# 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/TYW3.hmm.txt # target sequence database: proteomes/Thermococcus_kodakarensis.fasta # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: TYW3 [M=214] Accession: PF02676.13 Description: Methyltransferase TYW3 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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 1.7e-46 155.3 0.0 2.2e-46 155.0 0.0 1.1 1 sp|Q5JFK6|TYW31_THEKO tRNA(Phe) 7-((3-amino-3-carboxypropyl) 3.1e-41 138.2 0.0 4e-41 137.8 0.0 1.1 1 sp|Q5JES6|TYW32_THEKO tRNA(Phe) 7-((3-amino-3-carboxypropyl) Domain annotation for each sequence (and alignments): >> sp|Q5JFK6|TYW31_THEKO tRNA(Phe) 7-((3-amino-3-carboxypropyl)-4-demethylwyosine(37)-N(4))-methyltransferase 1 OS=Ther # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 155.0 0.0 1.9e-49 2.2e-46 2 213 .. 11 193 .. 10 194 .. 0.95 Alignments for each domain: == domain 1 score: 155.0 bits; conditional E-value: 1.9e-49 HHHHHHHHH....HHHHHCCHC-GGGHHHHHHHHC-SSEEEEEEES-EEEEE............EESSTT-STT-EEEEEESS---HH CS TYW3 2 rKakiLeeLsvpdtdkspkGsvDekirelideinsledlvTtSSCsGRvsvflegrksaeaeekaaksggkkgggkwlfvsHdpvkee 89 +K+k++e L +++ ++ +vD++i++l+++in+l++++TtSSCsGR+sv+ ++++ g+k ++ wl ++H++v+ e sp|Q5JFK6|TYW31_THEKO 11 QKEKAMEGL----RKALEEDKVDHDIIPLLEKINALQNYFTTSSCSGRISVM------------EMPHFGDKVNSVWLGKWHREVRLE 82 799999999....999************************************............78888888999************* PP HHHHHHCS--..............SSEEEEEEE--EEEEEESSHHHHHHHHHHHHHCT-TT-EEEEECTTEEEEEEE---EEEEEEES CS TYW3 90 ellaelegleeeeesaksseseeeerlivfkfePmILhvlcrslehAqkllsaAlsaGfreSGivslkkkkvivairsglklevpigr 177 e+l+++ +++ +++++f + ++ILhv +r+le+A +ll++A+ Gf++S i+s+++kk +v+irs+++++vp+g+ sp|Q5JFK6|TYW31_THEKO 83 EVLEAVGKHR--------------SGQLWFLVRSPILHVGARTLEDAVRLLNLAIGLGFKYSNIKSVSHKKLVVEIRSTERMDVPLGE 156 ******9997..............789************************************************************5 PP ST.S---HHHHHHHHHHHHHHHHHHHHHHHHHHHHC- CS TYW3 178 kk.llvseeylkllvklanerfeenkkrierfeealk 213 + l+v+e+y++ +v+lan ++++ k +++r+ee+++ sp|Q5JFK6|TYW31_THEKO 157 NGeLWVDEAYIEKIVNLANAQVRRFKGKLKRLEEEIE 193 555*******************************997 PP >> sp|Q5JES6|TYW32_THEKO tRNA(Phe) 7-((3-amino-3-carboxypropyl)-4-demethylwyosine(37)-N(4))-methyltransferase 2 OS=Ther # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 137.8 0.0 3.4e-44 4e-41 2 213 .. 3 184 .. 2 185 .. 0.95 Alignments for each domain: == domain 1 score: 137.8 bits; conditional E-value: 3.4e-44 HHHHHHHHH....HHHHHCCHC-GGGHHHHHHHHC-SSEEEEEEES-EEEEE............EESSTT-STT-EEEEEESS---HH CS TYW3 2 rKakiLeeLsvpdtdkspkGsvDekirelideinsledlvTtSSCsGRvsvflegrksaeaeekaaksggkkgggkwlfvsHdpvkee 89 K+++L++L + + G+vD +i++l+ +ins ++++TtSSCsGR+ ++ ++++ g k ++wl++ H+p++ e sp|Q5JES6|TYW32_THEKO 3 AKREALQSL----FTAMRDGKVDGDIIDLLLLINSIKGIYTTSSCSGRIGII------------EEPALGAKPLSRWLIKVHRPIEFE 74 588899999....8999***********************************............67888888999************* PP HHHHHHCS--..............SSEEEEEEE--EEEEEESSHHHHHHHHHHHHHCT-TT-EEEEECTTEEEEEEE---EEEEEEES CS TYW3 90 ellaelegleeeeesaksseseeeerlivfkfePmILhvlcrslehAqkllsaAlsaGfreSGivslkkkkvivairsglklevpigr 177 e+ ++l++ + e+ i +k +P+I+hv +++le+A+kl++++l++Gf+++ + ++k +++v+i +++ l p+gr sp|Q5JES6|TYW32_THEKO 75 EAKEALKNAK--------------EGIIFLKSQPPIFHVVAEDLEKARKLHELGLASGFKYTTFKVISK-RYLVEINATEYLTAPLGR 147 *****99997..............79******************************************9.*****************6 PP ST.S---HHHHHHHHHHHHHHHHHHHHHHHHHHHHC- CS TYW3 178 kk.llvseeylkllvklanerfeenkkrierfeealk 213 + +lv++ yl++ v++ ne++++ k r+ r+ee+++ sp|Q5JES6|TYW32_THEKO 148 DGrVLVDDGYLRFAVEIGNEMLRRSKGRLPRLEENFR 184 666******************************9986 PP Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (214 nodes) Target sequences: 2301 (637680 residues searched) Passed MSV filter: 55 (0.0239027); expected 46.0 (0.02) Passed bias filter: 48 (0.0208605); expected 46.0 (0.02) Passed Vit filter: 5 (0.00217297); expected 2.3 (0.001) Passed Fwd filter: 2 (0.000869187); expected 0.0 (1e-05) Initial search space (Z): 2301 [actual number of targets] Domain search space (domZ): 2 [number of targets reported over threshold] # CPU time: 0.02u 0.00s 00:00:00.02 Elapsed: 00:00:00.01 # Mc/sec: 13646.35 // [ok]