# 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/RrnaAD.hmm.txt # target sequence database: proteomes/Tetrahymena_thermophila.fasta # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: RrnaAD [M=265] Accession: PF00398.19 Description: Ribosomal RNA adenine dimethylase 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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 6.4e-62 209.6 0.5 9.2e-62 209.1 0.5 1.2 1 tr|Q24GH8|Q24GH8_TETTS rRNA adenine N(6)-methyltransferase O 3.3e-05 23.7 0.3 5.2e-05 23.0 0.0 1.4 2 tr|Q24E29|Q24E29_TETTS UbiE/COQ5 family methyltransferase OS 0.0023 17.6 0.1 0.0052 16.5 0.1 1.7 1 tr|W7XCF3|W7XCF3_TETTS HemK methyltransferase family protein 0.0032 17.2 0.0 0.0042 16.8 0.0 1.2 1 tr|I7M351|I7M351_TETTS Kinase domain protein OS=Tetrahymena 0.0044 16.7 0.0 0.0058 16.3 0.0 1.2 1 tr|I7LWQ0|I7LWQ0_TETTS Kinase domain protein OS=Tetrahymena 0.0097 15.6 0.0 0.015 15.0 0.0 1.3 1 tr|I7MAE9|I7MAE9_TETTS UbiE/COQ5 family methyltransferase OS ------ inclusion threshold ------ 0.011 15.5 0.1 0.018 14.7 0.1 1.4 1 tr|I7MKV3|I7MKV3_TETTS Arginine N-methyltransferase OS=Tetra 0.02 14.6 0.1 0.025 14.3 0.1 1.3 1 tr|Q239D4|Q239D4_TETTS Cyclopropane-fatty-acyl-phospholipid 0.021 14.5 0.2 0.031 13.9 0.2 1.2 1 tr|Q22R62|Q22R62_TETTS Oxidoreductase, short chain dehydroge 0.079 12.6 0.2 0.2 11.3 0.0 1.7 2 tr|Q22D66|Q22D66_TETTS UbiE/COQ5 methyltransferase OS=Tetrah 0.097 12.3 0.0 0.11 12.1 0.0 1.2 1 tr|Q24D56|Q24D56_TETTS UbiE/COQ5 methyltransferase, putative 0.17 11.5 0.0 0.29 10.7 0.0 1.3 1 tr|I7MB26|I7MB26_TETTS Spermine/spermidine synthase OS=Tetra Domain annotation for each sequence (and alignments): >> tr|Q24GH8|Q24GH8_TETTS rRNA adenine N(6)-methyltransferase OS=Tetrahymena thermophila (strain SB210) OX=312017 GN=TT # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 209.1 0.5 4.1e-65 9.2e-62 4 240 .. 13 240 .. 10 259 .. 0.95 Alignments for each domain: == domain 1 score: 209.1 bits; conditional E-value: 4.1e-65 CXXGCG--EE--HHHHHHHHHHH-GGTTSEEEEES-TTTCCHHHHHCC-SEEEEE-S-HHHHHHHHCHTT...TCCCEEEE-S-CCG CS RrnaAD 4 lrksygqnflknkkvineIldklnleekltvleigpGkGilTeeLakrakqvvvlElderLakllqkkls...kdeklkvvhqDflk 87 ++ks+gq++l+n++++ +I++k+ +++++ vleigpG+G+lT+ L++ ak+v ++E+d+r++++l+k+++ ++k ++++ D+ tr|Q24GH8|Q24GH8_TETTS 13 FNKSFGQHILVNPQMLHSIVEKSAIRPTDIVLEIGPGTGNLTALLLEKAKKVIAVEIDPRMVAELNKRFKysqHAHKFELIQGDAIS 99 79********************************************************************99999************ PP HHHHHHHCTTTCCCCEEEEEEE--TTTHHHHHHHHHHGGGGCEEEEEEEEEHHHHHHHH--TTSTT-SHHHHHHHHHEEEEEEEEC- CS RrnaAD 88 fetpeevtekdsihqeflvvanlPyeistqlvkqlleesrfglvkmllwlqkefarrllarpgskkrsrlsvlreaftdvklvakve 174 +e+p + +van+Py+is++lv++ll+ +r+ ++ ++l++qkefa r +a+p+s +++rlsv+++++ ++ kv+ tr|Q24GH8|Q24GH8_TETTS 100 TEFPFFD----------VCVANTPYQISSPLVFKLLS-HRPLFRHAVLMFQKEFAMRCVAKPSSDLYCRLSVNVQLLSKCDHLIKVG 175 *****77..........7******************7.88889******************************************** PP GGCECS--SSSEEEEEEEE-SS-S--S-HHHHHHHHHHHHCTTTSBCCCHCCCTSTCHHHHHCTT. CS RrnaAD 175 ksifsPppkvdsalvelerkdedlpqkdlkkyesvvrkllnrkrktlstslksllpggelqalsst 240 k++f+Pppkv+s+++++e+k++ p++++ +++ ++r ++ rk+k+ls+ +k++ + l+++ +t tr|Q24GH8|Q24GH8_TETTS 176 KNNFKPPPKVESSVIRIEPKNPA-PVLNYIEWDGLLRVCFMRKNKQLSAIFKNKSVLQVLEKNFET 240 **********************8.8***************************99888888877665 PP >> tr|Q24E29|Q24E29_TETTS UbiE/COQ5 family methyltransferase OS=Tetrahymena thermophila (strain SB210) OX=312017 GN=TTH # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 23.0 0.0 2.3e-08 5.2e-05 24 124 .. 36 142 .. 25 158 .. 0.75 2 ? -3.3 0.0 2.5 5.7e+03 225 239 .. 229 243 .. 195 256 .. 0.51 Alignments for each domain: == domain 1 score: 23.0 bits; conditional E-value: 2.3e-08 HHH-GGTTSEEEEES-TTTCCHHHHHCC-...SEEEEE-S-HHHHHHHHCHTT.TCCCEEEE-S-CCGHHHHHHHCTTTCCCCE.E. CS RrnaAD 24 dklnleekltvleigpGkGilTeeLakra...kqvvvlElderLakllqkkls.kdeklkvvhqDflkfetpeevtekdsihqe.f. 104 + l++ + + +le+g+G+G+l ++++++ ++v+ + e+++++++k+l+ +++ +v + + ++ + + e++ +qe f tr|Q24E29|Q24E29_TETTS 36 NMLKIDKRDSILEVGAGTGFLYNHILNYKkqtAKYVATDISEKMLQIMSKRLKlEYKENQVNNYEKYNLTIQKANAEQLPFEQEsFd 122 5577889******************9999666789*****************98777777777777777777655554443333141 PP EEEEE--TTTHHHHHHHHHH CS RrnaAD 105 lvvanlPyeistqlvkqlle 124 ++nl +i+ + vk l e tr|Q24E29|Q24E29_TETTS 123 CLIGNLCLHITPDPVKMLSE 142 34677777777666665555 PP == domain 2 score: -3.3 bits; conditional E-value: 2.5 CCCTSTCHHHHHCTT CS RrnaAD 225 lksllpggelqalss 239 l + ++++ +++++ tr|Q24E29|Q24E29_TETTS 229 LGTYYSEEIKNKVIE 243 333333333333322 PP >> tr|W7XCF3|W7XCF3_TETTS HemK methyltransferase family protein OS=Tetrahymena thermophila (strain SB210) OX=312017 GN= # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 16.5 0.1 2.3e-06 0.0052 23 117 .. 107 206 .. 98 270 .. 0.74 Alignments for each domain: == domain 1 score: 16.5 bits; conditional E-value: 2.3e-06 HHHH-GG.TTSEEEEES-TTTCCHHHHHCC-SEEEEE-S-H.HHHHHHHCHTT.....TCCCEEEE-S-CCGHHHHHHHCTTTCCCC CS RrnaAD 23 ldklnle.ekltvleigpGkGilTeeLakrakqvvvlElde.rLakllqkkls.....kdeklkvvhqDflkfetpeevtekdsihq 102 ++kl + +k + leig G+G+ + +L+k q++ + +d+ +++ +l k+ + ++l+++h + lkf + +++ q tr|W7XCF3|W7XCF3_TETTS 107 VNKLSKQkQKCQFLEIGIGTGAISLSLLKENSQFTGIAIDKqKFCIELAKQNLnlnkiDPQRLQLIHLECLKFFQNNLN---QNPDQ 190 5665555578899***********************9999526887776654448888899***********9666633...34444 PP EE.EEEEE--TTTHHH CS RrnaAD 103 ef.lvvanlPyeistq 117 +f +v+n Py ++q tr|W7XCF3|W7XCF3_TETTS 191 QFdFIVSNPPYIPTSQ 206 4413466666644444 PP >> tr|I7M351|I7M351_TETTS Kinase domain protein OS=Tetrahymena thermophila (strain SB210) OX=312017 GN=TTHERM_00558360 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 16.8 0.0 1.9e-06 0.0042 28 93 .. 38 105 .. 28 136 .. 0.88 Alignments for each domain: == domain 1 score: 16.8 bits; conditional E-value: 1.9e-06 GGTTSEEEEES-TTTCCHHHHHCC-.SEEEEE-S-HHHHHHHHCHTT.TCCCEEEE-S-CCGHHHHHH CS RrnaAD 28 leekltvleigpGkGilTeeLakra.kqvvvlElderLakllqkkls.kdeklkvvhqDflkfetpee 93 ++++ ++l +g+G l+ee+++ ++ + + + + k++q+k + k+++ k ++ D+ ++e+ + tr|I7M351|I7M351_TETTS 38 INPESKILNVGSGSSRLSEEMFDEGhQNITNIDISSIVTKSMQEKYKdKGPNFKYLQMDVRNMEFEAK 105 56899****************99888*********************99*************999875 PP >> tr|I7LWQ0|I7LWQ0_TETTS Kinase domain protein OS=Tetrahymena thermophila (strain SB210) OX=312017 GN=TTHERM_00578720 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 16.3 0.0 2.6e-06 0.0058 30 96 .. 40 108 .. 30 151 .. 0.85 Alignments for each domain: == domain 1 score: 16.3 bits; conditional E-value: 2.6e-06 TTSEEEEES-TTTCCHHHHHCC-.SEEEEE-S-HHHHHHHHCHTT.TCCCEEEE-S-CCGHHHHHHHCT CS RrnaAD 30 ekltvleigpGkGilTeeLakra.kqvvvlElderLakllqkkls.kdeklkvvhqDflkfetpeevte 96 ++ ++l ig+G ++ee+++ ++ + + + ++ k +q+k + k++++k + D+ ++++p ++ tr|I7LWQ0|I7LWQ0_TETTS 40 PESKILNIGAGNSRMSEEMFDEGyQNITNIDISQVVTKAMQEKYKdKGPNMKYLCMDVKNMDFPAGSYD 108 7899***************88887*********************999***************997766 PP >> tr|I7MAE9|I7MAE9_TETTS UbiE/COQ5 family methyltransferase OS=Tetrahymena thermophila (strain SB210) OX=312017 GN=TTH # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 15.0 0.0 6.5e-06 0.015 32 93 .. 53 117 .. 35 162 .. 0.89 Alignments for each domain: == domain 1 score: 15.0 bits; conditional E-value: 6.5e-06 SEEEEES-TTTCCHHHHHCC-...SEEEEE-S-HHHHHHHHCHTTTCCCEEEE-S-CCGHHHHHH CS RrnaAD 32 ltvleigpGkGilTeeLakra...kqvvvlElderLakllqkklskdeklkvvhqDflkfetpee 93 + +l++g G+G+ ++ +r+ qv+ + +d++ + +k +sk++++++ +f+++e + tr|I7MAE9|I7MAE9_TETTS 53 KRILDVGVGTGHPLYSIIDRIpksVQVTGIDIDTNYIPAAKKIFSKHSNVEIKYMNFYDMEKEKT 117 689******************97678999*****************************9998774 PP >> tr|I7MKV3|I7MKV3_TETTS Arginine N-methyltransferase OS=Tetrahymena thermophila (strain SB210) OX=312017 GN=TTHERM_00 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 14.7 0.1 7.9e-06 0.018 16 56 .. 112 152 .. 98 195 .. 0.82 Alignments for each domain: == domain 1 score: 14.7 bits; conditional E-value: 7.9e-06 HHHHHHHHHHH-GGTTSEEEEES-TTTCCHHHHHCC-SEEE CS RrnaAD 16 kkvineIldklnleekltvleigpGkGilTeeLakrakqvv 56 k +++Ild+ nl e + vl+ig G+Gil+ ak ++v tr|I7MKV3|I7MKV3_TETTS 112 KAYMKSILDNKNLFEGKIVLDIGCGTGILSIFAAKAGAKHV 152 5689*************************976666655554 PP >> tr|Q239D4|Q239D4_TETTS Cyclopropane-fatty-acyl-phospholipid synthase OS=Tetrahymena thermophila (strain SB210) OX=31 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 14.3 0.1 1.1e-05 0.025 32 93 .. 51 115 .. 29 195 .. 0.86 Alignments for each domain: == domain 1 score: 14.3 bits; conditional E-value: 1.1e-05 SEEEEES-TTTCCHHHHHCC-...SEEEEE-S-HHHHHHHHCHTTTCCCEEEE-S-CCGHHHHHH CS RrnaAD 32 ltvleigpGkGilTeeLakra...kqvvvlElderLakllqkklskdeklkvvhqDflkfetpee 93 + +l+ig G+G+ ++a + + + +de+ +k qk +++++++++ q+f++ + ++e tr|Q239D4|Q239D4_TETTS 51 DSILDIGIGTGLPLYKIASKFpqnAKILGVDIDENYVKAAQKLFKDKKNVEIRLQNFYELDAKKE 115 78**********999999998877778889*****************************999884 PP >> tr|Q22R62|Q22R62_TETTS Oxidoreductase, short chain dehydrogenase/reductase family protein OS=Tetrahymena thermophila # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 13.9 0.2 1.4e-05 0.031 57 164 .. 91 224 .. 71 228 .. 0.79 Alignments for each domain: == domain 1 score: 13.9 bits; conditional E-value: 1.4e-05 EE-S-HHHHHHHHCHTTTCCCEEEE-S-CCGHHHHHHHCT.................TTCCCCEEEEEEE--TTTHHHHHHHHHH.. CS RrnaAD 57 vlElderLakllqkklskdeklkvvhqDflkfetpeevte.................kdsihqeflvvanlPyeistqlvkqlle.. 124 +E+ ++L+++ +k+++++ +k+v+ Dflk + p v+ +si +++ + + + e+s +v+ + + tr|Q22R62|Q22R62_TETTS 91 NVEKAQALVEEIKKTINDKIDVKIVQIDFLKVNQPGVVQAavkqvedvdisllvnnaGMSIANKLSIESYTEEELSNTIVFNIYSqv 177 58**********************************87779999**********999999999999999999999999999998867 PP .........GGGGCEEEEEEEEEHHHHHHHH--TTSTT-SHHHHHHHHH CS RrnaAD 125 .........esrfglvkmllwlqkefarrllarpgskkrsrlsvlreaf 164 + k ++ + + + ++ g++ + ++ ++ +f tr|Q22R62|Q22R62_TETTS 178 fftyyllpkLRNR--GKKSGIINLSSVSTVASMAGFHIYTSTKIFNDYF 224 7777777543333..3333444555555555555777777777766665 PP >> tr|Q22D66|Q22D66_TETTS UbiE/COQ5 methyltransferase OS=Tetrahymena thermophila (strain SB210) OX=312017 GN=TTHERM_009 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 11.3 0.0 9e-05 0.2 5 65 .. 17 80 .. 13 113 .. 0.78 2 ? -2.1 0.0 1.1 2.4e+03 209 239 .. 169 198 .. 156 204 .. 0.70 Alignments for each domain: == domain 1 score: 11.3 bits; conditional E-value: 9e-05 XXGCG--EE--HHHHHHHHHHH-GGTTSEEEEES-TTTCCHHHHHCC-...SEEEEE-S-HHHH CS RrnaAD 5 rksygqnflknkkvineIldklnleekltvleigpGkGilTeeLakra...kqvvvlElderLa 65 ++y + + + + + ++ l++++ +le+g+G G+l + +++ ++v+ l e+++ tr|Q22D66|Q22D66_TETTS 17 SQNYVNMYNGSSTFYLSLINMLQIQNRNCILEVGAGSGFLFHHTMNYKkseAKYVATDLSENML 80 4455555666788888999*********************999988874455677766666665 PP == domain 2 score: -2.1 bits; conditional E-value: 1.1 HHHHHHCTTTSBCCCHCCCTSTCHHHHHCTT CS RrnaAD 209 vvrkllnrkrktlstslksllpggelqalss 239 +++ +l+ ++ l+t++ s+++ +++q+l++ tr|Q22D66|Q22D66_TETTS 169 IISDILT-EYGCLNTQIRSNFHLNNRQKLIQ 198 5555554.57788899999999888888754 PP >> tr|Q24D56|Q24D56_TETTS UbiE/COQ5 methyltransferase, putative OS=Tetrahymena thermophila (strain SB210) OX=312017 GN= # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 12.1 0.0 4.8e-05 0.11 23 73 .. 36 89 .. 16 119 .. 0.87 Alignments for each domain: == domain 1 score: 12.1 bits; conditional E-value: 4.8e-05 HHHH-GGTTSEEEEES-TTTCCHHHHHCC-...SEEEEE-S-HHHHHHHHCHTT CS RrnaAD 23 ldklnleekltvleigpGkGilTeeLakra...kqvvvlElderLakllqkkls 73 l+ l+++ +++le+g+G G+l ++ +++ ++v+ l e+++ +l k+l+ tr|Q24D56|Q24D56_TETTS 36 LNMLKVNTRKQILEVGAGAGFLYNHTMNYKrpeASYVATDLSEKMLSILCKRLQ 89 6667778999****************999988889*********9999999876 PP >> tr|I7MB26|I7MB26_TETTS Spermine/spermidine synthase OS=Tetrahymena thermophila (strain SB210) OX=312017 GN=TTHERM_00 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 10.7 0.0 0.00013 0.29 33 79 .. 200 249 .. 187 277 .. 0.81 Alignments for each domain: == domain 1 score: 10.7 bits; conditional E-value: 0.00013 EEEEES-TTTCCHHHHHCC-...SEEEEE-S-HHHHHHHHCHTTTCCCEE CS RrnaAD 33 tvleigpGkGilTeeLakra...kqvvvlElderLakllqkklskdeklk 79 +l ig G + + L++ + k+ +v E+der ++ ++k ++ +e+++ tr|I7MB26|I7MB26_TETTS 200 HILIIGGGDMLIANYLLESFpnvKKITVCEIDERVVENVRKYFKMSENIN 249 578899999999999*9999999******************999555543 PP Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (265 nodes) Target sequences: 26971 (16912921 residues searched) Passed MSV filter: 3017 (0.111861); expected 539.4 (0.02) Passed bias filter: 187 (0.00693337); expected 539.4 (0.02) Passed Vit filter: 31 (0.00114938); expected 27.0 (0.001) Passed Fwd filter: 12 (0.000444922); expected 0.3 (1e-05) Initial search space (Z): 26971 [actual number of targets] Domain search space (domZ): 12 [number of targets reported over threshold] # CPU time: 0.33u 0.02s 00:00:00.35 Elapsed: 00:00:00.12 # Mc/sec: 37349.37 // [ok]