# 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/SpoU_methylase.hmm.txt # target sequence database: proteomes/Monodelphis_domestica.fasta # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: SpoU_methylase [M=142] Accession: PF00588.18 Description: SpoU rRNA Methylase family 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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 4.9e-31 108.0 0.0 1.2e-30 106.7 0.0 1.7 1 tr|F7FTF7|F7FTF7_MONDO TAR (HIV-1) RNA binding protein 1 OS= 2e-27 96.3 0.0 2.9e-27 95.8 0.0 1.2 1 tr|F7DZ27|F7DZ27_MONDO Mitochondrial rRNA methyltransferase 3.4e-21 76.1 0.0 1.1e-12 48.6 0.0 2.2 2 tr|F6TUK5|F6TUK5_MONDO Mitochondrial rRNA methyltransferase ------ inclusion threshold ------ 0.016 15.6 0.0 0.021 15.2 0.0 1.1 1 tr|F6WPS6|F6WPS6_MONDO Uncharacterized protein OS=Monodelphi Domain annotation for each sequence (and alignments): >> tr|F7FTF7|F7FTF7_MONDO TAR (HIV-1) RNA binding protein 1 OS=Monodelphis domestica OX=13616 GN=TARBP1 PE=4 SV=1 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 106.7 0.0 2.3e-34 1.2e-30 2 141 .. 1490 1631 .. 1489 1632 .. 0.93 Alignments for each domain: == domain 1 score: 106.7 bits; conditional E-value: 2.3e-34 EEEEEES-SSHHHHHHHHHHHHHTT-SEEEEESGSSCTCGSHHHHHHCTTHHHHHHEEEES..SHHHHHHHHCCCTEEEEEEST. CS SpoU_methylase 2 livvlveiedpgNlGaiaRtakafgaselvlvkprsadllnpeakraaagalevlelkvvd..sleealkelkeegfalvatsl. 83 livv i++p+NlG ++Rt+++fgas+lv+ + ++ +++++++++++a+++l+l++v+ +l ++l++ k eg++++++++ tr|F7FTF7|F7FTF7_MONDO 1490 LIVVASLIDKPTNLGGLCRTCEIFGASALVVGSLHCI--NDKQFQHLSVSAEQWLPLVEVKplQLVDYLQKKKTEGYTTIGVEQt 1572 799****************************998885..9****************99996336789***************997 PP .T-SEGCCSHHHTTEEEEEEBTTTBS-HHHHCTSSEEEE----TTSSS--HHHHHHHHH CS SpoU_methylase 84 .kgkslseidlkekvalvfGnEdkGlsnelleladrlvkIpmsgeveSLNvavAvaill 141 k+++l+e+ ++ek +l++GnE++G++ +l++++d +v+Ip++g ++SLNv+v+ a+l+ tr|F7FTF7|F7FTF7_MONDO 1573 aKSSDLTEYCFPEKSLLLLGNEREGIPANLIQHLDVCVEIPQHGIIRSLNVHVSGALLI 1631 7777899************************************************9987 PP >> tr|F7DZ27|F7DZ27_MONDO Mitochondrial rRNA methyltransferase 1 OS=Monodelphis domestica OX=13616 GN=MRM1 PE=4 SV=2 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 95.8 0.0 5.4e-31 2.9e-27 3 142 .] 218 372 .. 216 372 .. 0.86 Alignments for each domain: == domain 1 score: 95.8 bits; conditional E-value: 5.4e-31 EEEEES-SSHHHHHHHHHHHHHTT-SEEEEESGSSCTCGSHHHHHHCTTHHHHHHEEEESSHHHHHHHHCCCTEEEEEEST.T-SEG CS SpoU_methylase 3 ivvlveiedpgNlGaiaRtakafgaselvlvkprsadllnpeakraaagalevlelkvvdsleealkelkeegfalvatsl.kgksl 88 ++l+ei+dp+NlGa++R+a +g+++++ ++++s +l+p + +a+ag+ ev+++ d+l +lk ++g+ + +t + g+ + tr|F7DZ27|F7DZ27_MONDO 218 WLILEEIQDPRNLGAVLRSAHFLGVDKVITSRRNSC-PLTPVVSKASAGTMEVMDVFATDDLPGLLKVKAQQGWLVAGTVGcPGSVV 303 689***************************987776.***********************************9***99999866644 PP C...CS........HHHTTEEEEEEBTTTBS-HHHHCTSSEEEE-....---TTSSS--HHHHHHHHHH CS SpoU_methylase 89 s...ei........dlkekvalvfGnEdkGlsnelleladrlvkI....pmsgeveSLNvavAvailly 142 +i ++++++lv+GnE++Gls+e+++l++ l++I +eveSLNv+vA++ill+ tr|F7DZ27|F7DZ27_MONDO 304 PqcsDIpitsclefLWDRSTLLVLGNEGSGLSHEIRNLCHILLTIlpgrELPPEVESLNVSVAAGILLH 372 43444433333333666***********************9999864444689*************985 PP >> tr|F6TUK5|F6TUK5_MONDO Mitochondrial rRNA methyltransferase 3 OS=Monodelphis domestica OX=13616 GN=MRM3 PE=4 SV=2 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 48.6 0.0 2e-16 1.1e-12 2 66 .. 227 290 .. 226 320 .. 0.88 2 ! 25.6 0.0 2.5e-09 1.3e-05 88 142 .] 362 421 .. 334 421 .. 0.86 Alignments for each domain: == domain 1 score: 48.6 bits; conditional E-value: 2e-16 EEEEEES-SSHHHHHHHHHHHHHTT-SEEEEESGSSCTCGSHHHHHHCTTHHHHHHEEEESSHHH CS SpoU_methylase 2 livvlveiedpgNlGaiaRtakafgaselvlvkprsadllnpeakraaagalevlelkvvdslee 66 l +++++++dpgNlG+i+R+a+ +g+++++l+k ++d ++p+++ra++ga++++++ ++e tr|F6TUK5|F6TUK5_MONDO 227 LLLICDNLRDPGNLGTILRSAAGAGCQKVLLTK-GCVDAWEPKVLRAGMGAHFQVPIISNLEWET 290 6799***************************88.**********************766655555 PP == domain 2 score: 25.6 bits; conditional E-value: 2.5e-09 GCCSHHH.TTEEEEEEBTTTBS-HHHHCTSS....EEEE----TTSSS--HHHHHHHHHH CS SpoU_methylase 88 lseidlk.ekvalvfGnEdkGlsnellelad....rlvkIpmsgeveSLNvavAvailly 142 ++++++ ++a+v+G E++G+s e l la+ + + Ip+ + v+SLN a+A++ill+ tr|F6TUK5|F6TUK5_MONDO 362 PYDAAWTdAPAAVVIGGETHGVSLESLHLAEstggKRLLIPVVPGVDSLNSAMAASILLF 421 3455555699*****************999855556899******************985 PP >> tr|F6WPS6|F6WPS6_MONDO Uncharacterized protein OS=Monodelphis domestica OX=13616 GN=POLE3 PE=4 SV=1 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 15.2 0.0 4e-06 0.021 8 89 .. 22 102 .. 16 118 .. 0.85 Alignments for each domain: == domain 1 score: 15.2 bits; conditional E-value: 4e-06 S-SSHHHHHHHHHHHHHTT-SEEEEESGSSCTCGSHHHHHHCTTHHHHHHEEEESSHHHHHHHHCCCTEEEEEESTT-SEGC CS SpoU_methylase 8 eiedpgNlGaiaRtakafgaselvlvkprsadllnpeakraaagalevlelkvvdsleealkelkeegfalvatslkgksls 89 + d N+++ aR+a as vl ++ +a+ + + kr +++a +vl + + ++++++++ lke+ ++ + +++kgk+ tr|F6WPS6|F6WPS6_MONDO 22 ALPDGVNISKEARSAISRAASVFVLYATSCANNFAMKGKRKTLNAGDVLSAMEEMEFQRFISPLKEA-LDAYRREQKGKKEA 102 55667799999****9999999*********************************************.******99665433 PP Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (142 nodes) Target sequences: 21272 (11266248 residues searched) Passed MSV filter: 418 (0.0196502); expected 425.4 (0.02) Passed bias filter: 383 (0.0180049); expected 425.4 (0.02) Passed Vit filter: 32 (0.00150432); expected 21.3 (0.001) Passed Fwd filter: 4 (0.000188041); expected 0.2 (1e-05) Initial search space (Z): 21272 [actual number of targets] Domain search space (domZ): 4 [number of targets reported over threshold] # CPU time: 0.13u 0.01s 00:00:00.14 Elapsed: 00:00:00.07 # Mc/sec: 22854.39 // [ok]