YRC Public Data Repository - Protein Structure Prediction

Protein:	LCB1
Organism:	Saccharomyces cerevisiae
Length:	558 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 LCB1.

Description	E-value	Query Range	Subject Range
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	0.0	[1..558]	[1..558]
LCB1_YEAST - Serine palmitoyltransferase 1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=LCB1 PE=1 ... LCB1 - Component of serine palmitoyltransferase, responsible along with Lcb2p for the first committed step ... gi\|190408522 - gi\|190408522\|gb\|EDV11787.1\| serine palmitoyltransferase component [Saccharomyces cerevisiae RM11-1a] gi\|151946004 - gi\|151946004\|gb\|EDN64236.1\| serine palmitoyltransferase component [Saccharomyces cerevisiae YJM789] gi\|207342048 - gi\|207342048\|gb\|EDZ69929.1\| YMR296Cp-like protein [Saccharomyces cerevisiae AWRI1631]	0.0	[1..558]	[1..558]
HEM0_DELLE - 5-aminolevulinate synthase, erythroid-specific, mitochondrial OS=Delphinapterus leucas GN=ALAS2 PE=2...	0.0	[30..493]	[75..539]
gi\|202860 - gi\|202860\|gb\|AAA40724.1\| delta-aminolevulinate synthase precursor (EC 2.3.1.37)	0.0	[72..493]	[175..600]
gi\|28586 - gi\|28586\|emb\|CAA39795.1\| delta-aminolevulinate synthase (erythroid) [Homo sapiens]	0.0	[30..493]	[75..539]
HEM0_OPSTA - 5-aminolevulinate synthase, erythroid-specific, mitochondrial OS=Opsanus tau GN=alas2 PE=2 SV=1	0.0	[38..497]	[100..543]
lcb2 - serine palmitoyltransferase LCB2_SCHPO - Serine palmitoyltransferase 2 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=lcb2 PE=3 SV...	0.0	[6..527]	[49..589]
HEM0_DANRE - 5-aminolevulinate synthase, erythroid-specific, mitochondrial OS=Danio rerio GN=alas2 PE=2 SV=1	0.0	[29..493]	[79..539]
gi\|4433548 - gi\|4433548\|gb\|AAD20809.1\| 5-aminolevulinate synthase [Strongylocentrotus droebachiensis]	0.0	[69..524]	[114..584]

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Predicted Domain #1

Region A:
Residues: [1-85]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MAHIPEVLPK SIPIPAFIVT TSSYLWYYFN LVLTQIPGGQ FIVSYIKKSH HDDPYRTTVE  60
   61 IGLILYGIIY YLSKPQQKKS LQAQK

[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.

Predicted Domain #2

Region A:
Residues: [86-153]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PNLSPQEIDA LIEDWEPEPL VDPSATDEQS WRVAKTPVTM EMPIQNHITI TRNNLQEKYT  60
   61 NVFNLASN

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [412-558]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TLQKLSKSLH DSFASDDSLR SYVIVTSSPV SAVLHLQLTP AYRSRKFGYT CEQLFETMSA  60
   61 LQKKSQTNKF IEPYEEEEKF LQSIVDHALI NYNVLITRNT IVLKQETLPI VPSLKICCNA 120
  121 AMSPEELKNA CESVKQSILA CCQESNK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	309.741366
Match:	1fc4A_
Description:	2-amino-3-ketobutyrate CoA ligase
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [154-411]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NFLQLSATEP VKEVVKTTIK NYGVGACGPA GFYGNQDVHY TLEYDLAQFF GTQGSVLYGQ  60
   61 DFCAAPSVLP AFTKRGDVIV ADDQVSLPVQ NALQLSRSTV YYFNHNDMNS LECLLNELTE 120
  121 QEKLEKLPAI PRKFIVTEGI FHNSGDLAPL PELTKLKNKY KFRLFVDETF SIGVLGATGR 180
  181 GLSEHFNMDR ATAIDITVGS MATALGSTGG FVLGDSVMCL HQRIGSNAYC FSACLPAYTV 240
  241 TSVSKVLKLM DSNNDAVQ

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	309.741366
Match:	1fc4A_
Description:	2-amino-3-ketobutyrate CoA ligase
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