# 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/UPF0020.hmm.txt # target sequence database: proteomes/Monodelphis_domestica.fasta # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: UPF0020 [M=197] Accession: PF01170.17 Description: Putative RNA methylase family UPF0020 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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 1.1e-52 178.8 0.0 1.9e-52 178.1 0.0 1.3 1 tr|F6QGW7|F6QGW7_MONDO Uncharacterized protein OS=Monodelphi 1.4e-24 87.1 0.0 4.6e-24 85.4 0.0 1.8 1 tr|F7EY46|F7EY46_MONDO THUMP domain containing 2 OS=Monodelp 9.4e-11 42.0 0.0 2.4e-10 40.7 0.0 1.6 1 tr|F7GFQ3|F7GFQ3_MONDO tRNA methyltransferase 11 homolog OS= 6.8e-08 32.7 0.5 7.5e-07 29.3 0.5 2.1 1 tr|F6ZXU0|F6ZXU0_MONDO Methyltransferase like 5 OS=Monodelph 7.3e-07 29.3 0.3 6.4e-06 26.2 0.3 2.1 1 tr|F7B9I4|F7B9I4_MONDO HemK methyltransferase family member 1.5e-06 28.3 0.1 6.9e-06 26.1 0.1 1.9 1 tr|F7ADF5|F7ADF5_MONDO Trimethylguanosine synthase 1 OS=Mono ------ inclusion threshold ------ 0.028 14.3 0.0 0.065 13.1 0.0 1.8 1 tr|F6WVA7|F6WVA7_MONDO 2-methoxy-6-polyprenyl-1,4-benzoquino 0.062 13.2 0.1 0.21 11.5 0.0 1.9 2 tr|F6S9Y2|F6S9Y2_MONDO tRNA methyltransferase 2 homolog A OS Domain annotation for each sequence (and alignments): >> tr|F6QGW7|F6QGW7_MONDO Uncharacterized protein OS=Monodelphis domestica OX=13616 GN=THUMPD3 PE=4 SV=1 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 178.1 0.0 7e-56 1.9e-52 2 196 .. 303 486 .. 301 487 .. 0.96 Alignments for each domain: == domain 1 score: 178.1 bits; conditional E-value: 7e-56 SSS-SS---SS-HHHHHHHHHHTT--TTS-EEETT-TTSHHHHHHHHHHTT--TTTT----SSHHHHHHHHHHHH--EEEEES-HHH CS UPF0020 2 gyRefngpapLketLAaalvrlagwkpgepllDPmCGsGtilIEaallganiapgllrefvlelkaeaeeearaelklygsDldrrv 88 ++++f gp++L++tLA++++rl+ +p++ ++DPmCG+G+i+IE+a + n+++++ ++++ + ++++++ ++ tr|F6QGW7|F6QGW7_MONDO 303 NITHF-GPTTLRSTLAYGMLRLCSPQPTDIIIDPMCGTGAIPIEGAAEWPNCYHIAG-------------DNNPLAVKRAANNILSL 375 55555.5**********************************************7666.............88899999********* PP HHHHHHHHHHTT-GGGEEEEE--GGG--STTS---EEEE----------HHHHHHHHHHHHHHHHHH-TT...-EEEEEESSHHHHH CS UPF0020 89 vqgareNaekagvgdliefsqadaakLrlkegevdvivtnpPYGerlgskkalekLYseflrelkrvlrgg.grlvlltsenkalek 174 +++++ + +ka +g i++ q+d+++L+l++g+vd+ivt++P+G+r+gskk++++LY+++l+e++rv+r g gr+vllt+++k+++k tr|F6QGW7|F6QGW7_MONDO 376 LTKSQVKESKAFWGLPIDAIQWDICNLPLRTGSVDIIVTDMPFGKRIGSKKRNWNLYPSCLQEMSRVCRPGtGRAVLLTQDRKCFAK 462 *********************************************************************999*************** PP CC---..ESEEEEEEETTEEEEEE CS UPF0020 175 aleer..alrkvkeknvklglllk 196 al+++ +rkv+ ++v++g+l++ tr|F6QGW7|F6QGW7_MONDO 463 ALSSMghVWRKVHTVWVNIGGLHA 486 *****999************9985 PP >> tr|F7EY46|F7EY46_MONDO THUMP domain containing 2 OS=Monodelphis domestica OX=13616 GN=THUMPD2 PE=4 SV=1 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 85.4 0.0 1.7e-27 4.6e-24 4 169 .. 227 366 .. 225 372 .. 0.93 Alignments for each domain: == domain 1 score: 85.4 bits; conditional E-value: 1.7e-27 S-SS---SS-HHHHHHHHHHTT--TTS-EEETT-TTSHHHHHHHHHHTT--TTTT----SSHHHHHHHHHHHH--EEEEES-HHHHH CS UPF0020 4 RefngpapLketLAaalvrlagwkpgepllDPmCGsGtilIEaallganiapgllrefvlelkaeaeeearaelklygsDldrrvvq 90 R + + a L++t+A + la+++ g + lDPmCG Gtil+Eaa + n++ g+D + + tr|F7EY46|F7EY46_MONDO 227 RAYIKVAGLRSTIAWTMASLAEINVGAVVLDPMCGLGTILLEAAKEWPNAY------------------------YLGADVSDSQLS 289 778889*********************************************........................79********** PP HHHHHHHHTT-GGGEEEEE--GGG--STTS---EEEE----------HHHHHHHHHHHHHHHHHH-TT..-EEEEEESS CS UPF0020 91 gareNaekagvgdliefsqadaakLrlkegevdvivtnpPYGerlgskkalekLYseflrelkrvlrgggrlvlltsen 169 ga +N+++ag+ d+ie+ + +++L+l +++vdvi+++ P+G++ + k+++++ +e+ r++ ++ g +vll+se+ tr|F7EY46|F7EY46_MONDO 290 GACDNLKSAGLVDRIELLKFSVTELPLLSKSVDVIISDIPFGKKFKLGKDIKSILHEMERQVLLCVGG--TIVLLLSEE 366 **************************9999**********************9999999988765555..888777765 PP >> tr|F7GFQ3|F7GFQ3_MONDO tRNA methyltransferase 11 homolog OS=Monodelphis domestica OX=13616 GN=TRMT11 PE=4 SV=2 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 40.7 0.0 9e-14 2.4e-10 3 140 .. 190 320 .. 189 325 .. 0.85 Alignments for each domain: == domain 1 score: 40.7 bits; conditional E-value: 9e-14 SS-SS---SS-HHHHHHHHHHTT--TTS-EEETT-TTSHHHHHHHHHHTT--TTTT----SSHHHHHHHHHHHH--EEEEES-HHHH CS UPF0020 3 yRefngpapLketLAaalvrlagwkpgepllDPmCGsGtilIEaallganiapgllrefvlelkaeaeeearaelklygsDldrrvv 89 +R+f g++++ + L+ + + ++k+++ +DP+ G+G++lI a ga++ + ++ + + ++ r+++k +g D + tr|F7GFQ3|F7GFQ3_MONDO 190 KRHFIGNTSMDAGLSFIMANHGKVKENDIVFDPFVGTGGLLIPSAHFGAYVC---GTDIDYNTVHGLGKASRKNQKWRGPDENI--- 270 79**************************************************...556777788888888999999*****875... PP HHHHHHHHHTT-GGG.EEEEE--GGG--.STTS---EEEE----------HHH CS UPF0020 90 qgareNaekagvgdl.iefsqadaakLr.lkegevdvivtnpPYGerlgskka 140 + N++++g+++ ++ + da k +k +d+i+t+pPYG+r ++ k+ tr|F7GFQ3|F7GFQ3_MONDO 271 ---KANLRQYGLEKYyLDVLVSDASKPSwRKGLFFDAIITDPPYGIRESTRKT 320 ...5799999999862466666777666445559*************888775 PP >> tr|F6ZXU0|F6ZXU0_MONDO Methyltransferase like 5 OS=Monodelphis domestica OX=13616 GN=METTL5 PE=4 SV=2 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 29.3 0.5 2.8e-10 7.5e-07 13 141 .. 29 136 .. 22 172 .. 0.76 Alignments for each domain: == domain 1 score: 29.3 bits; conditional E-value: 2.8e-10 -HHHHHHHHHHTT--....TTS-EEETT-TTSHHHHHHHHHHTT--TTTT----SSHHHHHHHHHHHH--EEEEES-HHHHHHHHHH CS UPF0020 13 ketLAaalvrlagwk....pgepllDPmCGsGtilIEaallganiapgllrefvlelkaeaeeearaelklygsDldrrvvqgareN 95 ++ +Aa++++ + +++++ D CG G + I aa+lga +g+D+d+ +++ ++N tr|F6ZXU0|F6ZXU0_MONDO 29 RPHIAACMLYTIHNTyddiENKVIGDLGCGCGMLSIGAAMLGAGLC-------------------------VGFDIDEDALEIFNKN 90 6777777776655441111445788888999999999999999888.........................8*************** PP HHHTT-GGGEEEEE--GGG--.STTS---EEEE----------HHHH CS UPF0020 96 aekagvgdliefsqadaakLr.lkegevdvivtnpPYGerlgskkal 141 ++ ++++ i++ q ++++L ++++d+i+ npP+G + ++ ++ tr|F6ZXU0|F6ZXU0_MONDO 91 VKEFELTN-IDMIQCNVCSLSeTISKSFDTIIMNPPFGTKHNKGMDM 136 *****986.777788******65566************987665544 PP >> tr|F7B9I4|F7B9I4_MONDO HemK methyltransferase family member 1 OS=Monodelphis domestica OX=13616 GN=HEMK1 PE=4 SV=2 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 26.2 0.3 2.4e-09 6.4e-06 76 131 .. 194 254 .. 164 267 .. 0.87 Alignments for each domain: == domain 1 score: 26.2 bits; conditional E-value: 2.4e-09 H--EEEEES-HHHHHHHHHHHHHTT-GGGEEEEE--GGG--.....STTS---EEEE---- CS UPF0020 76 elklygsDldrrvvqgareNaekagvgdliefsqadaakLr.....lkegevdvivtnpPY 131 + +++++D+ +++vq +reNa++ ++d+i+++ d+++ l+ g vd +v+npPY tr|F7B9I4|F7B9I4_MONDO 194 QSRVVAVDKGEEAVQLTRENAQRLHLEDRIQIVRHDITSGVnreqlLPWGPVDFVVSNPPY 254 33499*******************************98643355666788*********** PP >> tr|F7ADF5|F7ADF5_MONDO Trimethylguanosine synthase 1 OS=Monodelphis domestica OX=13616 GN=TGS1 PE=4 SV=2 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 26.1 0.1 2.6e-09 6.9e-06 31 132 .. 582 656 .. 577 658 .. 0.92 Alignments for each domain: == domain 1 score: 26.1 bits; conditional E-value: 2.6e-09 -EEETT-TTSHHHHHHHHHHTT--TTTT----SSHHHHHHHHHHHH--EEEEES-HHHHHHHHHHHHHTT-GGGEEEEE--GGG--S CS UPF0020 31 pllDPmCGsGtilIEaallganiapgllrefvlelkaeaeeearaelklygsDldrrvvqgareNaekagvgdliefsqadaakLrl 117 ++D +CG G+ +I al g++++ ++D+d++ ++ a +Nae +gv+d+ief + d+ L tr|F7ADF5|F7ADF5_MONDO 582 IIVDAFCGVGGNAIQFALTGKRVI--------------------------AIDIDPAKIDLAHNNAEVYGVADKIEFICGDFMLLA- 641 688888888888888888888888..........................9********************************999. PP TTS---EEEE----- CS UPF0020 118 kegevdvivtnpPYG 132 ++ + dv+ pP+G tr|F7ADF5|F7ADF5_MONDO 642 SDLKADVVFLSPPWG 656 8889**********9 PP >> tr|F6WVA7|F6WVA7_MONDO 2-methoxy-6-polyprenyl-1,4-benzoquinol methylase, mitochondrial OS=Monodelphis domestica OX=1 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 13.1 0.0 2.5e-05 0.065 71 124 .. 147 203 .. 89 231 .. 0.72 Alignments for each domain: == domain 1 score: 13.1 bits; conditional E-value: 2.5e-05 HHHH...HH--EEEEES-HHHHHHHHHHHHHTT-GGGEEEEE--GGG--STTS---E CS UPF0020 71 eear...aelklygsDldrrvvqgareNaekagvgdliefsqadaakLrlkegevdv 124 ++ + +e +++ D+++++++ ++++a+ g ++ ++++ da +L+ +++++d+ tr|F6WVA7|F6WVA7_MONDO 147 QNGQgpsEESHVVVCDINKEMLKVGKQKAKTLGHKKGLAWVVGDAEELPFDDDKFDI 203 222245455669999**********************************88888885 PP >> tr|F6S9Y2|F6S9Y2_MONDO tRNA methyltransferase 2 homolog A OS=Monodelphis domestica OX=13616 GN=TRMT2A PE=3 SV=1 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? -2.2 0.0 1.3 3.4e+03 129 175 .. 190 235 .. 187 244 .. 0.79 2 ? 11.5 0.0 7.7e-05 0.21 20 92 .. 436 501 .. 421 513 .. 0.82 Alignments for each domain: == domain 1 score: -2.2 bits; conditional E-value: 1.3 ---------HHHH.HHHHHHHHHHHHHH-TT..-EEEEEESSHHHHHC CS UPF0020 129 pPYGerlgskkal.ekLYseflrelkrvlrgggrlvlltsenkaleka 175 +PY e l++k++ e+ +++ +e+ ++ r+ l l+ ++++++k+ tr|F6S9Y2|F6S9Y2_MONDO 190 LPYEEQLERKQQEcEQVLQKLTKEIGNNNRT--LLPWLFVQKQKFNKL 235 6999999998877788888888888887777..777788888888776 PP == domain 2 score: 11.5 bits; conditional E-value: 7.7e-05 HHHHTT--TTS-EEETT-TTSHHHHHHHHHHTT--TTTT----SSHHHHHHHHHHHH--EEEEES-HHHHHHH CS UPF0020 20 lvrlagwkpgepllDPmCGsGtilIEaallganiapgllrefvlelkaeaeeearaelklygsDldrrvvqga 92 + a+++ + + lD CG+Gti + a+ +++++ +el +ea e+ar+++k+ ++D+++ + +a tr|F6S9Y2|F6S9Y2_MONDO 436 IRDWAQLDGEITVLDVCCGTGTIGLSLAQTVKRVI-------GIELCQEAVEDARVNAKMNALDNIEFHCGKA 501 5566777888899999***********99999999.......5678999999999999999999988776666 PP Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (197 nodes) Target sequences: 21272 (11266248 residues searched) Passed MSV filter: 556 (0.0261376); expected 425.4 (0.02) Passed bias filter: 453 (0.0212956); expected 425.4 (0.02) Passed Vit filter: 46 (0.00216247); expected 21.3 (0.001) Passed Fwd filter: 8 (0.000376081); expected 0.2 (1e-05) Initial search space (Z): 21272 [actual number of targets] Domain search space (domZ): 8 [number of targets reported over threshold] # CPU time: 0.23u 0.01s 00:00:00.24 Elapsed: 00:00:00.11 # Mc/sec: 20176.83 // [ok]