YRC Public Data Repository - Protein Structure Prediction

Protein:	LCB2
Organism:	Saccharomyces cerevisiae
Length:	561 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 LCB2.

Description	E-value	Query Range	Subject Range
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	0.0	[1..561]	[1..561]
LCB2 - Component of serine palmitoyltransferase, responsible along with Lcb1p for the first committed step ... LCB2_YEAST - Serine palmitoyltransferase 2 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=LCB2 PE=1 ... gi\|190404970 - gi\|190404970\|gb\|EDV08237.1\| serine palmitoyltransferase component [Saccharomyces cerevisiae RM11-1a] gi\|207346790 - gi\|207346790\|gb\|EDZ73183.1\| YDR062Wp-like protein [Saccharomyces cerevisiae AWRI1631]	0.0	[1..561]	[1..561]
LCB2_KLULA - Serine palmitoyltransferase 2 OS=Kluyveromyces lactis GN=LCB2 PE=3 SV=2 LCB2_KLULA - Serine palmitoyltransferase 2 OS=Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBR...	0.0	[8..559]	[7..560]
gi\|6648613 - gi\|6648613\|gb\|AAF21252.1\|AF053456_1 serine palmitoyl Co-A transferase subunit 2 [Pichia ciferrii]	0.0	[10..560]	[5..557]
lcb2 - serine palmitoyltransferase LCB2_SCHPO - Serine palmitoyltransferase 2 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=lcb2 PE=3 SV...	0.0	[1..554]	[34..601]
SPTC2_MOUSE - Serine palmitoyltransferase 2 OS=Mus musculus GN=Sptlc2 PE=1 SV=2	0.0	[29..529]	[35..540]
SPTLC2 - serine palmitoyltransferase, long chain base subunit 2 gi\|168267396, gi... - gi\|168267396\|dbj\|BAG09754.1\| serine palmitoyltransferase 2 [synthetic construct], gi\|124000553\|gb\|AB...	0.0	[29..529]	[37..542]
SPTC2_CRIGR - Serine palmitoyltransferase 2 OS=Cricetulus griseus GN=SPTLC2 PE=2 SV=1	0.0	[29..527]	[35..538]

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Predicted Domain #1

Region A:
Residues: [1-99]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSTPANYTRV PLCEPEELPD DIQKENEYGT LDSPGHLYQV KSRHGKPLPE PVVDTPPYYI  60
   61 SLLTYLNYLI LIILGHVHDF LGMTFQKNKH LDLLEHDGL

[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: [100-163]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 APWFSNFESF YVRRIKMRID DCFSRPTTGV PGRFIRCIDR ISHNINEYFT YSGAVYPCMN  60
   61 LSSY

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [428-561]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 RIAFNSRYLR LALQRLGFIV YGVADSPVIP LLLYCPSKMP AFSRMMLQRR IAVVVVAYPA  60
   61 TPLIESRVRF CMSASLTKED IDYLLRHVSE VGDKLNLKSN SGKSSYDGKR QRWDIEEVIR 120
  121 RTPEDCKDDK YFVN

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	499.325697
Match:	1fc4A_
Description:	2-amino-3-ketobutyrate CoA ligase
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
serine C-palmitoyltransferase activity	9.1839236553858	bayes_pls_golite062009
C-palmitoyltransferase activity	9.1839236553858	bayes_pls_golite062009
C-acyltransferase activity	4.29379571948906	bayes_pls_golite062009
5-aminolevulinate synthase activity	3.15163480353521	bayes_pls_golite062009
L-aspartate:2-oxoglutarate aminotransferase activity	2.82458180884712	bayes_pls_golite062009
catalytic activity	2.29878871754893	bayes_pls_golite062009
N-succinyltransferase activity	1.81799375593294	bayes_pls_golite062009
threonine aldolase activity	1.80396420390785	bayes_pls_golite062009
adenosylmethionine-8-amino-7-oxononanoate transaminase activity	1.74778109525713	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-NH2 group of donors, disulfide as acceptor	1.46601963907552	bayes_pls_golite062009
glycine dehydrogenase (decarboxylating) activity	1.46601963907552	bayes_pls_golite062009
transferase activity, transferring nitrogenous groups	1.28316822767388	bayes_pls_golite062009
transaminase activity	1.24990480711889	bayes_pls_golite062009
transcription regulator activity	1.07873942461292	bayes_pls_golite062009
glycine C-acetyltransferase activity	0.935794708043259	bayes_pls_golite062009
DNA binding	0.886628214497634	bayes_pls_golite062009
nucleic acid binding	0.814403324199462	bayes_pls_golite062009
structural molecule activity	0.811208803619077	bayes_pls_golite062009
transferase activity	0.737426388870721	bayes_pls_golite062009
carbon-sulfur lyase activity	0.698312655247044	bayes_pls_golite062009
binding	0.661198018681765	bayes_pls_golite062009
intramolecular transferase activity, transferring amino groups	0.659071155545801	bayes_pls_golite062009
transcription factor activity	0.615294010373048	bayes_pls_golite062009
transferase activity, transferring acyl groups	0.319452731970428	bayes_pls_golite062009
cystathionine beta-lyase activity	0.15938456446406	bayes_pls_golite062009
sulfurtransferase activity	0.0450490929307473	bayes_pls_golite062009

Predicted Domain #3

Region A:
Residues: [164-427]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NYLGFAQSKG QCTDAALESV DKYSIQSGGP RAQIGTTDLH IKAEKLVARF IGKEDALVFS  60
   61 MGYGTNANLF NAFLDKKCLV ISDELNHTSI RTGVRLSGAA VRTFKHGDMV GLEKLIREQI 120
  121 VLGQPKTNRP WKKILICAEG LFSMEGTLCN LPKLVELKKK YKCYLFIDEA HSIGAMGPTG 180
  181 RGVCEIFGVD PKDVDILMGT FTKSFGAAGG YIAADQWIID RLRLDLTTVS YSESMPAPVL 240
  241 AQTISSLQTI SGEICPGQGT ERLQ

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	499.325697
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

Predicted functions: