YRC Public Data Repository - Protein Structure Prediction

Protein:	GPD2
Organism:	Saccharomyces cerevisiae
Length:	440 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 GPD2.

Description	E-value	Query Range	Subject Range
gi\|151945575 - gi\|151945575\|gb\|EDN63816.1\| glycerol-3-phosphate dehydrogenase (NAD+) [Saccharomyces cerevisiae YJM7... GPD2_YEAST - Glycerol-3-phosphate dehydrogenase [NAD(+)] 2, mitochondrial OS=Saccharomyces cerevisiae (strain ATC... gi\|190407286 - gi\|190407286\|gb\|EDV10553.1\| glycerol-3-phosphate dehydrogenase [Saccharomyces cerevisiae RM11-1a] GPD2 - NAD-dependent glycerol 3-phosphate dehydrogenase, homolog of Gpd1p, expression is controlled by an o...	0.0	[1..440]	[1..440]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	8.0E-97	[49..414]	[1..366]
gi\|577307 - gi\|577307\|dbj\|BAA07648.1\| KIAA0089 [Homo sapiens]	1.0E-95	[37..434]	[31..406]
GPD1_ZYGRO - Glycerol-3-phosphate dehydrogenase [NAD(+)] 1 OS=Zygosaccharomyces rouxii GN=GPD1 PE=3 SV=1	5.0E-95	[63..439]	[14..389]
GPDA_MOUSE - Glycerol-3-phosphate dehydrogenase [NAD(+)], cytoplasmic OS=Mus musculus GN=Gpd1 PE=1 SV=3	5.0E-93	[84..434]	[4..344]

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Predicted Domain #1

Region A:
Residues: [1-71]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MLAVRRLTRY TFLKRTHPVL YTRRAYKILP SRSTFLRRSL LQTQLHSKMT AHTNIKQHKH  60
   61 CHEDHPIRRS D

[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.

		MCM Score	SCOP Match	SCOP Description
View	Download	0.820	a.23.1	HSC20 (HSCB), C-terminal oligomerisation domain

Predicted Domain #2

Region A:
Residues: [72-289]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SAVSIVHLKR APFKVTVIGS GNWGTTIAKV IAENTELHSH IFEPEVRMWV FDEKIGDENL  60
   61 TDIINTRHQN VKYLPNIDLP HNLVADPDLL HSIKGADILV FNIPHQFLPN IVKQLQGHVA 120
  121 PHVRAISCLK GFELGSKGVQ LLSSYVTDEL GIQCGALSGA NLAPEVAKEH WSETTVAYQL 180
  181 PKDYQGDGKD VDHKILKLLF HRPYFHVNVI DDVAGISI

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [334-347]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PESKVETYYQ ESAG

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	216.440336
Match:	1evyA_
Description:	Glycerol-3-phosphate dehydrogenase; Glycerol-3- phosphate dehydrogenase
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [290-333]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 AGALKNVVAL ACGFVEGMGW GNNASAAIQR LGLGEIIKFG RMFF

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [348-440]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 VADLITTCSG GRNVKVATYM AKTGKSALEA EKELLNGQSA QGIITCREVH EWLQTCELTQ  60
   61 EFPLFEAVYQ IVYNNVRMED LPEMIEELDI DDE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	216.440336
Match:	1evyA_
Description:	Glycerol-3-phosphate dehydrogenase; Glycerol-3- phosphate dehydrogenase
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