YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|40226460
Organism:	Homo sapiens
Length:	160 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|40226460.

Description	E-value	Query Range	Subject Range
gi\|38571609 - gi\|38571609\|gb\|AAH62722.1\| POLR2J4 protein [Homo sapiens]	2.0E-44	[3..125]	[1..123]
gi\|73957788 - gi\|73957788\|ref\|XP_546937.2\| PREDICTED: similar to RAS p21 protein activator 4 [Canis familiaris]	6.0E-41	[7..128]	[983..1103]
gi\|109066247 - gi\|109066247\|ref\|XP_001114618.1\| PREDICTED: similar to DNA-directed RNA polymerase II subunit J (DNA...	5.0E-39	[12..128]	[71..186]
gi\|47211212 - gi\|47211212\|emb\|CAF90169.1\| unnamed protein product [Tetraodon nigroviridis]	1.0E-37	[16..128]	[1..112]
gi\|114612984 - gi\|114612984\|ref\|XP_001135267.1\| PREDICTED: similar to MGC13098 protein [Pan troglodytes]	1.0E-37	[10..122]	[234..345]
RPB11_MOUSE - DNA-directed RNA polymerase II subunit RPB11 OS=Mus musculus GN=Polr2j PE=1 SV=1	2.0E-37	[16..128]	[1..112]

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Predicted Domain #1

Region A:
Residues: [1-160]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GGGRHLGSGR NGGGSVNAPP AFESFLLFEG EKKITINKDT KVPNACLFTI NKEDHTLGNI  60
   61 IKSQCDLKDP QVLFAGYKVP HPLEHKIIIR VQTTPDYSPQ EAFTNAITDL ISELSLLEER 120
  121 FRSPHLMVPT LHHPPPPGGG TPRCSAGDSA HSGGAVDGWS

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	36.30103
Match:	1i3qK
Description:	RPB11
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