YRC Public Data Repository - Protein Structure Prediction

Protein:	rpb8
Organism:	Schizosaccharomyces pombe
Length:	125 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 rpb8.

Description	E-value	Query Range	Subject Range
gi\|195495435, gi... - gi\|195495435\|ref\|XP_002095266.1\| GE19787 [Drosophila yakuba], gi\|195476786\|ref\|XP_002086242.1\| GE230... gi\|194122367, gi... - gi\|195348643\|ref\|XP_002040857.1\| GM22401 [Drosophila sechellia], gi\|194122367\|gb\|EDW44410.1\| GM22401... gi\|220952982, gi... - gi\|220952982\|gb\|ACL89034.1\| Rpb8-PA [synthetic construct], gi\|220942882\|gb\|ACL83984.1\| Rpb8-PA [synt... gi\|195592244, gi... - gi\|195592244\|ref\|XP_002085845.1\| GD14989 [Drosophila simulans], gi\|194197854\|gb\|EDX11430.1\| GD14989 ... gi\|54642281, gi\|... - gi\|54642281\|gb\|EAL31030.1\| GA10862 [Drosophila pseudoobscura pseudoobscura], gi\|125978971\|ref\|XP_001... gi\|125978971\|ref... - GA10862-PA [Drosophila pseudoobscura], GA10862 [Drosophila pseudoobscura pseudoobscura] Rpb8-PA - The gene Rpb8 is referred to in FlyBase by the symbol Dmel\Rpb8 (CG11246, FBgn0037121). It is a prot... gi\|194118457, gi... - gi\|195160970\|ref\|XP_002021344.1\| GL24857 [Drosophila persimilis], gi\|194118457\|gb\|EDW40500.1\| GL2485... gi\|190655459, gi... - gi\|194875877\|ref\|XP_001973676.1\| GG16218 [Drosophila erecta], gi\|190655459\|gb\|EDV52702.1\| GG16218 [D...	175.0	[0..3]	[125..2]
gi\|11359049, gi\|... - gi\|1515323\|emb\|CAA68927.1\| RPB8 [Schizosaccharomyces pombe], gi\|1515321\|emb\|CAA68926.1\| RPB8 [Schizo...	175.0	[0..1]	[123..1]
gi\|53793231 - gi\|53793231\|dbj\|BAD54456.1\| putative RNA polymerase I, II and III 16.5 kDa subunit [Oryza sativa Jap...	174.0	[0..6]	[125..255]
gi\|66508630 - gi\|66508630\|ref\|XP_394557.2\| PREDICTED: similar to Rpb8 CG11246-PA isoform 1 [Apis mellifera]	173.0	[0..3]	[125..2]
AGAP012397-PA - DNA-directed RNA polymerases I, II, and III subunit RPABC3\|protein_coding\|3L:41720478:41721034:-1\|ge... gi\|58393552, gi\|... - gi\|58393552\|ref\|XP_320161.2\| AGAP012397-PA [Anopheles gambiae str. PEST], gi\|55234259\|gb\|EAA00358.2\|...	173.0	[0..3]	[125..2]
gi\|157107468, gi... - gi\|157107468\|ref\|XP_001649793.1\| DNA-directed RNA polymerase subunit rpb8 [Aedes aegypti], gi\|108884...	170.0	[0..3]	[125..2]
gi\|91087535 - gi\|91087535\|ref\|XP_970133.1\| PREDICTED: similar to Rpb8 CG11246-PA [Tribolium castaneum]	170.0	[0..3]	[125..2]
gi\|62204372, gi\|... - gi\|62955177\|ref\|NP_001017600.1\| hypothetical protein LOC550263 [Danio rerio], gi\|62204372\|gb\|AAH9285...	169.0	[0..3]	[125..2]
POLR2H - polymerase (RNA) II (DNA directed) polypeptide H gi\|62658151, gi\|... - gi\|62658151\|ref\|XP_573313.1\| PREDICTED: similar to polymerase (RNA) II (DNA directed) polypeptide H ... gi\|90077816 - gi\|90077816\|dbj\|BAE88588.1\| unnamed protein product [Macaca fascicularis] gi\|126314756 - gi\|126314756\|ref\|XP_001363950.1\| PREDICTED: similar to RNA polymerase II subunit hRPB17 [Monodelphis... tr\|G1SSB5\|G1SSB5... - pep:novel chromosome:oryCun2:14:81347861:81353351:-1 gene:ENSOCUG00000007078 transcript:ENSOCUT00000... tr\|M3W8E3\|M3W8E3... - RNA polymerase II subunit H OS=Felis catus GN=POLR2H PE=4 SV=1 gi\|61887551 - gi\|61887551\|ref\|XP_581913.1\| PREDICTED: polymerase (RNA) II (DNA directed) polypeptide H isoform 1 [... gi\|57109920 - gi\|57109920\|ref\|XP_535826.1\| PREDICTED: similar to polymerase (RNA) II (DNA directed) polypeptide H ... gi\|167774183, gi... - gi\|208967086\|dbj\|BAG73557.1\| polymerase (RNA) II (DNA directed) polypeptide H [synthetic construct],... tr\|G3I303\|G3I303... - DNA-directed RNA polymerases I, II, and III subunit RPABC3 OS=Cricetulus griseus GN=I79_017801 PE=4 ... gi\|50752375 - gi\|50752375\|ref\|XP_422761.1\| PREDICTED: similar to RNA polymerase II subunit hRPB17 isoform 2 [Gallu... ENSCJAT00000029117 - null CCDS3264.1_1 - null RPAB3_MOUSE - DNA-directed RNA polymerases I, II, and III subunit RPABC3 OS=Mus musculus GN=Polr2h PE=1 SV=3 gi\|542151990\|ref... - PREDICTED: DNA-directed RNA polymerases I, II, and III subunit RPABC3 isoform X1 [Zonotrichia albico... gi\|149731172 - gi\|149731172\|ref\|XP_001498295.1\| PREDICTED: similar to RNA polymerase II, polypeptide H [Equus cabal... gi\|149442170 - gi\|149442170\|ref\|XP_001511382.1\| PREDICTED: similar to RNA polymerase II subunit hRPB17 [Ornithorhyn...	168.0	[0..3]	[125..2]

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Predicted Domain #1

Region A:
Residues: [1-125]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSESVLLDEI FTVTSVDKQK YQRVSRITAV SGQNDMNLTL DINSQIYPLE KDATFSLQIT  60
   61 SNLNSPDLKE AADYIMYGKV YRVEEAKDEK VSVYVSFGGL LMAIEGSHRK LYRLSLDHVY 120
  121 LLLRR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	42.69897
Match:	2f3iA
Description:	No description for 2f3iA was found.

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