YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|123987597, gi...
Organism:	synthetic construct
Length:	240 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|123987597, gi....

Description	E-value	Query Range	Subject Range
gi\|5870129 - gi\|5870129\|gb\|AAD54488.1\| small nuclear ribonucleoprotein B [Homo sapiens]	1.0E-29	[1..211]	[1..214]
gi\|114656016 - gi\|114656016\|ref\|XP_523182.2\| PREDICTED: hypothetical protein [Pan troglodytes]	1.0E-25	[1..212]	[38..249]
SPT5H_DANRE - Transcription elongation factor SPT5 OS=Danio rerio GN=supt5h PE=1 SV=1	4.0E-25	[10..240]	[701..958]
gi\|112305, gi\|206694 - gi\|206694\|gb\|AAA42059.1\| snRNP-associated polypeptide N, pir\|\|A35448 small nuclear ribonucleoprotein...	1.0E-24	[1..212]	[1..212]
RSMB_MACEU - Small nuclear ribonucleoprotein-associated protein B' OS=Macropus eugenii GN=SNRPB PE=2 SV=1	2.0E-24	[1..167]	[1..167]
gi\|114680545 - gi\|114680545\|ref\|XP_001155793.1\| PREDICTED: hypothetical protein LOC470014 isoform 1 [Pan troglodyte... gi\|119631003, gi... - gi\|45708426\|gb\|AAH03530.1\| SNRPB protein [Homo sapiens], gi\|194375339\|dbj\|BAG62782.1\| unnamed protei... gi\|109092660 - gi\|109092660\|ref\|XP_001113926.1\| PREDICTED: small nuclear ribonucleoprotein polypeptides B and B1 is...	3.0E-24	[1..168]	[1..168]
gi\|86438323 - gi\|86438323\|gb\|AAI12635.1\| SNRPB protein [Bos taurus]	4.0E-24	[1..168]	[1..168]

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Predicted Domain #1

Region A:
Residues: [1-82]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTVGKSSKML QHIDYRMRCI LQDGRIFIGT FKAFDKHMNL ILCDCDEFRK IKPKNAKQPE  60
   61 REEKRVLGLV LLRGENLVSM TV

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	23.39794
Match:	1d3bB
Description:	B core SNRNP protein
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
	9.36615441177233	bayes_pls_golite062009
RNA binding	5.81718051012035	bayes_pls_golite062009
nucleic acid binding	2.69031444148163	bayes_pls_golite062009
mRNA binding	2.57166143288861	bayes_pls_golite062009
binding	2.04681172391952	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [83-240]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 EGPPPKDTGI ARVPLAGAAG GPGVGRAAGR GVPAGVPIPQ APAGLAGPVR GVGGPSQQVM  60
   61 TPQGRGTVAA AAVAATASIA GAPTQYPPGR GTPPPPVGRA TPPPGIMAPP PGMRPPMGPP 120
  121 IGLPPARGTP IGMPPPGMRP PPPGIRGPPP PGMRPPRP

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	6.154902
Match:	1y0fB
Description:	No description for 1y0fB 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

Predicted functions: