YRC Public Data Repository - Protein Structure Prediction

Protein:	APH1B_MOUSE
Organism:	Mus musculus
Length:	257 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 APH1B_MOUSE.

Description	E-value	Query Range	Subject Range
gi\|110293151, gi... - gi\|34864291\|ref\|XP_217185.2\| PREDICTED: similar to APH1B homolog (C.elegans) [Rattus norvegicus], gi...	386.0	[0..1]	[257..1]
APH1C_MOUSE - Putative gamma-secretase subunit APH-1C OS=Mus musculus GN=Aph1c PE=2 SV=1	372.0	[0..1]	[257..1]
gi\|67970371 - gi\|67970371\|dbj\|BAE01528.1\| unnamed protein product [Macaca fascicularis]	361.0	[0..1]	[257..1]
gi\|109081433 - gi\|109081433\|ref\|XP_001105067.1\| PREDICTED: similar to presenilin stabilization factor-like [Macaca ...	360.0	[0..1]	[257..1]
APH1B_PONAB - Gamma-secretase subunit APH-1B OS=Pongo abelii GN=APH1B PE=2 SV=1 APH1B_PONPY - Gamma-secretase subunit APH-1B - Pongo pygmaeus (Orangutan)	358.0	[0..1]	[257..1]
APH1B - anterior pharynx defective 1 homolog B (C. elegans) gi\|123980996 - gi\|123980996\|gb\|ABM82327.1\| anterior pharynx defective 1 homolog B (C. elegans) [synthetic construct... gi\|114657498 - gi\|114657498\|ref\|XP_523094.2\| PREDICTED: presenilin stabilization factor-like isoform 2 [Pan troglod...	358.0	[0..1]	[257..1]
APH1B_DANRE - Gamma-secretase subunit Aph-1b OS=Danio rerio GN=aph1b PE=2 SV=1	345.0	[0..1]	[257..1]

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Predicted Domain #1

Region A:
Residues: [1-94]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTAAVFFGCA FIAFGPALAL YVFTIATDPL RVIFLIAGAF FWLVSLLLSS VFWFLVRVIT  60
   61 DNRDGPVQNY LLIFGVLLSV CIQELFRLAY YKLL

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #2

Region A:
Residues: [95-150]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KKASEGLKSI NPEETAPSMR LLAYVSGLGF GIMSGVFSFV NTLSNSLGPG TVGIHG

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #3

Region A:
Residues: [151-257]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DSPQFFLNSA FMTLVVIMLH VFWGVVFFDG CEKNKWYTLL TVLLTHLVVS TQTFLSPYYE  60
   61 VNLVTAYIIM VLMGIWAFYV AGGSCRSLKL CLLCQDKDFL LYNQRSR

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

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