YRC Public Data Repository - Protein Structure Prediction

Protein:	SmD3-PA
Organism:	Drosophila melanogaster
Length:	151 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 SmD3-PA.

Description	E-value	Query Range	Subject Range
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...	119.0	[0..1]	[113..23]
gi\|54635267, gi\|... - gi\|54635267\|gb\|EAL24670.1\| GA21375-PA [Drosophila pseudoobscura], gi\|125806629\|ref\|XP_001360096.1\| G...	118.0	[0..1]	[106..1]
gi\|85091383 - gi\|85091383\|ref\|XP_958875.1\| hypothetical protein [Neurospora crassa OR74A] gi\|28920264, gi\|... - gi\|32414377\|ref\|XP_327668.1\| hypothetical protein [Neurospora crassa], gi\|28920264\|gb\|EAA29639.1\| hy...	116.0	[0..8]	[130..65]
gi\|91084331 - gi\|91084331\|ref\|XP_972583.1\| PREDICTED: similar to AGAP012380-PA [Tribolium castaneum]	114.0	[0..1]	[139..1]
gi\|54657392 - gi\|54657392\|gb\|EAL36172.1\| aspartyl protease-like [Cryptosporidium hominis] gi\|67601489 - gi\|67601489\|ref\|XP_666403.1\| aspartyl protease-like [Cryptosporidium hominis TU502]	113.0	[0..1]	[113..1]
gi\|47211785 - gi\|47211785\|emb\|CAF93753.1\| unnamed protein product [Tetraodon nigroviridis]	112.0	[0..1]	[106..1]
ENSCJAT00000018661 - null SNRPD3 - small nuclear ribonucleoprotein D3 polypeptide 18kDa SMD3_XENLA - Small nuclear ribonucleoprotein Sm D3 OS=Xenopus laevis GN=snrpd3 PE=2 SV=1 gi\|50756613, gi\|... - gi\|56119060\|ref\|NP_001007839.1\| small nuclear ribonucleoprotein D3 polypeptide 18kDa [Gallus gallus]... gi\|55659962 - gi\|55659962\|ref\|XP_515037.1\| PREDICTED: similar to small nuclear ribonucleoprotein polypeptide D3; s... gi\|149720126 - gi\|149720126\|ref\|XP_001489110.1\| PREDICTED: similar to small nuclear ribonucleoprotein polypeptide D... gi\|149632566 - gi\|149632566\|ref\|XP_001509901.1\| PREDICTED: similar to Sm D3 [Ornithorhynchus anatinus] gi\|89266931, gi\|... - gi\|89266931\|emb\|CAJ81806.1\| small nuclear ribonucleoprotein D3 polypeptide 18kDa [Xenopus tropicalis... gi\|90085617 - gi\|90085617\|dbj\|BAE91549.1\| unnamed protein product [Macaca fascicularis] SMD3_MOUSE - Small nuclear ribonucleoprotein Sm D3 OS=Mus musculus GN=Snrpd3 PE=1 SV=1 gi\|73995845 - gi\|73995845\|ref\|XP_849660.1\| PREDICTED: similar to small nuclear ribonucleoprotein D3 [Canis familia... gi\|126344584 - gi\|126344584\|ref\|XP_001362481.1\| PREDICTED: similar to Sm D3 [Monodelphis domestica] CCDS13828.1_1 - null gi\|542170044\|ref... - PREDICTED: small nuclear ribonucleoprotein Sm D3 [Zonotrichia albicollis] gi\|149043764, gi... - gi\|149043764\|gb\|EDL97215.1\| rCG60635, isoform CRA_b [Rattus norvegicus], gi\|109509970\|ref\|XP_0010798... HGNC:11160\|MIM:6... - nuclear ribonucleoprotein D3 polypeptide 18kDa tr\|G1SMM7\|G1SMM7... - pep:novel scaffold:oryCun2:GL018810:639704:651617:1 gene:ENSOCUG00000004845 transcript:ENSOCUT000000... gi\|197129341, gi... - gi\|224072091\|ref\|XP_002199918.1\| PREDICTED: putative small nuclear ribonucleoprotein D3 polypeptide ... gi\|194043334, gi... - gi\|194043336\|ref\|XP_001929282.1\| PREDICTED: similar to small nuclear ribonucleoprotein polypeptide D... tr\|F1MZ00\|F1MZ00... - Uncharacterized protein OS=Bos taurus GN=SNRPD3 PE=4 SV=2 gi\|109451504, gi... - gi\|208965532\|dbj\|BAG72780.1\| small nuclear ribonucleoprotein D3 polypeptide [synthetic construct], g... gi\|109093572, gi... - gi\|109093574\|ref\|XP_001096291.1\| PREDICTED: similar to small nuclear ribonucleoprotein D3 isoform 2 ...	112.0	[0..1]	[106..1]
LSM4_TOBAC - Probable U6 snRNA-associated Sm-like protein LSm4 OS=Nicotiana tabacum PE=2 SV=1	111.0	[0..5]	[121..2]
gi\|148227688, gi... - gi\|27371312\|gb\|AAH40973.1\| MGC52856 protein [Xenopus laevis], gi\|148227688\|ref\|NP_001079359.1\| hypot...	111.0	[0..1]	[106..1]
gi\|74007795 - gi\|74007795\|ref\|XP_534749.2\| PREDICTED: similar to small nuclear ribonucleoprotein D3 [Canis familia...	111.0	[0..1]	[106..1]

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Predicted Domain #1

Region A:
Residues: [1-151]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSIGVPIKVL HEAEGHIITC ETITGEVYRG KLIEAEDNMN CQMTQITVTY RDGRTANLEN  60
   61 VYIRGSKIRF LILPDMLKNA PMFKKQTGKG LGGTAGRGKA AILRAQARGR GRGGPPGGGR 120
  121 GTGGPPGAPG GSGGRGAWQG GPTGGRGRGG L

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	18.69897
Match:	1d3bA
Description:	D3 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