# 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/GCD14.hmm.txt # target sequence database: proteomes/Trypanosoma_brucei.fasta # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: GCD14 [M=247] Accession: PF08704.9 Description: tRNA methyltransferase complex GCD14 subunit 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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 7.3e-66 221.3 0.7 1.8e-38 131.6 0.0 3.1 3 tr|Q383B4|Q383B4_TRYB2 tRNA (adenine(58)-N(1))-methyltransfe 2.6e-08 32.8 0.0 3.4e-08 32.4 0.0 1.1 1 tr|Q388E0|Q388E0_TRYB2 Fibrillarin, putative OS=Trypanosoma 5.3e-08 31.8 0.0 7.4e-08 31.3 0.0 1.1 1 tr|Q388C9|Q388C9_TRYB2 Fibrillarin, putative OS=Trypanosoma 1.9e-05 23.4 0.0 3.4e-05 22.6 0.0 1.3 1 tr|Q38AL4|Q38AL4_TRYB2 Fibrillarin OS=Trypanosoma brucei bru ------ inclusion threshold ------ 0.039 12.6 2.4 0.11 11.1 1.2 2.4 2 tr|Q387X3|Q387X3_TRYB2 Kinesin, putative OS=Trypanosoma bruc 0.085 11.5 2.4 0.22 10.1 0.0 2.6 3 tr|Q583H8|Q583H8_TRYB2 Nucleolar protein, putative OS=Trypan Domain annotation for each sequence (and alignments): >> tr|Q383B4|Q383B4_TRYB2 tRNA (adenine(58)-N(1))-methyltransferase OS=Trypanosoma brucei brucei (strain 927/4 GUTat10. # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 131.6 0.0 1.3e-41 1.8e-38 3 109 .. 127 236 .. 126 243 .. 0.92 2 ! 78.3 0.1 2.4e-25 3.4e-22 112 179 .. 268 336 .. 261 354 .. 0.84 3 ! 9.4 0.0 0.00026 0.37 209 246 .. 341 378 .. 334 379 .. 0.72 Alignments for each domain: == domain 1 score: 131.6 bits; conditional E-value: 1.3e-41 GCD14 3 vyvlaptPeLWtlaLphrtqilytaDisliimkLelkpGsvvvesGtGsgslshaiartvaPtGhlftfefheqraekareefrehe 89 v v++ +LWt+a+phrtqi+y +Di++i+++L+l+pG +v e+GtGsgsl+h++artvaP G ++t++fh++r +a++efr+++ tr|Q383B4|Q383B4_TRYB2 127 VLVMQNCADLWTVAVPHRTQIIYDTDIAVIVFNLRLRPGHRVAEAGTGSGSLTHSLARTVAPDGIVYTYDFHKKRCLEALQEFRRNG 213 5689999******************************************************************************** PP GCD14 90 l.sqlvtvthrDvc..keGfdee 109 l ++lv + rDvc +G de tr|Q383B4|Q383B4_TRYB2 214 LpASLVRCNWRDVCvtASGSDES 236 *777**********544555555 PP == domain 2 score: 78.3 bits; conditional E-value: 2.4e-25 GCD14 112 gkvDavfLDlPaPweaiphaakalkkeggrlCsfsPCieqvqrtceaLre..lgfteietlevllrtyev 179 ++vDavfLD+P+Pw ai+++ ++l + gg+lC+fsPCieq qrt+++Lr+ ++f++i+t+ev + + tr|Q383B4|Q383B4_TRYB2 268 HHVDAVFLDVPSPWLAIDNVLHVL-RPGGMLCTFSPCIEQTQRTAQRLRQapQEFIDIRTVEVVRKFINP 336 789*********************.99*********************984469*********9886654 PP == domain 3 score: 9.4 bits; conditional E-value: 0.00026 GCD14 209 kaskdakvedkssksstevllkPvselkghtgyLtfat 246 +++++ + + ++k + + +P ght+yLtfa+ tr|Q383B4|Q383B4_TRYB2 341 RNHSEGTEGESNNKPTCRFKFRPALVSMGHTAYLTFAR 378 3344444444555557788999***************8 PP >> tr|Q388E0|Q388E0_TRYB2 Fibrillarin, putative OS=Trypanosoma brucei brucei (strain 927/4 GUTat10.1) OX=185431 GN=Tb10 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 32.4 0.0 2.4e-11 3.4e-08 34 160 .. 62 190 .. 52 202 .. 0.82 Alignments for each domain: == domain 1 score: 32.4 bits; conditional E-value: 2.4e-11 GCD14 34 mkLelkpGsvvvesGtGsgslshaiartvaPtGhlftfefheqraekareefrehelsqlvtvthrDvckeGfdeevsgkvDavfLD 120 ++ ++pGs v+ G+ sg+ + ++ v+P G ++++ef +r + +ee+ +++ s++v + + + ++ + vD++f+D tr|Q388E0|Q388E0_TRYB2 62 AQIYMEPGSTVLYLGAASGTTVSHVSDLVGPEGVVYAVEFS-HRSGRDLEEMSKRR-SNIVPILEDARYPQKYRMLIPRLVDCIFMD 146 567899***************9******************5.68889999998776.566777665556889999************ PP GCD14 121 lPaPwea...iphaakalkkeggrlCsf.sPCieqvqrtceaLr 160 + +P++a +a + lk++gg + s + Ci+ ++ +++ tr|Q388E0|Q388E0_TRYB2 147 VAQPDQArilALNAQHFLKQNGGFVISIkANCIDSTADSATVFA 190 ******95322356667899999988873679999888777655 PP >> tr|Q388C9|Q388C9_TRYB2 Fibrillarin, putative OS=Trypanosoma brucei brucei (strain 927/4 GUTat10.1) OX=185431 GN=Tb10 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 31.3 0.0 5.2e-11 7.4e-08 34 160 .. 138 266 .. 129 277 .. 0.82 Alignments for each domain: == domain 1 score: 31.3 bits; conditional E-value: 5.2e-11 GCD14 34 mkLelkpGsvvvesGtGsgslshaiartvaPtGhlftfefheqraekareefrehelsqlvtvthrDvckeGfdeevsgkvDavfLD 120 ++ ++pGs v+ G+ sg+ + ++ v+P G ++++ef +r + +ee+ +++ s++v + + + ++ + vD++f+D tr|Q388C9|Q388C9_TRYB2 138 AQIYMEPGSTVLYLGAASGTTVSHVSDLVGPEGVVYAVEFS-HRSGRDLEEMSKRR-SNIVPILEDARYPQKYRMLIPRLVDCIFMD 222 567899***************9******************5.68889999998776.566777665556889999************ PP GCD14 121 lPaPwea...iphaakalkkeggrlCsf.sPCieqvqrtceaLr 160 + +P++a +a + lk++gg + s + Ci+ ++ +++ tr|Q388C9|Q388C9_TRYB2 223 VAQPDQArilALNAQHFLKQNGGFVISIkANCIDSTADSATVFA 266 ******95322356667899999988873679998888776655 PP >> tr|Q38AL4|Q38AL4_TRYB2 Fibrillarin OS=Trypanosoma brucei brucei (strain 927/4 GUTat10.1) OX=185431 GN=Tb10.6k15.3160 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 22.6 0.0 2.4e-08 3.4e-05 35 142 .. 132 239 .. 122 258 .. 0.71 Alignments for each domain: == domain 1 score: 22.6 bits; conditional E-value: 2.4e-08 GCD14 35 kLelkpGsvvvesGtGsgslshaiartvaPtGhlftfefheqraekareefrehelsqlvtvthrDvc.keGfdeevsgkvDavfLD 120 ++++kpGs+v+ G+ sg+ + ++ v+P G ++++ef + r + + ++ +++ ++v + D+ + + + vD++f+D tr|Q38AL4|Q38AL4_TRYB2 132 SIHMKPGSKVLYLGAASGTTVSHVSDLVGPEGMVYAVEFSN-RSGRDLVDMSKRRP-NIVPI-IEDARyPMKY-RMLMPMVDCIFMD 214 5789****************9******************75.66666666655543.33333.3454413344.567899******* PP GCD14 121 lPaPweaip...haakalkkeggrl 142 + +P++a +a + lk+ g + tr|Q38AL4|Q38AL4_TRYB2 215 VAQPDQARIlalNAQAFLKNGGHYV 239 *****99541113444455554444 PP >> tr|Q387X3|Q387X3_TRYB2 Kinesin, putative OS=Trypanosoma brucei brucei (strain 927/4 GUTat10.1) OX=185431 GN=Tb10.61. # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 11.1 1.2 7.5e-05 0.11 137 232 .. 415 512 .. 406 528 .. 0.65 2 ? -2.2 0.0 0.86 1.2e+03 49 76 .. 1453 1481 .. 1452 1492 .. 0.80 Alignments for each domain: == domain 1 score: 11.1 bits; conditional E-value: 7.5e-05 GCD14 137 keggrlCsfsPCieqvqrtceaLre.lgfteietlevllrtyevrkskleeidl.aekrleenerkriekakrrkaskdakvedkss 221 ++ +++ + sPC+e tc++Lr + ++i + v +vr++k ++++ k+l +n++ ++ + ++ v+ +++ tr|Q387X3|Q387X3_TRYB2 415 SKTSMVATVSPCVEHYEVTCQTLRYaSRAKQIVNVAVVNEDPQVRQIKKLTAEVsRLKQLLNNQSICDYSNEEVERLRQRVVQLQQE 501 6789999****************9615678899999999999999888777776333444444333333344444445555555555 PP GCD14 222 ksstevllkPv 232 ++ + +l+ + tr|Q387X3|Q387X3_TRYB2 502 AVERDFMLETF 512 55555554444 PP == domain 2 score: -2.2 bits; conditional E-value: 0.86 GCD14 49 tGsgslshaiartva.PtGhlftfefheq 76 t +sl+ a++r+ + +G +f fe he+ tr|Q387X3|Q387X3_TRYB2 1453 TANTSLAAAVVRAPKsALGAVFLFEQHER 1481 667899******975268********986 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 ? -1.9 0.0 0.72 1e+03 82 130 .. 122 172 .. 97 183 .. 0.59 2 ? 10.1 0.0 0.00015 0.22 42 135 .. 258 347 .. 240 366 .. 0.83 3 ? -2.0 1.7 0.76 1.1e+03 190 220 .. 473 503 .. 456 521 .. 0.46 Alignments for each domain: == domain 1 score: -1.9 bits; conditional E-value: 0.72 GCD14 82 reefrehel.....sqlvtvthrDvc.keGfdeevsgkvDavfLDlPaPweaiph 130 + f+e++ ++++++ D+ G++e + D+++L l +P ea++ tr|Q583H8|Q583H8_TRYB2 122 LSHFKEEREegrtrEDYMQLLRADIMeLYGYNEFL---TDSILL-LFSPTEAVEF 172 44555544333344568888888887446775444...788876.7788888875 PP == domain 2 score: 10.1 bits; conditional E-value: 0.00015 GCD14 42 svvvesGtGsgslshaiartvaPtGhlftfefheqraekareefrehelsqlvtvthrDvckeGfdeevsgkvDavfLDlPaPweai 128 +v++ + g +++ia+ ++ tG +f+ + e r+++ ++++ ++++ v vt+ D Gf e+v ++ D ++LD P i tr|Q583H8|Q583H8_TRYB2 258 ERVLDMAAAPGGKTTYIAQLMKNTGVIFANDVSEPRTKSLNANLQRLGVTNTV-VTNYD--GVGF-EKVMKNFDRILLDAPCTGSGI 340 5777777778888999******************************9998755.66666..569*.8899***********987777 PP GCD14 129 phaakal 135 + k + tr|Q583H8|Q583H8_TRYB2 341 ISRDKSI 347 6666666 PP == domain 3 score: -2.0 bits; conditional E-value: 0.76 GCD14 190 aekrleenerkriekakrrkaskdakvedks 220 ++ e++++++ +++++r+ ++ak e k tr|Q583H8|Q583H8_TRYB2 473 NVAKSENVKTMKGTNKRQREDDSKAKGELKT 503 2223333333333333333332222222222 PP Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (247 nodes) Target sequences: 8561 (4332363 residues searched) Passed MSV filter: 388 (0.0453218); expected 171.2 (0.02) Passed bias filter: 287 (0.0335241); expected 171.2 (0.02) Passed Vit filter: 23 (0.0026866); expected 8.6 (0.001) Passed Fwd filter: 7 (0.000817661); expected 0.1 (1e-05) Initial search space (Z): 8561 [actual number of targets] Domain search space (domZ): 6 [number of targets reported over threshold] # CPU time: 0.11u 0.01s 00:00:00.12 Elapsed: 00:00:00.05 # Mc/sec: 21401.87 // [ok]