# 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/Trypanosoma_brucei.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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 8.6e-102 340.1 0.1 1.2e-71 240.8 0.0 2.9 2 tr|Q386C5|Q386C5_TRYB2 N(2), N(2)-dimethylguanosine tRNA met 0.00092 17.4 0.0 0.0012 17.0 0.0 1.2 1 tr|Q389Z0|Q389Z0_TRYB2 Uncharacterized protein OS=Trypanosom ------ inclusion threshold ------ 0.032 12.3 0.0 0.047 11.8 0.0 1.2 1 tr|Q583H8|Q583H8_TRYB2 Nucleolar protein, putative OS=Trypan Domain annotation for each sequence (and alignments): >> tr|Q386C5|Q386C5_TRYB2 N(2), N(2)-dimethylguanosine tRNA methyltransferase, putative OS=Trypanosoma brucei brucei (s # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 94.9 0.0 9.4e-31 2.7e-27 18 100 .. 163 252 .. 149 265 .. 0.92 2 ! 240.8 0.0 4.3e-75 1.2e-71 116 375 .. 336 683 .. 312 684 .. 0.88 Alignments for each domain: == domain 1 score: 94.9 bits; conditional E-value: 9.4e-31 --SS--GGGHHHHHHHHHH....HHHHHHHH-S-......EEEEESS-TTSHHHHHHHHH-S-EEEEEEE-S-HHHHHHHHHHHHHT CS TRM 18 eeVFYNPvqefnRDlsvlvir.qlellkkklgek......ikvldaLsasGlRaiRfalEvpgvkevlaNDisekAvelikeNvkln 97 + VFYNP+q +nRDlsv vi +++l+k++ ++k i++l+aLsa+GlRaiR+ +E+p v+ ++aNDi Ave+i++N ++n tr|Q386C5|Q386C5_TRYB2 163 QAVFYNPAQVVNRDLSVCVIAcFSQLRKEEPKNKggtrrgITILEALSATGLRAIRYYKEIPDVRFIIANDIDCDAVECIRRNCEFN 249 67******************989999999988889**************************************************** PP T-- CS TRM 98 eve 100 ev tr|Q386C5|Q386C5_TRYB2 250 EVP 252 *97 PP == domain 2 score: 240.8 bits; conditional E-value: 4.3e-75 --SS-EEEEEE--SS--GGGHHHHHHHEEEEEEEEEEE--HHHHTTSSHHHHHHHHSSB---STTHHHHHHHHHHHHHHHHHHTTTE CS TRM 116 ekkkrfdviDlDPfGspapfldsavqsvkekglLlvTaTDtavLaGaspekclrkYgavalkselcHEvalRillkavareaakYek 202 +++ dv+DlDP+Gs++pfl+ av++++e+glLlvT+TD+a L+G++p++c +kY++v++k+ +cHE+a+Rill av+r a+k +k tr|Q386C5|Q386C5_TRYB2 336 IQQELVDVVDLDPYGSASPFLEGAVRCIREGGLLLVTSTDSAILCGNYPDTCHAKYNTVPTKNAACHEMAVRILLAAVERVANKHRK 422 467778********************************************************************************* PP EEEEEEEEEETTEEEEEEEEEE-HHHHHHHHTTEEEEEEETTT............................................ CS TRM 203 avepllslsadfYvrvfvkvktgaakvkkvleklglvlhCsgC............................................ 245 +++pllsl +dfYvr fv+v t++a+vk + klg++++C +C tr|Q386C5|Q386C5_TRYB2 423 YIVPLLSLHIDFYVRCFVRVYTQPAEVKLSPCKLGYLIQCNHCpafwvrqiavsrmrvkkrsrklgnagedvtagsqgnvakseehr 509 *****************************************************9999999999999999999998888888777777 PP .....................--EEEE--GGG--...............................SB-TTT-SBEEEEEEEE-S-S- CS TRM 246 .....................lseekvkglakfk...............................aecehcgaklhlaGPlwlgplk 280 + c+ cga+++l GP++++p + tr|Q386C5|Q386C5_TRYB2 510 lsdsgnargtneggeahkadeW-----------GwerfpaapsrrenpkivspslqqifpsslrgHCCCVCGASVSLSGPIYAAPTQ 585 7666666665555555555550...........0555555555555555666667888888999999******************** PP -HHHHHHHHHHHCT..-TTS...-HHHHHHHHHHHHHHS--SS-EEHHHHHHHHT-SS---HHHHHHH....TT-EE-TTSTTEEE- CS TRM 281 dkefveevleeaekekeeel...kkrvkklLklikeElldaplyydlsqlasvlklsvpplkkvvsalkelgfevsrtHakpkaikT 364 ++ f++++l e+e + + + r+ +l +++ eEl d+pl+y+l ++as ++++ pp ++ al + g+++s+ H+ p++ikT tr|Q386C5|Q386C5_TRYB2 586 SAPFLGQLLVEIERRASANHitaVARISGLVRVAMEELADTPLFYQLPDVASFVRVRCPPAPLFIGALGRKGYRCSQVHCAPSGIKT 672 ********99999876333336789************************************************************** PP SS-HHHHHHHH CS TRM 365 napleavvevl 375 + p e vv v+ tr|Q386C5|Q386C5_TRYB2 673 DCPPEIVVGVM 683 *******9998 PP >> tr|Q389Z0|Q389Z0_TRYB2 Uncharacterized protein OS=Trypanosoma brucei brucei (strain 927/4 GUTat10.1) OX=185431 GN=Tb # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 17.0 0.0 4.3e-07 0.0012 38 101 .. 199 261 .. 141 280 .. 0.87 Alignments for each domain: == domain 1 score: 17.0 bits; conditional E-value: 4.3e-07 ...HHHHHHHH-S-EEEEESS-TTSHHHHHHHHH-S-EEEEEEE-S-HHHHHHHHHHHHHTT--G CS TRM 38 r.qlellkkklgekikvldaLsasGlRaiRfalEvpgvkevlaNDisekAvelikeNvklnevee 101 r +l+ + +++++vld ++G +i a+ vp++ +v a Di+++A+ +eN+kln e tr|Q389Z0|Q389Z0_TRYB2 199 RtWLSKIPET-TQPLRVLDMCCGTGCVGIAIAKHVPSA-QVTAVDILDEAIGASEENAKLNGLEA 261 5455555444.799********************8875.7999******************9883 PP >> tr|Q583H8|Q583H8_TRYB2 Nucleolar protein, putative OS=Trypanosoma brucei brucei (strain 927/4 GUTat10.1) OX=185431 G # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 11.8 0.0 1.7e-05 0.047 28 127 .. 192 332 .. 170 348 .. 0.75 Alignments for each domain: == domain 1 score: 11.8 bits; conditional E-value: 1.7e-05 HHHHHHHHH....HHHHHHHH-S-..........................................EEEEESS-TTSHHHHHHHHH- CS TRM 28 fnRDlsvlvir.qlellkkklgek..........................................ikvldaLsasGlRaiRfalEv 71 RDl+ ++++ +++ + +k +vld +a G ++ a+ + tr|Q583H8|Q583H8_TRYB2 192 KRRDLVQALVKrGMNVEPLEKWSKvglqvfesnvpisgtveylaghymlqsavsflpvmalapqinERVLDMAAAPGGKTTYIAQLM 278 5556555555444444433222224566666666666666666666666666666666666666556899999*******999*99* PP S-EEEEEEE-S-HHHHHHHHHHHHHTT--GGEEEE-S-HHHHHC--SS-EEEEEE- CS TRM 72 pgvkevlaNDisekAvelikeNvklneveeivvineddAnvllaekkkrfdviDlD 127 +++ ++aND+se ++++ N + v ++vv+n d + +++ k+fd i lD tr|Q583H8|Q583H8_TRYB2 279 KNTGVIFANDVSEPRTKSLNANLQRLGVTNTVVTNY-DGVGF-EKVMKNFDRILLD 332 ******************************999999.66554.5888899998888 PP Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (376 nodes) Target sequences: 8561 (4332363 residues searched) Passed MSV filter: 225 (0.026282); expected 171.2 (0.02) Passed bias filter: 178 (0.020792); expected 171.2 (0.02) Passed Vit filter: 17 (0.00198575); expected 8.6 (0.001) Passed Fwd filter: 3 (0.000350426); expected 0.1 (1e-05) Initial search space (Z): 8561 [actual number of targets] Domain search space (domZ): 3 [number of targets reported over threshold] # CPU time: 0.12u 0.01s 00:00:00.13 Elapsed: 00:00:00.05 # Mc/sec: 32579.37 // [ok]