YRC Public Data Repository - Protein Structure Prediction

Protein:	APOC1_RAT
Organism:	Rattus norvegicus
Length:	88 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

[What does the above image mean?]

[Show Ginzu Version Information]

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 APOC1_RAT.

Description	E-value	Query Range	Subject Range
tr\|M0R547\|M0R547_RAT - Protein LOC100910181 OS=Rattus norvegicus GN=LOC100910181 PE=4 SV=1 APOC1_MOUSE - Apolipoprotein C-I OS=Mus musculus GN=Apoc1 PE=1 SV=1	135.0	[0..1]	[88..1]
gi\|68398041 - gi\|68398041\|ref\|XP_699235.1\| PREDICTED: hypothetical protein [Danio rerio]	117.0	[0..1]	[88..38]
APOC1_CANLF - Apolipoprotein C-I OS=Canis lupus familiaris GN=APOC1 PE=1 SV=1	107.0	[0..19]	[88..19]
APOC1_TUPGL - Apolipoprotein C-I OS=Tupaia glis GN=APOC1 PE=3 SV=1	105.0	[0..19]	[88..19]
gi\|285199 - gi\|285199\|pir\|\|A42006 apolipoprotein C-I precursor - baboon APO1B_PAPHA - Apolipoprotein C-I, basic form OS=Papio hamadryas GN=APOC1B PE=1 SV=1	101.0	[0..1]	[84..1]
gi\|178834 - gi\|178834\|gb\|AAA51762.1\| apolipoprotein CI [Homo sapiens]	99.0	[0..15]	[84..1]
gi\|47212683 - gi\|47212683\|emb\|CAF95503.1\| unnamed protein product [Tetraodon nigroviridis]	98.0	[0..1]	[83..1]
gi\|48526102 - gi\|48526102\|gb\|AAT45249.1\| unknown [Sparus aurata]	98.0	[0..1]	[85..1]
gi\|61370995, gi\|... - gi\|61371003\|gb\|AAX43591.1\| apolipoprotein C-I [synthetic construct], gi\|61370995\|gb\|AAX43590.1\| apol...	97.0	[0..1]	[84..1]

Back

Predicted Domain #1

Region A:
Residues: [1-88]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MRLFIALPVL IVVVAMALEG PAPAQAAPDF SSAMESLPDK LKEFGNTLED KARAAIEHIK  60
   61 QKEIMIKTRN WFSETLNKMK EKLKTTFA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	14.69897
Match:	1iojA
Description:	HUMAN APOLIPOPROTEIN C-I, NMR, 18 STRUCTURES
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