YRC Public Data Repository - Protein Structure Prediction

Protein:	EMG1
Organism:	Saccharomyces cerevisiae
Length:	252 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 EMG1.

Description	E-value	Query Range	Subject Range
EMG1 - Member of the alpha/beta knot fold methyltransferase superfamily; required for maturation of 18S rRN... gi\|151941029 - gi\|151941029\|gb\|EDN59409.1\| conserved protein [Saccharomyces cerevisiae YJM789] NEP1_YEAST - Ribosomal RNA small subunit methyltransferase NEP1 OS=Saccharomyces cerevisiae (strain ATCC 204508 /... gi\|190405254 - gi\|190405254\|gb\|EDV08521.1\| nucleolar essential protein 1 [Saccharomyces cerevisiae RM11-1a] gi\|207342990 - gi\|207342990\|gb\|EDZ70592.1\| YLR186Wp-like protein [Saccharomyces cerevisiae AWRI1631]	0.0	[1..252]	[1..252]
NEP1_CANAX - Ribosomal RNA small subunit methyltransferase NEP1 OS=Candida albicans GN=NEP1 PE=3 SV=1	2.0E-96	[20..251]	[35..266]
NEP1_SCHPO - Ribosomal RNA small subunit methyltransferase mra1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 2... mra1 - ribosome biogenesis protein Mra1	1.0E-91	[6..252]	[116..359]
gi\|2276396 - gi\|2276396\|gb\|AAC51641.1\| C2f [Homo sapiens]	2.0E-89	[12..252]	[8..239]
NEP1_MOUSE - Ribosomal RNA small subunit methyltransferase NEP1 OS=Mus musculus GN=Emg1 PE=1 SV=1	1.0E-84	[15..252]	[16..244]
NEP1_CANGA - Nucleolar essential protein 1 OS=Candida glabrata GN=NEP1 PE=3 SV=1 NEP1_CANGA - Ribosomal RNA small subunit methyltransferase NEP1 OS=Candida glabrata (strain ATCC 2001 / CBS 138 /...	2.0E-80	[1..252]	[1..229]
CE19133 - status:Confirmed UniProt:Q9XX15 protein_id:CAA21025.1	7.0E-75	[17..252]	[3..231]
gi\|11357621, gi\|... - gi\|6911870\|emb\|CAB72170.1\| putative protein [Arabidopsis thaliana], gi\|28466945\|gb\|AAO44081.1\| At3g5...	1.0E-70	[18..252]	[68..298]
NEP1_PYRHO - Probable ribosome biogenesis protein NEP1-like OS=Pyrococcus horikoshii GN=PH1379 PE=3 SV=1 NEP1_PYRHO - Ribosomal RNA small subunit methyltransferase Nep1 OS=Pyrococcus horikoshii (strain ATCC 700860 / DS...	3.0E-57	[37..252]	[3..224]
NEP1_PYRAB - Probable ribosome biogenesis protein NEP1-like OS=Pyrococcus abyssi GN=PYRAB07690 PE=3 SV=1 NEP1_PYRAB - Ribosomal RNA small subunit methyltransferase Nep1 OS=Pyrococcus abyssi (strain GE5 / Orsay) GN=nep1...	5.0E-55	[37..252]	[3..224]

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Predicted Domain #1

Region A:
Residues: [1-61]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MVEDSRVRDA LKGGDQKALP ASLVPQAPPV LTSKDKITKR MIVVLAMASL ETHKISSNGP  60
   61 G

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below are all of our de novo (Rosetta) predictions for this domain.
Click here to view only most confident match.

		MCM Score	SCOP Match	SCOP Description
View	Download	0.759	a.60.1	SAM/Pointed domain
View	Download	0.723	a.144.1	PABC (PABP) domain
View	Download	0.597	a.140.4	Recombination endonuclease VII, C-terminal and dimerization domains
View	Download	0.622	g.27.1	Fibronectin type I module
View	Download	0.580	d.48.1	RecA protein, C-terminal domain
View	Download	0.555	a.20.1	PGBD-like
View	Download	0.554	b.122.1	PUA domain-like
View	Download	0.527	a.46.2	Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain
View	Download	0.508	a.4.1	Homeodomain-like
View	Download	0.495	d.46.1	Transcription-state regulator AbrB, the N-terminal DNA recognition domain
View	Download	0.493	a.36.1	Signal peptide-binding domain
View	Download	0.405	a.60.3	C-terminal domain of RNA polymerase alpha subunit
View	Download	0.361	a.5.7	4-hydroxy-2-oxovalerate aldolase DmpG, communication domain
View	Download	0.348	a.140.1	LEM domain
View	Download	0.312	d.188.1	Prokaryotic ribosomal protein L17
View	Download	0.305	a.39.1	EF-hand
View	Download	0.296	a.6.1	Putative DNA-binding domain
View	Download	0.275	a.64.1	Saposin
View	Download	0.264	a.22.1	Histone-fold
View	Download	0.251	d.237.1	Hypothetical protein YjiA, C-terminal domain
View	Download	0.230	a.156.1	S13-like H2TH domain
View	Download	0.217	d.68.3	SirA-like

Predicted functions:

Term	Confidence	Notes
RNA methyltransferase activity	3.73300070859272	bayes_pls_golite062009
tRNA methyltransferase activity	2.75506106783732	bayes_pls_golite062009
methyltransferase activity	2.52574509568717	bayes_pls_golite062009
transferase activity, transferring one-carbon groups	2.44351066049012	bayes_pls_golite062009
S-adenosylmethionine-dependent methyltransferase activity	2.00166711852993	bayes_pls_golite062009
RNA binding	1.99948490385053	bayes_pls_golite062009
tRNA (guanine) methyltransferase activity	1.9680534181971	bayes_pls_golite062009
rRNA methyltransferase activity	1.94772102267592	bayes_pls_golite062009
binding	1.07947949398964	bayes_pls_golite062009
nucleic acid binding	0.987186921436979	bayes_pls_golite062009
catalytic activity	0.797300463760338	bayes_pls_golite062009
transferase activity	0.489526737652591	bayes_pls_golite062009
rRNA (guanine) methyltransferase activity	0.425953878527171	bayes_pls_golite062009
protein binding	0.303628351374506	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [62-252]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GDKYVLLNCD DHQGLLKKMG RDISEARPDI THQCLLTLLD SPINKAGKLQ VYIQTSRGIL  60
   61 IEVNPTVRIP RTFKRFSGLM VQLLHKLSIR SVNSEEKLLK VIKNPITDHL PTKCRKVTLS 120
  121 FDAPVIRVQD YIEKLDDDES ICVFVGAMAR GKDNFADEYV DEKVGLSNYP LSASVACSKF 180
  181 CHGAEDAWNI L

[Run NCBI BLAST on this sequence.]

Detection Method:	Pfam
Confidence:	94.481486
Match:	PF03587
Description:	Nep1 ribosome biogenesis protein

Shown below are all of our structure predictions for this domain.
Click here to view only most confident match.

Found no 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: