YRC Public Data Repository - Protein Structure Prediction

Protein:	TGS1
Organism:	Saccharomyces cerevisiae
Length:	315 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 TGS1.

Description	E-value	Query Range	Subject Range
TGS1 - Trimethyl guanosine synthase, conserved nucleolar methyl transferase that converts the m(7)G cap str... TGS1_YEAST - Trimethylguanosine synthase OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=TGS1 PE=1 SV...	7.0E-66	[1..315]	[1..315]
Y687_BACHD - Uncharacterized RNA methyltransferase BH0687 OS=Bacillus halodurans GN=BH0687 PE=3 SV=1 Y687_BACHD - Uncharacterized RNA methyltransferase BH0687 OS=Bacillus halodurans (strain ATCC BAA-125 / DSM 18197...	2.0E-51	[9..234]	[213..458]
Y768_OCEIH - Uncharacterized RNA methyltransferase OB0768 OS=Oceanobacillus iheyensis (strain DSM 14371 / JCM 113... Y768_OCEIH - Uncharacterized RNA methyltransferase OB0768 OS=Oceanobacillus iheyensis GN=OB0768 PE=3 SV=1	2.0E-49	[10..233]	[213..456]
Y364_BACCR - Uncharacterized RNA methyltransferase BC_0364 OS=Bacillus cereus (strain ATCC 14579 / DSM 31 / JCM 2...	1.0E-47	[9..230]	[214..455]
YEFA_BACSU, RLMC... - Uncharacterized RNA methyltransferase yefA OS=Bacillus subtilis GN=yefA PE=3 SV=1, 23S rRNA (uracil-... gi\|221312833 - gi\|221312833\|ref\|ZP_03594638.1\| hypothetical protein BsubsN3_03754 [Bacillus subtilis subsp. subtili... RLMCD_BACSU - 23S rRNA (uracil-C(5))-methyltransferase RlmCD OS=Bacillus subtilis (strain 168) GN=rlmCD PE=1 SV=1 gi\|221317757 - gi\|221317757\|ref\|ZP_03599051.1\| hypothetical protein BsubsJ_03708 [Bacillus subtilis subsp. subtilis... gi\|221322036 - gi\|221322036\|ref\|ZP_03603330.1\| hypothetical protein BsubsS_03794 [Bacillus subtilis subsp. subtilis...	2.0E-47	[9..233]	[214..458]
Y1838_STAAW - Uncharacterized RNA methyltransferase MW1838 OS=Staphylococcus aureus (strain MW2) GN=MW1838 PE=3 SV... gi\|251801464, gi... - gi\|251815048\|ref\|ZP_04829521.1\| TrmA family RNA methyltransferase [Staphylococcus aureus subsp. aure... Y1819_STAAS - Uncharacterized RNA methyltransferase SAS1819 OS=Staphylococcus aureus (strain MSSA476) GN=SAS1819 P...	2.0E-47	[7..233]	[208..453]
gi\|253727177, gi... - gi\|253734995\|ref\|ZP_04869160.1\| TrmA family RNA methyltransferase [Staphylococcus aureus subsp. aure... gi\|255006684 - gi\|255006684\|ref\|ZP_05145285.2\| RNA methyltransferase-like protein [Staphylococcus aureus subsp. aur... gi\|90585600, gi\|... - gi\|90585600\|ref\|ZP_01241308.1\| 23S rRNA methyltransferase/RumA [Staphylococcus aureus subsp. aureus ... Y1897_STAAM - Uncharacterized RNA methyltransferase SAV1897 OS=Staphylococcus aureus (strain Mu50 / ATCC 700699) G... gi\|269203550\|ref... - rRNA methyltransferase RumA [Staphylococcus aureus subsp. aureus ED98] gi\|156980213, gi... - gi\|156980213\|ref\|YP_001442472.1\| RNA methyltransferase-like protein [Staphylococcus aureus subsp. au... Y1713_STAAN - Uncharacterized RNA methyltransferase SA1713 OS=Staphylococcus aureus (strain N315) GN=SA1713 PE=3 S... gi\|90583247, gi\|... - gi\|90583247\|ref\|ZP_01239006.1\| 23S rRNA methyltransferase/RumA [Staphylococcus aureus subsp. aureus ... gi\|25322751 - pir\|\|H89977 hypothetical protein SA1713 [imported] - Staphylococcus aureus (strain N315)	8.0E-47	[7..233]	[208..453]
Y2706_ENTFA - Uncharacterized RNA methyltransferase EF_2706 OS=Enterococcus faecalis (strain ATCC 700802 / V583) G... YR06_ENTFA, Y270... - (Q830R6) Hypothetical RNA methyltransferase EF2706 (EC 2.1.1.-), Uncharacterized RNA methyltransfera... gi\|227176695, gi... - gi\|227554196\|ref\|ZP_03984243.1\| tRNA (uracil-5-)-methyltransferase [Enterococcus faecalis HH22], gi\|...	2.0E-46	[9..233]	[213..456]
gi\|47095677, gi\|... - gi\|47095677\|ref\|ZP_00233284.1\| RNA methyltransferase, TrmA family [Listeria monocytogenes str. 1/2a ... gi\|255028262 - gi\|255028262\|ref\|ZP_05300213.1\| hypothetical protein LmonL_01654 [Listeria monocytogenes LO28] YH51_LISMO, Y175... - (Q8Y6D6) Hypothetical RNA methyltransferase lmo1751 (EC 2.1.1.-), Uncharacterized RNA methyltransfer... gi\|126941860, gi... - gi\|254900744\|ref\|ZP_05260668.1\| hypothetical protein LmonJ_13049 [Listeria monocytogenes J0161], gi\|... gi\|224503324 - gi\|224503324\|ref\|ZP_03671631.1\| hypothetical protein LmonFR_12550 [Listeria monocytogenes FSL R2-561... Y1751_LISMO - Uncharacterized RNA methyltransferase lmo1751 OS=Listeria monocytogenes serovar 1/2a (strain ATCC BA... gi\|127765381, gi... - gi\|254913771\|ref\|ZP_05263783.1\| hypothetical protein LmonJ2_13279 [Listeria monocytogenes J2818], gi... gi\|133732615, gi... - gi\|254938158\|ref\|ZP_05269855.1\| hypothetical protein LmonF6_13559 [Listeria monocytogenes F6900], gi...	6.0E-46	[9..230]	[220..450]
Y1151_LACPL, YB5... - (Q88XP4) Hypothetical RNA methyltransferase lp_1151 (EC 2.1.1.-), Uncharacterized RNA methyltransfer... Y1151_LACPL - Uncharacterized RNA methyltransferase lp_1151 OS=Lactobacillus plantarum (strain ATCC BAA-793 / NCIM...	1.0E-45	[3..234]	[205..457]

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Predicted Domain #1

Region A:
Residues: [1-96]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MGRTFIHASK IKHAARKRKH HSNFRTLIKL LNNDAYKIES SKPLKNGKLF KYWKNRRRLF  60
   61 SKIDSASIYM TDELWFSVTP ERIACFLANF VKACMP

[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	0.458	a.64.1	Saposin
View	Download	0.620	a.24.16	Nucleotidyltransferase substrate binding subunit/domain
View	Download	0.608	a.24.4	Hemerythrin
View	Download	0.439	a.90.1	Transcription factor STAT-4 N-domain
View	Download	0.408	a.23.5	Hemolysin expression modulating protein HHA
View	Download	0.376	a.28.2	Colicin E immunity proteins
View	Download	0.358	a.24.10	Histidine-containing phosphotransfer domain, HPT domain
View	Download	0.351	a.24.3	Cytochromes
View	Download	0.347	a.112.1	Description not found.
View	Download	0.320	a.71.2	Helical domain of Sec23/24
View	Download	0.317	a.7.6	Ribosomal protein S20
View	Download	0.310	a.8.3	Families 57/38 glycoside transferase middle domain
View	Download	0.301	d.56.1	GroEL-intermediate domain like
View	Download	0.298	a.24.13	Domain of the SRP/SRP receptor G-proteins
View	Download	0.295	a.8.2	Plasmid maintenance system epsilon/zeta, antidote epsilon subunit
View	Download	0.280	c.23.1	CheY-like
View	Download	0.280	a.24.17	Group V grass pollen allergen
View	Download	0.278	a.7.8	GAT domain
View	Download	0.275	a.71.2	Helical domain of Sec23/24
View	Download	0.272	a.7.7	BAG domain
View	Download	0.269	a.24.16	Nucleotidyltransferase substrate binding subunit/domain
View	Download	0.264	a.7.3	Succinate dehydrogenase/fumarate reductase flavoprotein C-terminal domain
View	Download	0.264	a.30.1	ROP protein
View	Download	0.262	a.28.1	ACP-like
View	Download	0.260	f.15.1	Small-conductance potassium channel
View	Download	0.260	a.24.13	Domain of the SRP/SRP receptor G-proteins
View	Download	0.258	a.142.1	PTS-regulatory domain, PRD
View	Download	0.258	a.26.1	4-helical cytokines
View	Download	0.252	a.2.11	Fe,Mn superoxide dismutase (SOD), N-terminal domain
View	Download	0.251	a.30.2	Homodimeric domain of signal transducing histidine kinase
View	Download	0.248	a.7.5	Tubulin chaperone cofactor A
View	Download	0.242	a.45.1	Glutathione S-transferase (GST), C-terminal domain
View	Download	0.240	d.57.1	DNA damage-inducible protein DinI
View	Download	0.235	b.40.2	Bacterial enterotoxins
View	Download	0.233	d.95.2	Homing endonucleases
View	Download	0.231	a.45.1	Glutathione S-transferase (GST), C-terminal domain
View	Download	0.230	a.26.1	4-helical cytokines
View	Download	0.229	a.26.1	4-helical cytokines
View	Download	0.229	a.118.8	TPR-like
View	Download	0.227	a.24.9	alpha-catenin/vinculin
View	Download	0.227	a.40.1	Calponin-homology domain, CH-domain
View	Download	0.224	a.64.1	Saposin
View	Download	0.223	a.40.1	Calponin-homology domain, CH-domain
View	Download	0.223	a.7.1	Spectrin repeat
View	Download	0.222	d.185.1	LuxS/MPP-like metallohydrolase
View	Download	0.219	a.74.1	Cyclin-like
View	Download	0.217	a.100.1	6-phosphogluconate dehydrogenase C-terminal domain-like
View	Download	0.216	a.2.11	Fe,Mn superoxide dismutase (SOD), N-terminal domain
View	Download	0.214	a.16.1	S15/NS1 RNA-binding domain
View	Download	0.211	a.47.2	t-snare proteins

Predicted functions:

Term	Confidence	Notes
mRNA (guanine-N7-)-methyltransferase activity	4.23788594273427	bayes_pls_golite062009
mRNA methyltransferase activity	4.23788594273427	bayes_pls_golite062009
methyltransferase activity	4.15445027778357	bayes_pls_golite062009
rRNA methyltransferase activity	4.09362182773099	bayes_pls_golite062009
N-methyltransferase activity	4.07806017452628	bayes_pls_golite062009
transferase activity, transferring one-carbon groups	4.07153733729662	bayes_pls_golite062009
protein methyltransferase activity	3.92746815303714	bayes_pls_golite062009
S-adenosylmethionine-dependent methyltransferase activity	3.39429041855776	bayes_pls_golite062009
RNA methyltransferase activity	3.07428840534971	bayes_pls_golite062009
histone methyltransferase activity	2.99461585647365	bayes_pls_golite062009
transferase activity	2.926540904444	bayes_pls_golite062009
DNA-methyltransferase activity	2.43145108778901	bayes_pls_golite062009
protein-arginine N-methyltransferase activity	2.41876112831625	bayes_pls_golite062009
arginine N-methyltransferase activity	2.41876112831625	bayes_pls_golite062009
histone-arginine N-methyltransferase activity	2.04296107639729	bayes_pls_golite062009
rRNA (guanine) methyltransferase activity	2.00108769169811	bayes_pls_golite062009
rRNA (adenine) methyltransferase activity	1.83964463328968	bayes_pls_golite062009
tRNA methyltransferase activity	1.76571145896453	bayes_pls_golite062009
rRNA (adenine-N6,N6-)-dimethyltransferase activity	1.75675289134467	bayes_pls_golite062009
protein-arginine omega-N monomethyltransferase activity	1.66871163498737	bayes_pls_golite062009
catalytic activity	1.25333584501255	bayes_pls_golite062009
histone methyltransferase activity (H4-R3 specific)	1.1103522853299	bayes_pls_golite062009
transcription regulator activity	0.914549843668268	bayes_pls_golite062009
rRNA (uridine-2'-O-)-methyltransferase activity	0.90544396691236	bayes_pls_golite062009
protein-arginine omega-N asymmetric methyltransferase activity	0.89325812193225	bayes_pls_golite062009
binding	0.777596419415505	bayes_pls_golite062009
rRNA (uridine) methyltransferase activity	0.742142092552002	bayes_pls_golite062009
DNA binding	0.71058003448013	bayes_pls_golite062009
site-specific DNA-methyltransferase (adenine-specific) activity	0.703178429468566	bayes_pls_golite062009
nucleic acid binding	0.698509190696763	bayes_pls_golite062009
tRNA (cytosine)-methyltransferase activity	0.672282175551951	bayes_pls_golite062009
tRNA (cytosine-5-)-methyltransferase activity	0.672282175551951	bayes_pls_golite062009
histone binding	0.446121507574339	bayes_pls_golite062009
RNA binding	0.417524996559564	bayes_pls_golite062009
protein-arginine omega-N symmetric methyltransferase activity	0.364369105571521	bayes_pls_golite062009
O-methyltransferase activity	0.250946859465502	bayes_pls_golite062009
tRNA (adenine)-methyltransferase activity	0.0803947886180681	bayes_pls_golite062009
tRNA (adenine-N1-)-methyltransferase activity	0.0803947886180681	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [97-263]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NAERILDVFC GGGGNTIQFA MQFPYVYGVD YSIEHIYCTA KNAQSYGVDD RIWLKRGSWK  60
   61 KLVSKQKLSK IKYDCVFGSP PWGGPEYLRN DVYDLEQHLK PMGITKMLKS FLKLSPNVIM 120
  121 FLPRNSDLNQ LSRATRKVLG PFAKCKVLYV KENGYMKGIF CMWGECF

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	41.9691
Match:	1f38A_
Description:	Precorrin-6Y methyltransferase (CbiT)
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [264-315]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 FNYEPASTEN SRRESSEKEE LSSENEELSK RKKHESTTTT KDNTVDIYDV NG

[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	0.327	a.4.11	RNA polymerase subunit RPB10
View	Download	0.242	a.4.1	Homeodomain-like
View	Download	0.307	a.157.1	Skp1 dimerisation domain-like
View	Download	0.262	a.108.1	Ribosomal protein L7/12, oligomerisation (N-terminal) 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: