# 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/Xenopus_tropicalis.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-58 197.9 1.1 2.7e-58 197.2 1.1 1.3 1 tr|F7EK24|F7EK24_XENTR tRNA-yW synthesizing protein 3 homolo ------ inclusion threshold ------ 0.14 11.9 0.0 0.2 11.4 0.0 1.2 1 sp|Q5M905|NPL_XENTR N-acetylneuraminate lyase OS=Xenopus 0.83 9.4 4.7 49 3.6 0.1 3.6 4 tr|F6QXG6|F6QXG6_XENTR Uncharacterized protein OS=Xenopus tr Domain annotation for each sequence (and alignments): >> tr|F7EK24|F7EK24_XENTR tRNA-yW synthesizing protein 3 homolog OS=Xenopus tropicalis OX=8364 GN=tyw3 PE=4 SV=1 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 197.2 1.1 3.4e-62 2.7e-58 11 212 .. 11 192 .. 2 194 .. 0.92 Alignments for each domain: == domain 1 score: 197.2 bits; conditional E-value: 3.4e-62 .......HHHHHCCHC-GGGHHHHHHHHC-SSEEEEEEES-EEEEE............EESSTT-STT-EEEEEESS---HHHHHHH CS TYW3 11 svpd...tdkspkGsvDekirelideinsledlvTtSSCsGRvsvflegrksaeaeekaaksggkkgggkwlfvsHdpvkeeellae 94 ++++ d s+kGsvDe+i e +++in++e+++TtSSCsGRv ++ +e+ ++s +k++++wlfv+H+ +k ++++a+ tr|F7EK24|F7EK24_XENTR 11 KQQSlrkADVSKKGSVDEDIEETVRLINQQERYFTTSSCSGRVIMI---------NETLDSSIIQKQNCSWLFVTHQLCKPDDVFAA 88 33333349**************************************.........56777888888999****************** PP HCS--..............SSEEEEEEE--EEEEEESSHHHHHHHHHHHHHCT-TT-EEEEECTTEEEEEEE---EEEEEEESST.S CS TYW3 95 legleeeeesaksseseeeerlivfkfePmILhvlcrslehAqkllsaAlsaGfreSGivslkkkkvivairsglklevpigrkk.l 180 l++ ++ +v+kfeP++Lhv+c++le+Aq l+ +A+++Gfr+SGi+ kk+k+i+a+rs+++levp+ ++ + tr|F7EK24|F7EK24_XENTR 89 LKNA---------------TGDVVLKFEPFVLHVQCHKLEDAQILHGVAINSGFRNSGITVGKKGKIIMAVRSTHGLEVPLTQNGkC 160 **99...............589************************************************************6556* PP ---HHHHHHHHHHHHHHHHHHHHHHHHHHHHC CS TYW3 181 lvseeylkllvklanerfeenkkrierfeeal 212 lvs+ey+++lv++an+++eenk+ri rf++ l tr|F7EK24|F7EK24_XENTR 161 LVSQEYIEFLVQTANRKMEENKRRITRFHSCL 192 ****************************9987 PP >> sp|Q5M905|NPL_XENTR N-acetylneuraminate lyase OS=Xenopus tropicalis OX=8364 GN=npl PE=2 SV=1 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 11.4 0.0 2.5e-05 0.2 114 148 .. 71 105 .. 29 119 .. 0.79 Alignments for each domain: == domain 1 score: 11.4 bits; conditional E-value: 2.5e-05 SSEEEEEEE--EEEEEESSHHHHHHHHHHHHHCT- CS TYW3 114 erlivfkfePmILhvlcrslehAqkllsaAlsaGf 148 ++ + k++ +I+hv c sl++ ++l + A+s+G sp|Q5M905|NPL_XENTR 71 VKQARGKMDNVIIHVGCLSLSDSKDLAAHAASCGA 105 666677999************************95 PP >> tr|F6QXG6|F6QXG6_XENTR Uncharacterized protein OS=Xenopus tropicalis OX=8364 PE=4 SV=1 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? -1.2 0.1 0.18 1.4e+03 46 59 .. 30 53 .. 29 85 .. 0.66 2 ? 3.6 0.1 0.0061 49 44 69 .. 134 163 .. 130 207 .. 0.59 3 ? 2.7 0.0 0.011 93 43 59 .. 239 259 .. 228 301 .. 0.79 4 ? 2.4 0.1 0.014 1.1e+02 46 59 .. 347 368 .. 337 433 .. 0.75 Alignments for each domain: == domain 1 score: -1.2 bits; conditional E-value: 0.18 ES-EEEEE................ CS TYW3 46 CsGRvsvflegrk..........s 59 C GRv ++ +g+ s tr|F6QXG6|F6QXG6_XENTR 30 CEGRVEIYYNGTWgtvcddlwnmS 53 99******9887655555555540 PP == domain 2 score: 3.6 bits; conditional E-value: 0.0061 EEES-EEEEE.....................EESS CS TYW3 44 SSCsGRvsvflegrk.........saeaeekaaks 69 SSC GR v +g+ + k+ak tr|F6QXG6|F6QXG6_XENTR 134 SSCKGRLEVNHNGTWgtvcndqwdK-----KDAKV 163 9*********888776666443321.....33333 PP == domain 3 score: 2.7 bits; conditional E-value: 0.011 EEEES-EEEEE.......... CS TYW3 43 tSSCsGRvsvflegrk....s 59 SSC GR v +g+ + tr|F6QXG6|F6QXG6_XENTR 239 NSSCKGRLEVNHNGTWgtvcN 259 5*********98777644442 PP == domain 4 score: 2.4 bits; conditional E-value: 0.014 ES-EEEEE.............. CS TYW3 46 CsGRvsvflegrk........s 59 C+GR vf +g+ + tr|F6QXG6|F6QXG6_XENTR 347 CAGRLEVFYDGEWgsvcdddwD 368 ********99986555555550 PP Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (214 nodes) Target sequences: 24182 (11782085 residues searched) Passed MSV filter: 868 (0.0358945); expected 483.6 (0.02) Passed bias filter: 484 (0.0200149); expected 483.6 (0.02) Passed Vit filter: 41 (0.00169548); expected 24.2 (0.001) Passed Fwd filter: 5 (0.000206765); expected 0.2 (1e-05) Initial search space (Z): 24182 [actual number of targets] Domain search space (domZ): 3 [number of targets reported over threshold] # CPU time: 0.19u 0.01s 00:00:00.20 Elapsed: 00:00:00.08 # Mc/sec: 31517.08 // [ok]