# 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/Caenorhabditis_elegans.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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 5.2e-40 137.6 0.0 8.7e-40 136.8 0.0 1.4 1 sp|P46554|LCMT1_CAEEL Leucine carboxyl methyltransferase 1 O Domain annotation for each sequence (and alignments): >> sp|P46554|LCMT1_CAEEL Leucine carboxyl methyltransferase 1 OS=Caenorhabditis elegans OX=6239 GN=lcmt-1 PE=3 SV=1 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 136.8 0.0 4.4e-44 8.7e-40 2 187 .. 31 226 .. 30 227 .. 0.93 Alignments for each domain: == domain 1 score: 136.8 bits; conditional E-value: 4.4e-44 HHHHHHHHHHHHH.H.HHTSSHTCCCCCCCHHHHHHHHCHCCCHCHHCHGCHCCCCT--HHHHHHHHHHHHHHHHHHHHHH.HCTTES CS LCM 2 lgvaaaralesrr.a.adglidDplaeslvsaaglellerkadkelekekeeekkekkapelnrgiavRtrffddllkaal.saagir 86 ++ ++ +a ++++ a ++g+++D+++++++++++ ++++++pe++ g+++Rt++++++++++l +++g + sp|P46554|LCMT1_CAEEL 31 VQRTNDDATQCKYfAtQKGYWKDEFISRFANSSSNV-----------------SEARRFPEISMGYWARTAAIEKYVRDFLnEFDGNA 101 7899*********659*****************442.................35678****************************** PP EEEEET-TT--HHHHHHHTT..TEEEEEEE-HHHHHHHHHHHHHSHHHHH.....................EECSEEE--TTS.HHHH CS LCM 87 qvViLGAGlDtrayRlpwla..glkvfEvDqpevlefKretlkelgaepk.....................aelryvpvDlrd.ddwp 150 qvV LG+G+Dt+++Rl + +k++EvD+++v + K++++ + ++++ + +++++Dlr+ +++ sp|P46554|LCMT1_CAEEL 102 QVVSLGCGFDTLFWRLVSSGakLVKYVEVDFSSVTSKKIRHILKPIGPNSvdlkksfesdavvshhadlhaGNYHLIGADLRQaNELD 189 *****************999989******************9988888889***************8887557778************ PP HHHHHHTT-TTSEEEEEEESSGGGS-HHHHHHHHHHH CS LCM 151 eaLaaagfdpekptawvaeGvlvYLtpeasdalleai 187 ++La+++++++ pt+++ae+vlvY+++++s+all++i sp|P46554|LCMT1_CAEEL 190 QKLATCQLSHDIPTIFIAECVLVYMSADSSTALLKQI 226 ***********************************98 PP Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (188 nodes) Target sequences: 20008 (8229220 residues searched) Passed MSV filter: 603 (0.0301379); expected 400.2 (0.02) Passed bias filter: 432 (0.0215914); expected 400.2 (0.02) Passed Vit filter: 42 (0.00209916); expected 20.0 (0.001) Passed Fwd filter: 1 (4.998e-05); expected 0.2 (1e-05) Initial search space (Z): 20008 [actual number of targets] Domain search space (domZ): 1 [number of targets reported over threshold] # CPU time: 0.14u 0.01s 00:00:00.15 Elapsed: 00:00:00.14 # Mc/sec: 11050.67 // [ok]