# hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: pfam_list/TRM.hmm.txt # target sequence database: proteomes/Saccharomyces_cerevisiae.fasta # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: TRM [M=376] Accession: PF02005.15 Description: N2,N2-dimethylguanosine tRNA methyltransferase Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 4.1e-158 524.9 0.0 4.7e-158 524.7 0.0 1.0 1 sp|P15565|TRM1_YEAST tRNA (guanine(26)-N(2))-dimethyltransfe 0.00021 19.1 0.0 0.00032 18.4 0.0 1.3 1 sp|P53944|MTQ1_YEAST Mitochondrial N(5)-glutamine methyltran 0.00042 18.0 0.0 0.00072 17.3 0.0 1.3 1 sp|P38793|TRM5_YEAST tRNA (guanine(37)-N1)-methyltransferase 0.0056 14.3 0.0 0.0083 13.8 0.0 1.3 1 sp|P38347|EFM2_YEAST Protein-lysine N-methyltransferase EFM2 Domain annotation for each sequence (and alignments): >> sp|P15565|TRM1_YEAST tRNA (guanine(26)-N(2))-dimethyltransferase, mitochondrial OS=Saccharomyces cerevisiae (strain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 524.7 0.0 3.1e-161 4.7e-158 1 376 [] 33 490 .. 33 490 .. 0.96 Alignments for each domain: == domain 1 score: 524.7 bits; conditional E-value: 3.1e-161 TTEEEEE----SS........--TT--SS--GGGHHHHHHHHHH....HHHHHHHH-S-.............................. CS TRM 1 Geakikvedkevt........vskkeeVFYNPvqefnRDlsvlvir.qlellkkklgek.............................. 50 G+ +i++ed++++ ++kke+VFYNP+q+fnRDlsv++i+ + +l+++++g+k sp|P15565|TRM1_YEAST 33 GAPRINIEDFNIVkegkaeilFPKKETVFYNPIQQFNRDLSVTCIKaWDNLYGEECGQKrnnkkskkkrcaetnddsskrqkmgngspk 121 778899999987778999999******************************************************************** PP ............EEEEESS-TTSHHHHHHHHH-S-EEEEEEE-S-HHHHHHHHHHHHHTT--GGEEEE-S-HHHHHC...--SS-EEEE CS TRM 51 ............ikvldaLsasGlRaiRfalEvpgvkevlaNDisekAvelikeNvklneveeivvineddAnvlla...ekkkrfdvi 124 i++l+aLsa+GlRaiR+a+E+p+v+ev+aND++++Ave+ik+Nv++n+ve+iv++n ddAnvl++ +++++f+vi sp|P15565|TRM1_YEAST 122 eavgnsnrnepyINILEALSATGLRAIRYAHEIPHVREVIANDLLPEAVESIKRNVEYNSVENIVKPNLDDANVLMYrnkATNNKFHVI 210 *****************************************************************************8888899***** PP EE--SS--GGGHHHHHHHEEEEEEEEEEE--HHHHTT.SSHHHHHHHHS.SB---STTHHHHHHHHHHHHHHHHHHTTTEEEEEEEEEE CS TRM 125 DlDPfGspapfldsavqsvkekglLlvTaTDtavLaG.aspekclrkYg.avalkselcHEvalRillkavareaakYekavepllsls 211 DlDP+G+++pf+d+a+qs++e+gl+lvT+TD++vLaG +pekc++ Yg a+++++e++HE+alR++l++++++aakY+k+vepllsls sp|P15565|TRM1_YEAST 211 DLDPYGTVTPFVDAAIQSIEEGGLMLVTCTDLSVLAGnGYPEKCFALYGgANMVSHESTHESALRLVLNLLKQTAAKYKKTVEPLLSLS 299 *************************************88*********989************************************** PP ETTEEEEEEEEEE-HHHHHHHHTTEEEEEEETTT.............--E.EEE--GGG--........SB-TTT-SBEEEEEEEE-S- CS TRM 212 adfYvrvfvkvktgaakvkkvleklglvlhCsgC.............lse.ekvkglakfk........aecehcgaklhlaGPlwlgp 278 +dfYvrvfvkvkt++++vk+v++++++++hCs+C + e +++k+++k++ ++c++c+ ++hlaGP+++gp sp|P15565|TRM1_YEAST 300 IDFYVRVFVKVKTSPIEVKNVMSSTMTTYHCSRCgsyhnqplgrisqR-EgRNNKTFTKYSvaqgppvdTKCKFCEGTYHLAGPMYAGP 387 *****************************************9996543.258899999999**************************** PP S--HHHHHHHHHHHCT.....-TTS..-HHHHHHHHHHHHHHS--SS-EEHHHHHHHHT-SS---HHHHHHH....TT-EE-TTSTTEE CS TRM 279 lkdkefveevleeaekek...eeel..kkrvkklLklikeElldaplyydlsqlasvlklsvpplkkvvsalkelgfevsrtHakpkai 362 l++kef+eevl+++++e+ ++++ +kr++++L+l+k+El+d+p+y++ +++asv+kl+vpplkkvv++l +lgfe+s+tHa+p+++ sp|P15565|TRM1_YEAST 388 LHNKEFIEEVLRINKEEHrdqDDTYgtRKRIEGMLSLAKNELSDSPFYFSPNHIASVIKLQVPPLKKVVAGLGSLGFECSLTHAQPSSL 476 ***************9986644455999************************************************************* PP E-SS-HHHHHHHHH CS TRM 363 kTnapleavvevlr 376 kTnap++a+++v++ sp|P15565|TRM1_YEAST 477 KTNAPWDAIWYVMQ 490 ************96 PP >> sp|P53944|MTQ1_YEAST Mitochondrial N(5)-glutamine methyltransferase MTQ1 OS=Saccharomyces cerevisiae (strain ATCC 20 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 18.4 0.0 2.1e-07 0.00032 34 105 .. 94 167 .. 85 184 .. 0.83 Alignments for each domain: == domain 1 score: 18.4 bits; conditional E-value: 2.1e-07 HHH....HHHHHHHH-S-EEEEESS-TTSHHHHHHHHH-S-EEEEEEE-S-HHHHHHHHHHHHHTT--..GGEEE CS TRM 34 vlvir.qlellkkklgekikvldaLsasGlRaiRfalEvpgvkevlaNDisekAvelikeNvklneve..eivvi 105 +++ir + + ++ + ++++ d+++++G a+ ++ +++ a D+s++A++l+keN+ n+v+ ++v+ sp|P53944|MTQ1_YEAST 94 MAIIRaLNNSMLSRHTIPLHICDTFTGTGCIALALSHGIANCTFT-AIDVSTRAIKLVKENMLKNKVSggKLVQH 167 67788777888889999*********************9998765.58*************99999996534443 PP >> sp|P38793|TRM5_YEAST tRNA (guanine(37)-N1)-methyltransferase OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 17.3 0.0 4.8e-07 0.00072 77 115 .. 303 341 .. 282 349 .. 0.88 Alignments for each domain: == domain 1 score: 17.3 bits; conditional E-value: 4.8e-07 EEEE-S-HHHHHHHHHHHHHTT--GGEEEE-S-HHHHHC CS TRM 77 vlaNDisekAvelikeNvklneveeivvineddAnvlla 115 vlaND++++ ++ +keN+ ln+v+++v++ ++d + +++ sp|P38793|TRM5_YEAST 303 VLANDLNPESYKYLKENIALNKVAKTVKSFNMDGADFIR 341 79***********************99999999877776 PP >> sp|P38347|EFM2_YEAST Protein-lysine N-methyltransferase EFM2 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 13.8 0.0 5.5e-06 0.0083 40 128 .. 244 342 .. 165 350 .. 0.80 Alignments for each domain: == domain 1 score: 13.8 bits; conditional E-value: 5.5e-06 HHHHHHHH-S-EEEEESS-TTSHHHHHHH...HH-S-EE..EEEEE-S-HHHHHHHHHHHHHTT--GGEEEE-S-HH...HHHC..--S CS TRM 40 lellkkklgekikvldaLsasGlRaiRfa...lEvpgvk..evlaNDisekAvelikeNvklneveeivvineddAn...vlla..ekk 118 +++l + ++ikvl+ +++Gl ++ +a +E+ g++ e+++ D+ ++ v +k+Nv+ln+ + v+++ d + ++ ++ sp|P38347|EFM2_YEAST 244 VNMLANSDIKQIKVLELGAGTGLVGLSWAlkwKELYGTEniEIFVTDL-PEIVTNLKKNVSLNNLGDFVQAEILDWTnphDFIDkfGHE 331 44555555677******************7777887766336899997.7899*************99988776643111344456677 PP S-EEEEEE.-- CS TRM 119 krfdviDl.DP 128 ++fdvi + DP sp|P38347|EFM2_YEAST 332 NEFDVILIaDP 342 77777755455 PP Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (376 nodes) Target sequences: 6049 (2936363 residues searched) Passed MSV filter: 252 (0.0416598); expected 121.0 (0.02) Passed bias filter: 154 (0.0254588); expected 121.0 (0.02) Passed Vit filter: 15 (0.00247975); expected 6.0 (0.001) Passed Fwd filter: 4 (0.000661266); expected 0.1 (1e-05) Initial search space (Z): 6049 [actual number of targets] Domain search space (domZ): 4 [number of targets reported over threshold] # CPU time: 0.09u 0.00s 00:00:00.09 Elapsed: 00:00:00.03 # Mc/sec: 36802.42 // [ok]