YRC Public Data Repository - Protein Structure Prediction

Protein:	rpb3
Organism:	Schizosaccharomyces pombe
Length:	297 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

[What does the above image mean?]

[Show Ginzu Version Information]

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 rpb3.

Description	E-value	Query Range	Subject Range
gi\|626066 - gi\|626066\|pir\|\|S43201 DNA-directed RNA polymerase (EC 2.7.7.6) II chain 3 - fission yeast (Schizosac...	307.0	[0..1]	[296..1]
gi\|7801032, gi\|3... - gi\|7801032\|emb\|CAB91428.1\| probable DNA-directed RNA polymerase II chain RPB3 [Neurospora crassa], g... gi\|85082680 - gi\|85082680\|ref\|XP_956964.1\| DNA-directed RNA polymerase II 33 kDa polypeptide [Neurospora crassa OR...	269.0	[0..5]	[297..16]
gi\|46109130, gi\|... - gi\|46109130\|ref\|XP_381623.1\| hypothetical protein FG01447.1 [Gibberella zeae PH-1], gi\|42545040\|gb\|E...	263.0	[0..2]	[291..12]
gi\|49097858, gi\|... - gi\|67540164\|ref\|XP_663856.1\| hypothetical protein AN6252.2 [Aspergillus nidulans FGSC A4], ref\|XP_41...	259.0	[0..2]	[292..9]
gi\|90304449, gi\|... - gi\|90304449\|gb\|EAS34080.1\| hypothetical protein CIMG_05104 [Coccidioides immitis RS], gi\|119190113\|r...	255.0	[0..2]	[263..10]
gi\|44982514, gi\|... - gi\|45187753\|ref\|NP_983976.1\| ADL120Cp [Ashbya gossypii ATCC 10895], gi\|44982514\|gb\|AAS51800.1\| ADL12... gi\|44982514 - gi\|44982514\|gb\|AAS51800.1\| ADL120Cp [Ashbya gossypii ATCC 10895]	254.0	[0..1]	[290..1]
gi\|88176545, gi\|... - gi\|88176545\|gb\|EAQ84013.1\| hypothetical protein CHGG_10417 [Chaetomium globosum CBS 148.51], gi\|1162...	253.0	[0..5]	[266..16]
gi\|172213 - gi\|172213\|gb\|AAA34889.1\| RNA polymerase II (EC 2.7.7.6)	253.0	[0..1]	[294..1]

Back

Predicted Domain #1

Region A:
Residues: [1-297]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MDSETHITIR NISKNSVDFV LTNTSLAVAN SLRRVVLAEI PTVAIDLVEI NVNTSVMPDE  60
   61 FLAHRLGMIP LDSSNIDEPP PVGLEYTRNC DCDQYCPKCS VELFLNAKCT GEGTMEIYAR 120
  121 DLVVSSNSSL GHPILADPKS RGPLICKLRK EQEISLRCIA KKGIAKEHAK WSPTSAVAFE 180
  181 YDPWNKLQHT DYWFENDADA EWPKSKNADW EEPPREGEPF NFQEEPRRFY MDVESVGSIP 240
  241 PNEIMVQGLR ILQEKLAVLV RDLDEEQPTQ LSANELNMEE NAEMNWSPYQ NGEENTW

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	67.221849
Match:	1i3qC
Description:	RPB3
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