YRC Public Data Repository - Protein Structure Prediction

Protein:	SNRPD1
Organism:	Homo sapiens
Length:	119 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 SNRPD1.

Description	E-value	Query Range	Subject Range
gi\|50732862 - gi\|50732862\|ref\|XP_418799.1\| PREDICTED: similar to KIAA0851 protein [Gallus gallus]	118.0	[0..5]	[96..652]
gi\|49250837, gi\|... - gi\|52345462\|ref\|NP_001004780.1\| small nuclear ribonucleoprotein D1 polypeptide 16kDa [Xenopus (Silur... gi\|148227202, gi... - gi\|76779906\|gb\|AAI06262.1\| MGC78968 protein [Xenopus laevis], gi\|49255946\|gb\|AAH71069.1\| MGC78968 pr...	115.0	[0..1]	[96..1]
gi\|42546775, gi\|... - gi\|46105460\|ref\|XP_380534.1\| hypothetical protein FG00358.1 [Gibberella zeae PH-1], gi\|42546775\|gb\|E...	114.0	[0..1]	[96..1]
gi\|71018117, gi\|... - gi\|71018117\|ref\|XP_759289.1\| hypothetical protein UM03142.1 [Ustilago maydis 521], ref\|XP_400757.1\| ...	114.0	[0..1]	[101..68]
gi\|60832252 - gi\|60832252\|gb\|AAX37003.1\| small nuclear ribonucleoprotein D1 polypeptide [synthetic construct]	114.0	[0..1]	[96..1]
gi\|220673053, gi... - gi\|47938075\|gb\|AAH71543.1\| Snrpd1 protein [Danio rerio], gi\|27545253\|ref\|NP_775359.1\| small nuclear ...	114.0	[0..1]	[96..1]
gi\|66362186 - gi\|66362186\|ref\|XP_628057.1\| small nucealr riboprotein SMD3, SM domain [Cryptosporidium parvum Iowa ... gi\|46227630 - gi\|46227630\|gb\|EAK88565.1\| small nucealr riboprotein SMD3, SM domain [Cryptosporidium parvum Iowa II...	113.0	[0..3]	[116..28]
gi\|113564620, gi... - gi\|115458898\|ref\|NP_001053049.1\| Os04g0470200 [Oryza sativa (japonica cultivar-group)], gi\|113564620...	113.0	[0..1]	[95..1]
gi\|88181855, gi\|... - gi\|88181855\|gb\|EAQ89323.1\| hypothetical protein CHGG_05942 [Chaetomium globosum CBS 148.51], gi\|1161...	113.0	[0..1]	[93..1]

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Predicted Domain #1

Region A:
Residues: [1-119]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MKLVRFLMKL SHETVTIELK NGTQVHGTIT GVDVSMNTHL KAVKMTLKNR EPVQLETLSI  60
   61 RGNNIRYFIL PDSLPLDTLL VDVEPKVKSK KREAVAGRGR GRGRGRGRGR GRGRGGPRR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	26.154902
Match:	1b34A
Description:	D1 core SNRNP protein
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