157]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSTNSYYSSA SSSGFRVCPP GVPSKCWCGE EIITFTSKTK ENPYRRFYRC AIAMKRENEE  60
   61 HLFKWVDEAL LDEIKMVNEK CKRVVENISD LRMNVMANME LLNKNAKQME EELIKKMEGE 120
  121 LLTMKENVEE LGHVMAKSAL KTVGVAVVIV ASIVWLW

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below are all of our structure predictions for this domain.
Click here to view only most confident match.

		MCM Score	GO Score	GO Term	SCOP Match	SCOP Description
View	Download	0.456	N/A	N/A	c.14.1	ClpP/crotonase
View	Download	0.374	N/A	N/A	d.110.2	GAF domain-like
View	Download	0.374	N/A	N/A	d.110.2	GAF domain-like
View	Download	0.340	N/A	N/A	a.118.19	Description not found.
View	Download	0.290	N/A	N/A	c.31.1	DHS-like NAD/FAD-binding domain
View	Download	0.289	N/A	N/A	c.120.1	PIN domain-like
View	Download	0.276	N/A	N/A	a.118.1	ARM repeat
View	Download	0.232	N/A	N/A	a.100.1	6-phosphogluconate dehydrogenase C-terminal domain-like
View	Download	0.216	N/A	N/A	c.37.1	P-loop containing nucleoside triphosphate hydrolases

Predicted Domain #2

Region A:
Residues: [158-232]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GRVRFKETTE IVPYEFYGIR AQKSKGKATL KAHFKNLRAQ TQNAERSLLR TTKRPNSQRL  60
   61 SVVATPNRLC VAGEI

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below are all of our de novo (Rosetta) predictions for this domain.
Click here to view only most confident match.

		MCM Score	SCOP Match	SCOP Description
View	Download	0.660	d.52.7	Ribosome-binding factor A, RbfA
View	Download	0.615	a.56.1	CO dehydrogenase ISP C-domain like
View	Download	0.615	a.56.1	CO dehydrogenase ISP C-domain like
View	Download	0.614	a.56.1	CO dehydrogenase ISP C-domain like
View	Download	0.614	a.56.1	CO dehydrogenase ISP C-domain like
View	Download	0.565	d.110.7	Description not found.
View	Download	0.540	a.22.1	Histone-fold
View	Download	0.540	a.22.1	Histone-fold
View	Download	0.539	a.60.5	Barrier-to-autointegration factor, BAF
View	Download	0.416	a.22.1	Histone-fold

Predicted Domain #3

Region A:
Residues: [233-381]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LSTGLLRFWK MDIISQLQEQ VNTIAAITFN AFGTLQRDAP PVQLSPNYPE PPATTTVTDD  60
   61 ATPFPEQPKQ LSAGLVKAAK QFDALVAALP LSEGGEGAQL KRIAELQVEN DLVGQELQKQ 120
  121 LEAAEKELKQ VQELFGQAAD NCLNMKKPE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	38.0
Match:	1ykeB
Description:	Structure of the mediator MED7/MED21 subcomplex
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