YRC Public Data Repository - Protein Structure Prediction

Protein:	RAM2
Organism:	Saccharomyces cerevisiae
Length:	316 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 RAM2.

Description	E-value	Query Range	Subject Range
gi\|5052534 - gi\|5052534\|gb\|AAD38597.1\|AF145622_1 BcDNA.GH04245 [Drosophila melanogaster]	2.0E-47	[9..313]	[163..466]
RAM2 - Alpha subunit of both the farnesyltransferase and type I geranylgeranyltransferase that catalyze pre... gi\|151941525 - gi\|151941525\|gb\|EDN59888.1\| CAAX geranylgeranyltransferase alpha subunit [Saccharomyces cerevisiae Y... FNTA_YEAST - Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha OS=Saccharomyces cerevisi... gi\|190409803 - gi\|190409803\|gb\|EDV13068.1\| CAAX farnesyltransferase alpha subunit [Saccharomyces cerevisiae RM11-1a...	1.0E-46	[1..316]	[1..316]
gi\|13775066 - gi\|13775066\|gb\|AAK39123.1\|AF363030_1 UDP-N-acetylglucosaminyltransferase [Mus musculus]	3.0E-45	[13..313]	[138..437]
OGT1_RAT - UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110 kDa subunit OS=Rattus norvegicu...	4.0E-45	[13..313]	[128..427]
OGT - O-linked N-acetylglucosamine (GlcNAc) transferase (UDP-N-acetylglucosamine:polypeptide-N-acetylgluco... gi\|123993895, gi... - gi\|224487755\|dbj\|BAH24112.1\| O-linked N-acetylglucosamine (GlcNAc) transferase [synthetic construct]...	6.0E-45	[13..313]	[128..427]
ogt-1 - status:Confirmed UniProt:O18158 protein_id:AAA62535.2	2.0E-40	[13..313]	[242..541]
FNTA_SOLLC - Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha OS=Solanum lycopersicum G...	6.0E-40	[2..313]	[15..324]
gi\|17231265, gi\|... - gi\|17231265\|ref\|NP_487813.1\| serine/threonine kinase [Nostoc sp. PCC 7120], gi\|17132907\|dbj\|BAB75472... gi\|25533209 - pir\|\|AF2277 serine/threonine kinase [imported] - Nostoc sp. (strain PCC 7120)	7.0E-40	[14..307]	[379..671]

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Predicted Domain #1

Region A:
Residues: [1-124]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MEEYDYSDVK PLPIETDLQD ELCRIMYTED YKRLMGLARA LISLNELSPR ALQLTAEIID  60
   61 VAPAFYTIWN YRFNIVRHMM SESEDTVLYL NKELDWLDEV TLNNPKNYQI WSYRQSLLKL 120
  121 HPSP

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	343.927757
Match:	1jcqA_
Description:	Protein farnesyltransferase alpha-subunit
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
protein geranylgeranyltransferase activity	12.6759732522795	bayes_pls_golite062009
protein farnesyltransferase activity	12.1496415778348	bayes_pls_golite062009
prenyltransferase activity	11.9861287863026	bayes_pls_golite062009
CAAX-protein geranylgeranyltransferase activity	10.4593287273566	bayes_pls_golite062009
protein prenyltransferase activity	8.98854711542899	bayes_pls_golite062009
Rab geranylgeranyltransferase activity	6.64922604670914	bayes_pls_golite062009
acetylcholine receptor regulator activity	2.46174453725203	bayes_pls_golite062009
transferase activity	1.86754243570948	bayes_pls_golite062009
binding	1.29714843812125	bayes_pls_golite062009
catalytic activity	0.874200184943744	bayes_pls_golite062009
protein binding	0.478870166958436	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [125-208]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SFKRELPILK LMIDDDSKNY HVWSYRKWCC LFFSDFQHEL AYASDLIETD IYNNSAWTHR  60
   61 MFYWVNAKDV ISKVELADEL QFIM

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	343.927757
Match:	1jcqA_
Description:	Protein farnesyltransferase alpha-subunit
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [209-316]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DKIQLVPQNI SPWTYLRGFQ ELFHDRLQWD SKVVDFATTF IGDVLSLPIG SPEDLPEIES  60
   61 SYALEFLAYH WGADPCTRDN AVKAYSLLAI KYDPIRKNLW HHKINNLN

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	343.927757
Match:	1jcqA_
Description:	Protein farnesyltransferase alpha-subunit
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: