YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|59808391, gi\|...
Organism:	Rattus norvegicus
Length:	275 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|59808391, gi|....

Description	E-value	Query Range	Subject Range
gi\|125854879, gi... - gi\|41053985\|ref\|NP_956215.1\| polymerase (RNA) II (DNA directed) polypeptide C [Danio rerio], gi\|2827...	298.0	[0..1]	[275..1]
gi\|47221930 - gi\|47221930\|emb\|CAF98942.1\| unnamed protein product [Tetraodon nigroviridis]	294.0	[0..1]	[275..1]
RPB3_BOVIN - DNA-directed RNA polymerase II subunit RPB3 OS=Bos taurus GN=POLR2C PE=1 SV=1 gi\|73949776 - gi\|73949776\|ref\|XP_535283.2\| PREDICTED: similar to polymerase (RNA) II (DNA directed) polypeptide C ... gi\|149699174 - gi\|149699174\|ref\|XP_001494261.1\| PREDICTED: similar to Polymerase (RNA) II (DNA directed) polypeptid...	294.0	[0..1]	[275..1]
POLR2C - polymerase (RNA) II (DNA directed) polypeptide C, 33kDa gi\|114662810 - gi\|114662810\|ref\|XP_001148305.1\| PREDICTED: DNA directed RNA polymerase II polypeptide C isoform 1 [... gi\|123981016, gi... - gi\|60823189\|gb\|AAX36635.1\| polymerase II polypeptide C [synthetic construct], gi\|208967078\|dbj\|BAG73... gi\|90079489 - gi\|90079489\|dbj\|BAE89424.1\| unnamed protein product [Macaca fascicularis] gi\|109128647, gi... - gi\|109128647\|ref\|XP_001098417.1\| PREDICTED: similar to DNA directed RNA polymerase II polypeptide C ... ENSCJAT00000023359 - null	294.0	[0..1]	[275..1]
gi\|50753469 - gi\|50753469\|ref\|XP_414001.1\| PREDICTED: hypothetical protein [Gallus gallus]	293.0	[0..1]	[275..1]
gi\|47682270, gi\|... - gi\|47682270\|gb\|AAH70601.1\| MGC81245 protein [Xenopus laevis], gi\|148234336\|ref\|NP_001084998.1\| hypot...	293.0	[0..1]	[275..1]
gi\|12837765 - gi\|12837765\|dbj\|BAB23943.1\| unnamed protein product [Mus musculus]	292.0	[0..1]	[275..1]
gi\|89266865, gi\|... - gi\|89266865\|emb\|CAJ83921.1\| polymerase (RNA) II (DNA directed) polypeptide C, 33kDa [Xenopus tropica...	292.0	[0..1]	[275..1]

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Predicted Domain #1

Region A:
Residues: [1-275]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MPYANQPTVR ITELTEENVK FIIENTDLAV ANSIRRVFIA EVPIIAIDWV QIDANSSVLH  60
   61 DEFIAHRLGL IPLTSDDIVD KLQYSRDCTC EEFCPECSVE FTLDVRCNED QTRHVTSRDL 120
  121 ISNSPRVIPV TSRNRDNDPN DYVEQDDILI VKLRKGQELR LRAYAKKGFG KEHAKWNPTA 180
  181 GVAFEYDPDN ALRHTVYPKP EEWPKSEYSE LDEDESQAPY DPNGKPERFY YNVESCGSLR 240
  241 PETIVLSALS GLKKKLSDLQ TQLSHEIQSD VLTIN

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	62.0
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