YRC Public Data Repository - Protein Structure Prediction

Protein:	APA1
Organism:	Saccharomyces cerevisiae
Length:	321 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 APA1.

Description	E-value	Query Range	Subject Range
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	0.0	[1..321]	[1..321]
APA1_YEAST - Protein APA1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=APA1 PE=1 SV=4 gi\|207347386 - gi\|207347386\|gb\|EDZ73576.1\| YCL050Cp-like protein [Saccharomyces cerevisiae AWRI1631] gi\|190406398 - gi\|190406398\|gb\|EDV09665.1\| diadenosine 5',5'-P1,P4-tetraphosphate phosphorylase I [Saccharomyces ce... APA1 - Diadenosine 5',5''-P1,P4-tetraphosphate phosphorylase I (AP4A phosphorylase), involved in catabolism... gi\|151943783 - gi\|151943783\|gb\|EDN62083.1\| diadenosine 5',5'''-P1,P4-tetraphosphate phosphorylase I [Saccharomyces ...	0.0	[1..321]	[1..321]
APA2_KLULA - 5',5'''-P-1,P-4-tetraphosphate phosphorylase 2 OS=Kluyveromyces lactis GN=APA2 PE=3 SV=1 APA2_KLULA - Diadenosine 5',5'''-P1,P4-tetraphosphate phosphorylase 2 OS=Kluyveromyces lactis (strain ATCC 8585 /...	0.0	[4..321]	[3..331]
gi\|17133602, gi\|... - gi\|17231958\|ref\|NP_488506.1\| Ap4A phosphorylase II [Nostoc sp. PCC 7120], gi\|17133602\|dbj\|BAB76165.1... gi\|25530194 - pir\|\|AB2364 Ap4A phosphorylase II [imported] - Nostoc sp. (strain PCC 7120)	2.0E-65	[4..294]	[12..289]
gi\|7469381 - pir\|\|S75978 hypothetical protein - Synechocystis sp. (strain PCC 6803) gi\|16332026, gi\|... - gi\|16332026\|ref\|NP_442754.1\| AP-4-A phosphorylase II [Synechocystis sp. PCC 6803], gi\|1001338\|dbj\|BA...	2.0E-56	[91..285]	[108..279]
gi\|5458401, gi\|7... - pir\|\|D75073 hit-like protein PAB0657 - Pyrococcus abyssi (strain Orsay), gi\|5458401\|emb\|CAB49889.1\| ... gi\|5458401, gi\|1... - gi\|5458401\|emb\|CAB49889.1\| Histidine triad (HIT) protein [Pyrococcus abyssi GE5], gi\|14521183\|ref\|NP...	0.005	[64..163]	[2..99]
AGLUP_ARATH - ADP-glucose phosphorylase OS=Arabidopsis thaliana GN=At5g18200 PE=1 SV=1	0.008	[114..185]	[141..213]

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Predicted Domain #1

Region A:
Residues: [1-185]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSIPADIASL ISDKYKSAFD NGNLKFIQTE TTKTKDPKTS MPYLISHMPS LIEKPERGQT  60
   61 PEGEDPLGKP EEELTVIPEF GGADNKAYKL LLNKFPVIPE HTLLVTNEYQ HQTDALTPTD 120
  121 LLTAYKLLCA LDNEESDKRH MVFYNSGPAS GSSLDHKHLQ ILQMPEKFVT FQDRLCNGKE 180
  181 HFLPT

[Run NCBI BLAST on this sequence.]

Detection Method:	ORFEUS
Confidence:	7.22
Match:	1gupA
Description:	Galactose-1-phosphate uridylyltransferase
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
nucleic acid binding	1.74990165024183	bayes_pls_golite062009
binding	1.71599870633602	bayes_pls_golite062009
hydrolase activity	0.690968602046843	bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups	0.342529552808262	bayes_pls_golite062009
protein binding	0.315946879872005	bayes_pls_golite062009
catalytic activity	0.096119422680995	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [186-321]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 FNTEPLQDAK VSFAHFVLPM PESEETVDED LLAMCYISIL QRALTFFQDW LNENPELKKS  60
   61 YNLMLTKEWI CVVPRSKAFS DEMKIGFNST GYCGMILTKN DEVFSKITEK PELINDILLE 120
  121 CGFPNTSGQK PNEYNY

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below is our most confident de novo (Rosetta) 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

Predicted functions: