# 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/Rsm22.hmm.txt # target sequence database: proteomes/Saccharomyces_cerevisiae.fasta # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: Rsm22 [M=275] Accession: PF09243.9 Description: Mitochondrial small ribosomal subunit Rsm22 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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 4.2e-29 100.1 0.2 4.2e-11 41.1 0.0 4.2 3 sp|P36056|RT22_YEAST Probable S-adenosyl-L-methionine-depend ------ inclusion threshold ------ 0.024 12.4 0.0 0.035 11.8 0.0 1.2 1 sp|P38892|CRG1_YEAST Probable S-adenosylmethionine-dependent Domain annotation for each sequence (and alignments): >> sp|P36056|RT22_YEAST Probable S-adenosyl-L-methionine-dependent RNA methyltransferase RSM22, mitochondrial OS=Saccha # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 41.1 0.0 1.4e-14 4.2e-11 2 156 .. 126 326 .. 125 334 .. 0.69 2 ! 16.4 0.0 4.7e-07 0.0014 163 200 .. 368 417 .. 357 425 .. 0.77 3 ! 36.1 0.0 4.7e-13 1.4e-09 223 274 .. 465 545 .. 433 546 .. 0.74 Alignments for each domain: == domain 1 score: 41.1 bits; conditional E-value: 1.4e-14 Rsm22 2 eesiaYalarlpatyavlrrvLdelaerv..pdflPkslldvgegpgtalwaasel....we.eleevlvidaseelle....iskela 79 +e+ a ++ + ++y + ++L+el++rv ++f+P+ +ldvg gp+t+++a +++ ++ +l++++ + +e + +s++l sp|P36056|RT22_YEAST 126 MEVDAHIASIFLQNYGSIFQSLKELQKRVgpDNFKPQRILDVGYGPATGIVALNDIlgpnYRpDLKDAVILGNAEMQERakiiLSRQLN 214 678899999999***************986579**********************9333334455566666554432211111344333 PP Rsm22 80 ...adapelkeaalrrsvirealeleea...........................dLviisyvLleled.esreklvk....nlWakas 133 + +e+ +++++++ r +++e+ dL+i+++ Ll d ++ + v+ + + ++ sp|P36056|RT22_YEAST 215 evvDTVEENVSTEKEQETDRRNKNFQEDehigevmtkkinimtnlrssipaskeyDLIILTHQLLH--DgNQFPIQVDenieHYLNILA 301 00023333333334444444555666667777779999************************9965..334444444400004444444 PP Rsm22 134 k..ilvivEeGtpaGfrrvleaRea 156 +vi+E G p Gf+ + aR+ sp|P36056|RT22_YEAST 302 PggHIVIIERGNPMGFEIIARARQI 326 3679*******************96 PP == domain 2 score: 16.4 bits; conditional E-value: 4.7e-07 Rsm22 163 hivAPCPHeaaCPlvate............dwChFsqrvaRlslhrlaks 200 +++APCPH+ +CPl+ ++ +C+F ++++R + + k+ sp|P36056|RT22_YEAST 368 KVIAPCPHQRKCPLQVGNpnfythkegkdlKFCNFQKSIKRPKFSIELKK 417 79************976554555555666668888888888877776665 PP == domain 3 score: 36.1 bits; conditional E-value: 4.7e-13 Rsm22 223 a............................aaRvvrptkvrskkvlidlCsedetlqrlvvtKrkG.eaykaArkaeWGDrl 274 + ++R++ + +r+++v++dlC+ ++l++ +v ++ + y+ Ark++ GD++ sp|P36056|RT22_YEAST 465 TlkeikklrnenvngkydigslgddtqnsWPRIINDPVKRKGHVMMDLCAPSGELEKWTVSRSFSkQIYHDARKSKKGDLW 545 24444444444445555555555555555*********************************65549*************9 PP >> sp|P38892|CRG1_YEAST Probable S-adenosylmethionine-dependent methyltransferase CRG1 OS=Saccharomyces cerevisiae (str # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 11.8 0.0 1.2e-05 0.035 36 109 .. 40 112 .. 11 126 .. 0.85 Alignments for each domain: == domain 1 score: 11.8 bits; conditional E-value: 1.2e-05 Rsm22 36 kslldvgegpgtalwaaselweeleevlvidaseelleiskelaadapelkeaalrrsvirealeleea..dLvii 109 ksl+d+g g+g a+++++ ++ ev+ id s+++l+i+++ +++ k++++ + +++ + ++ d+vi sp|P38892|CRG1_YEAST 40 KSLVDIGCGTGKATFVVEPYFK---EVIGIDPSSAMLSIAEKETNERRLDKKIRFINAPGEDLSSIRPEsvDMVIS 112 799**************99886...7899**************999999999988888887777776666688775 PP Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (275 nodes) Target sequences: 6049 (2936363 residues searched) Passed MSV filter: 171 (0.0282691); expected 121.0 (0.02) Passed bias filter: 140 (0.0231443); expected 121.0 (0.02) Passed Vit filter: 16 (0.00264507); 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: 0.07u 0.00s 00:00:00.07 Elapsed: 00:00:00.03 # Mc/sec: 26916.66 // [ok]