YRC Public Data Repository - Protein Structure Prediction

Protein:	TRM2
Organism:	Saccharomyces cerevisiae
Length:	617 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 TRM2.

Description	E-value	Query Range	Subject Range
gi\|9755890 - gi\|9755890\|emb\|CAC01942.1\| tRNA(m5U54)methyltransferase [Saccharomyces cerevisiae]	0.0	[71..607]	[1..535]
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...	2.0E-98	[163..616]	[5..433]
Y1863_LISIN - Uncharacterized RNA methyltransferase lin1863 OS=Listeria innocua serovar 6a (strain CLIP 11262) GN=... Y1863_LISIN, YI6... - (Q92AQ7) Hypothetical RNA methyltransferase lin1863 (EC 2.1.1.-), Uncharacterized RNA methyltransfer...	2.0E-97	[163..616]	[5..433]
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...	8.0E-95	[166..616]	[10..437]
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...	9.0E-95	[154..616]	[2..438]
YAD7_SCHPO - tRNA (uracil(54)-C(5))-methyltransferase OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=S... SPAC4G8.07c - tRNA (m5U54) methyltransferase Trm2	1.0E-94	[80..606]	[47..491]
gi\|28925307, gi\|... - gi\|32413172\|ref\|XP_327066.1\| hypothetical protein [Neurospora crassa], gi\|28925307\|gb\|EAA34385.1\| hy... gi\|85110766 - gi\|85110766\|ref\|XP_963621.1\| hypothetical protein NCU06780 [Neurospora crassa OR74A]	6.0E-92	[104..603]	[79..586]
gi\|19310570 - gi\|19310570\|gb\|AAL85018.1\| unknown protein [Arabidopsis thaliana]	4.0E-89	[141..605]	[56..525]

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Predicted Domain #1

Region A:
Residues: [1-156]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MYEQFEFSFF FFENSDNKVK YKAHLISSIK RWSIITCMRC FWTVQKSIFK ARFFACRNFV  60
   61 KKHNYKLIST MTGSTEMVPP TMKHTVDNKR LSSPLTDSGN RRTKKPKLRK YKAKKVETTS 120
  121 PMGVLEFEVN DLLKSQNLSR EQVLNDVTSI LNDKSS

[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: [157-240]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TDGPIVLQYH REVKNVKVLE ITSNGNGLAL IDNPVETEKK QVVIIPFGLP GDVVNIKVFK  60
   61 THPYYVESDL LDVVEKSPMR RDDL

[Run NCBI BLAST on this sequence.]

Detection Method:	Pfam
Confidence:	13.823909
Match:	PF01938
Description:	TRAM domain

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #3

Region A:
Residues: [241-357]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 IRDKYFGKSS GSQLEFLTYD DQLELKRKTI MNAYKFFAPR LVAEKLLPPF DTTVASPLQF  60
   61 GYRTKITPHF DMPKRKQKEL SVRPPLGFGQ KGRPQWRKDT LDIGGHGSIL DIDECVL

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #4

Region A:
Residues: [358-431]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ATEVLNKGLT NERRKFEQEF KNYKKGATIL LRENTTILDP SKPTLEQLTE EASRDENGDI  60
   61 SYVEVEDKKN NVRL

[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 #5

Region A:
Residues: [432-617]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 AKTCVTNPRQ IVTEYVDGYT FNFSAGEFFQ NNNSILPIVT KYVRDNLQAP AKGDDNKTKF  60
   61 LVDAYCGSGL FSICSSKGVD KVIGVEISAD SVSFAEKNAK ANGVENCRFI VGKAEKLFES 120
  121 IDTPSENTSV ILDPPRKGCD ELFLKQLAAY IQPRLFTYRV MSIPRHVMSS TSSKKQKTVP 180
  181 PTRLKA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	15.045757
Match:	1g6q1_
Description:	Arginine methyltransferase, HMT1
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