# 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/LCM.hmm.txt # target sequence database: proteomes/Pseudomonas_aeruginosa.fasta # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LCM [M=188] Accession: PF04072.14 Description: Leucine carboxyl 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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 1.7e-20 72.1 0.0 2.6e-19 68.2 0.0 2.3 1 tr|Q9I2N5|Q9I2N5_PSEAE Uncharacterized protein OS=Pseudomona 1.6e-16 59.1 0.0 2.6e-16 58.5 0.0 1.3 1 tr|Q9HX18|Q9HX18_PSEAE Uncharacterized protein OS=Pseudomona Domain annotation for each sequence (and alignments): >> tr|Q9I2N5|Q9I2N5_PSEAE Uncharacterized protein OS=Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 68.2 0.0 9.4e-23 2.6e-19 5 187 .. 19 175 .. 16 176 .. 0.84 Alignments for each domain: == domain 1 score: 68.2 bits; conditional E-value: 9.4e-23 HHHHHHHHHHHHHTSSHTCCCCCCCHHHHHHHHCHCCCHCHHCHGCHCCCCT--HHHHHHHHHHHHHHHHHHHHHH.HCTTESEEEE CS LCM 5 aaaralesrraadglidDplaeslvsaaglellerkadkelekekeeekkekkapelnrgiavRtrffddllkaal.saagirqvVi 90 a+al sr + d +++D +ae v++ +++ + + + ++ r +a+R ++fd++ +++l + + qv + tr|Q9I2N5|Q9I2N5_PSEAE 19 LYAKALDSRLD-DSILHDRFAEEAVRQIDFDF-S---------------RVALGKGNERALAMRSHYFDQACREFLgR-HPEGQVLN 87 56889999999.99********9999998875.2...............23346778899****************54.6678**** PP ET-TT--HHHHHHHTTTEEEEEEE-HHHHHHHHHHHHHSHHHHHEECSEEE--TTSHHHHHHHHHHTT-TTSEEEEEEESSGGGS-H CS LCM 91 LGAGlDtrayRlpwlaglkvfEvDqpevlefKretlkelgaepkaelryvpvDlrdddwpeaLaaagfdpekptawvaeGvlvYLtp 177 LG+GlD+r yR + +a+l +f++D+pev+++++++ + +a ++ v dd w +g +e+p++++aeG+++YL++ tr|Q9I2N5|Q9I2N5_PSEAE 88 LGCGLDSRIYRVDPPAELPWFDLDYPEVMDLRERLYPPRAGAYRALRHSVD----DDGWL-----QGVPRERPALVLAEGLMPYLRE 165 *********************************999777776666666443....45565.....477888**************** PP HHHHHHHHHH CS LCM 178 easdalleai 187 ++++l+e++ tr|Q9I2N5|Q9I2N5_PSEAE 166 SQVRRLVERL 175 ******9875 PP >> tr|Q9HX18|Q9HX18_PSEAE Uncharacterized protein OS=Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 58.5 0.0 9.2e-20 2.6e-16 61 179 .. 60 180 .. 55 189 .. 0.92 Alignments for each domain: == domain 1 score: 58.5 bits; conditional E-value: 9.2e-20 HHHHHHHHHHHHHHHHHHHHHCTTESEEEEET-TT--HHHHHHHTT.TEEEEEEE-HHHHHHHHHHHHHSHHHHHEECSEEE--TTS CS LCM 61 lnrgiavRtrffddllkaalsaagirqvViLGAGlDtrayRlpwla.glkvfEvDqpevlefKretlkelgaepkaelryvpvDlrd 146 + ++++ R ++d++l++a++++g+ qvV +++Gl +r R + +l++ E D p + ++K+++l+e+g + +++ + +vD+ tr|Q9HX18|Q9HX18_PSEAE 60 IEDFLLQRHLMIDARLTQAVEREGVVQVVEMACGLSPRGRRFRQRYpQLRYLEADLPPMAARKAALLREQGWLGPEH-AVAAVDILA 145 6788999*************98********************99999*************************99965.5699***** PP HHHHHHHHHH..TT-TTSEEEEEEESSGGGS-HHH CS LCM 147 ddwpeaLaaa..gfdpekptawvaeGvlvYLtpea 179 +d ++ Laa g+d+e+p +++ eG++ Y ++ tr|Q9HX18|Q9HX18_PSEAE 146 EDGERSLAALfaGLDRERPLVVITEGLVNYFQRPV 180 *******99677******************98765 PP Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (188 nodes) Target sequences: 5563 (1857172 residues searched) Passed MSV filter: 217 (0.0390077); expected 111.3 (0.02) Passed bias filter: 153 (0.0275031); expected 111.3 (0.02) Passed Vit filter: 12 (0.00215711); expected 5.6 (0.001) Passed Fwd filter: 2 (0.000359518); expected 0.1 (1e-05) Initial search space (Z): 5563 [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: 17457.42 // [ok]