# 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/TruB_N.hmm.txt # target sequence database: proteomes/Saccharomyces_cerevisiae.fasta # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: TruB_N [M=149] Accession: PF01509.17 Description: TruB family pseudouridylate synthase (N terminal domain) 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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 1.5e-41 140.7 0.1 1.2e-39 134.5 0.0 2.6 2 sp|P48567|PUS4_YEAST tRNA pseudouridine synthase 4 OS=Saccha 3.8e-20 71.2 9.7 1.6e-19 69.2 0.0 4.1 2 sp|P33322|CBF5_YEAST H/ACA ribonucleoprotein complex subunit Domain annotation for each sequence (and alignments): >> sp|P48567|PUS4_YEAST tRNA pseudouridine synthase 4 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) OX=55929 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 134.5 0.0 4e-43 1.2e-39 3 131 .. 62 193 .. 57 202 .. 0.90 2 ? 3.3 0.0 0.011 33 130 149 .] 266 285 .. 239 285 .. 0.79 Alignments for each domain: == domain 1 score: 134.5 bits; conditional E-value: 4e-43 HTT-S-EEESS---TT-EEEEEEEEGGGGG.GHHHCTTS-EEEEEEEEETEEETTSBTTS-EEE-.--TT--HHHHHHHHHHC-EEE-- CS TruB_N 3 llkakkvGhtGtLDplatGvLvvavgeaTk.lleylleadKeYeatirlgaetdteDaegeileeekveklteekleevlkkftGeieq 90 +++ k+Gh+GtLDpla+GvLv+++g +Tk l++yl+ + K Ye ++ +g++t++ D egeil++++v++l+ ++l++v +kf G+++q sp|P48567|PUS4_YEAST 62 KVSKVKMGHGGTLDPLASGVLVIGIGAGTKkLANYLSGTVKVYESEALFGVSTTSGDVEGEILSQNSVKHLNFDDLKTVEEKFVGQLKQ 150 344569***********************73667777888*************************99********************** PP --------------------------..-----EEEEEEEEEE CS TruB_N 91 vppmySAvkvnGkrlyelaregeeve..rkkrkvtiyelelle 131 +pp+y+A+k++Gk+l+e+areg+ + +++r+vtiy+l++++ sp|P48567|PUS4_YEAST 151 TPPIYAALKMDGKPLHEYAREGKPLPraIEPRQVTIYDLKVFS 193 **********************988733689********9976 PP == domain 2 score: 3.3 bits; conditional E-value: 0.011 EEEEEEEEEEEEEESTTTTH CS TruB_N 130 leveepevelevecskGtYi 149 +++ p++++++++s+GtYi sp|P48567|PUS4_YEAST 266 DSYRAPKLHFKANVSSGTYI 285 567889*************8 PP >> sp|P33322|CBF5_YEAST H/ACA ribonucleoprotein complex subunit CBF5 OS=Saccharomyces cerevisiae (strain ATCC 204508 / # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 69.2 0.0 5.4e-23 1.6e-19 1 149 [] 80 196 .. 80 196 .. 0.87 2 ? -5.9 6.2 2 6e+03 42 80 .. 384 420 .. 368 462 .. 0.57 Alignments for each domain: == domain 1 score: 69.2 bits; conditional E-value: 5.4e-23 HHHTT-S-EEESS---TT-EEEEEEEEGGGGGGHHHCTTS-EEEEEEEEETEEETTSBTTS-EEE-.--TT--HHHHHHHHHHC-EEE- CS TruB_N 1 krllkakkvGhtGtLDplatGvLvvavgeaTklleylleadKeYeatirlgaetdteDaegeileeekveklteekleevlkkftGeie 89 kr+l+ +k Gh+GtLDp++tG+L+v++++aT+l+++ + a KeY++ +rl+ + ++e +l + l+++tG++ sp|P33322|CBF5_YEAST 80 KRILRCEKTGHSGTLDPKVTGCLIVCIDRATRLVKSQQGAGKEYVCIVRLHDALKDEK-----------------DLGRSLENLTGALF 151 89************************************************98876544.................57888999****** PP --------------------------------EEEEEEEEEEEEEE..EEEEEEEESTTTTH CS TruB_N 90 qvppmySAvkvnGkrlyelaregeeverkkrkvtiyelelleveep..evelevecskGtYi 149 q+pp +SAvk r+ r tiye +l+e++++ + ++c++GtY+ sp|P33322|CBF5_YEAST 152 QRPPLISAVK-----------------RQLRVRTIYESNLIEFDNKrnLGVFWASCEAGTYM 196 **********.................77788888888888887665556777888888885 PP == domain 2 score: -5.9 bits; conditional E-value: 2 EEEEEEEEETEEETTSBTTS-EEE-.--TT--HHHHHHH CS TruB_N 42 KeYeatirlgaetdteDaegeileeekveklteekleev 80 KeY+ + ++t++ +++e+ ee +k +e++l + sp|P33322|CBF5_YEAST 384 KEYVPLDNAEQSTSSSQETKETEEE--PKKAKEDSLIKE 420 6666555555555555544444444..233333333322 PP Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (149 nodes) Target sequences: 6049 (2936363 residues searched) Passed MSV filter: 219 (0.0362043); expected 121.0 (0.02) Passed bias filter: 141 (0.0233096); expected 121.0 (0.02) Passed Vit filter: 15 (0.00247975); expected 6.0 (0.001) Passed Fwd filter: 2 (0.000330633); expected 0.1 (1e-05) Initial search space (Z): 6049 [actual number of targets] Domain search space (domZ): 2 [number of targets reported over threshold] # CPU time: 0.05u 0.00s 00:00:00.05 Elapsed: 00:00:00.02 # Mc/sec: 21875.90 // [ok]