YRC Public Data Repository - Protein Structure Prediction

Protein:	NPL3
Organism:	Saccharomyces cerevisiae
Length:	414 amino acids
Reference:	Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076

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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 NPL3.

Description	E-value	Query Range	Subject Range
gi\|19526272 - gi\|19526272\|gb\|AAL89666.1\|AF411956_7 polyA-binding protein [Takifugu rubripes]	9.0E-75	[65..412]	[137..513]
PABP1_MOUSE - Polyadenylate-binding protein 1 OS=Mus musculus GN=Pabpc1 PE=1 SV=2	3.0E-73	[65..412]	[137..528]
PABP1_BOVIN - Polyadenylate-binding protein 1 OS=Bos taurus GN=PABPC1 PE=2 SV=1 gi\|109087089 - gi\|109087089\|ref\|XP_001098239.1\| PREDICTED: poly(A) binding protein, cytoplasmic 1 isoform 2 [Macaca... gi\|123993665, gi... - gi\|168278070\|dbj\|BAG11013.1\| polyadenylate-binding protein 1 [synthetic construct], gi\|123999981\|gb\|... gi\|194036975 - gi\|194036975\|ref\|XP_001927782.1\| PREDICTED: similar to Polyadenylate-binding protein 1 (Poly(A)-bind... PABPC1 - poly(A) binding protein, cytoplasmic 1 gi\|73974130, gi\|... - gi\|73974178\|ref\|XP_857695.1\| PREDICTED: similar to Polyadenylate-binding protein 1 (Poly(A)-binding ...	3.0E-73	[65..412]	[137..528]
PABP1_RAT - Polyadenylate-binding protein 1 OS=Rattus norvegicus GN=Pabpc1 PE=1 SV=1	1.0E-72	[65..412]	[137..528]
gi\|13540314 - gi\|13540314\|gb\|AAK29408.1\|AF338225_1 embryonic poly(A) binding protein [Xenopus laevis]	1.0E-68	[61..404]	[133..516]
gi\|780291 - gi\|780291\|gb\|AAA65224.1\| polyadenylate-binding protein	8.0E-67	[60..414]	[154..516]

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Predicted Domain #1

Region A:
Residues: [1-124]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSEAQETHVE QLPESVVDAP VEEQHQEPPQ APDAPQEPQV PQESAPQESA PQEPPAPQEQ  60
   61 NDVPPPSNAP IYEGEESHSV QDYQEAHQHH QPPEPQPYYP PPPPGEHMHG RPPMHHRQEG 120
  121 ELSN

[Run NCBI BLAST on this sequence.]

Detection Method:	ORFEUS
Confidence:	9.87
Match:	1ldvA
Description:	No description for 1ldvA was found.

Predicted Domain #2

Region A:
Residues: [125-195]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TRLFVRPFPL DVQESELNEI FGPFGPMKEV KILNGFAFVE FEEAESAAKA IEEVHGKSFA  60
   61 NQPLEVVYSK L

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	84.512579
Match:	1b7fA_
Description:	Sex-lethal protein
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
binding	0.950788308762215	bayes_pls_golite062009
nucleic acid binding	0.29562225149076	bayes_pls_golite062009

Predicted Domain #3

Region A:
Residues: [196-274]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PAKRYRITMK NLPEGCSWQD LKDLARENSL ETTFSSVNTR DFDGTGALEF PSEEILVEAL  60
   61 ERLNNIEFRG SVITVERDD

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	84.512579
Match:	1b7fA_
Description:	Sex-lethal protein
Matching Structure (courtesy of the PDB):

Predicted Domain #4

Region A:
Residues: [275-414]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NPPPIRRSNR GGFRGRGGFR GGFRGGFRGG FSRGGFGGPR GGFGGPRGGY GGYSRGGYGG  60
   61 YSRGGYGGSR GGYDSPRGGY DSPRGGYSRG GYGGPRNDYG PPRGSYGGSR GGYDGPRGDY 120
  121 GPPRDAYRTR DAPRERSPTR

[Run NCBI BLAST on this sequence.]

Detection Method:	ORFEUS
Confidence:	13.2
Match:	1deqA
Description:	Fibrinogen
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

Predicted functions: