# hmmscan :: search sequence(s) against a profile 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 sequence file: AA/23726_FusoPortal_Gene_805.faa # target HMM database: Pfam-A.hmm # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: 23726_FusoPortal_Gene_805 [L=295] Description: # 901564 # 902448 # 1 # ID=1_805;partial=00;start_type=ATG;rbs_motif=GGA/GAG/AGG;rbs_spacer=5-10bp;gc_cont=0.272 Scores for complete sequence (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Model Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 1.6e-49 167.9 7.8 2.3e-49 167.4 7.8 1.3 1 PMSR Peptide methionine sulfoxide reductase 1.5e-46 157.3 0.1 3.6e-46 156.1 0.0 1.7 2 SelR SelR domain 0.0081 15.4 2.0 0.0081 15.4 2.0 1.6 2 PPV_E2_N E2 (early) protein, N terminal Domain annotation for each model (and alignments): >> PMSR Peptide methionine sulfoxide reductase # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 167.4 7.8 4.2e-53 2.3e-49 16 153 .] 1 134 [. 1 134 [. 0.98 Alignments for each domain: == domain 1 score: 167.4 bits; conditional E-value: 4.2e-53 HCTSTTEEEEEEEEESSS-SS--HHHHHTTTT--EEEEEEEEETTTS-HHHHHHHHHHTS-TT-SSEETTEESGGG--EEEESS CS PMSR 16 feklkGvlstevGYagGktenptYeevcsgktghaEavevvydpekvsleellelffeihDptqlnrqgnDvGtqYrsaiyytn 99 +ek+ Gv+++++GYa+Gkt+np+Y++ +++ghaE+v+v+yd++kv+l++ll+++f+i+Dpt++n+qgnD+G+qYr++iyy n 23726_FusoPortal_Gene_805 1 MEKIYGVIDVTSGYANGKTKNPKYQDL--HNSGHAETVHVKYDASKVNLSTLLKYYFKIIDPTSVNKQGNDRGSQYRTGIYYVN 82 67999*********************9..667**************************************************** PP CCHHHHHHHHHHHHHTTHTTSSS---EEEEG-SEEE--CCCTTHHHH-TTS--T CS PMSR 100 eeqkevaeevleelqkkkalkkkivteieplkefykaeeyHqqYleknpegych 153 +++k+v+++ ++e qkk +++kiv+e+ plke+y aeeyHq+Yl+knp+gych 23726_FusoPortal_Gene_805 83 QNDKSVIQDEIKEQQKK--YSQKIVVEVLPLKEYYLAEEYHQDYLKKNPNGYCH 134 ****************9..**********************************8 PP >> SelR SelR domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? -2.6 0.0 0.94 5.2e+03 89 89 .. 82 82 .. 52 105 .. 0.50 2 ! 156.1 0.0 6.4e-50 3.6e-46 1 121 [] 157 277 .. 157 277 .. 0.98 Alignments for each domain: == domain 1 score: -2.6 bits; conditional E-value: 0.94 T CS SelR 89 k 89 + 23726_FusoPortal_Gene_805 82 N 82 2 PP == domain 2 score: 156.1 bits; conditional E-value: 6.4e-50 HHHCTSHCCHHHHHHHTT-SSTTSSSTSS--SSCEEEETTTS-EEEECCCCE-STTSSSEESS-STTTTEEEEEEECTTSEEEE CS SelR 1 elkkkLtpeqyevlrekgterpftgeyekekekGvyecavcgepLfssetkfdsgcGwpsFaeaikeeavkekkdtslgmerte 84 el+ kL+++qyev+++ +ter+f+++y+++++kG+y+++++gepLfss++k+ s+cGwpsF ++i e v++++dts++m rte 23726_FusoPortal_Gene_805 157 ELRMKLNSKQYEVTQNGDTERAFQNDYWDFFDKGIYVDITTGEPLFSSTDKYASQCGWPSFVKPIVPEVVTYHNDTSFNMIRTE 240 57899******************************************************************************* PP EEETTCECEEEEEECTSSSSS.SEEEEE-CCCEEEEE CS SelR 85 vvcakcgahlGhvFedgpkpttgkrycinsvslkfkp 121 v++++ +ahlGhvF+dgp+++ gkrycins++++f+p 23726_FusoPortal_Gene_805 241 VRSRSGKAHLGHVFDDGPRDRGGKRYCINSAAIQFIP 277 ***********************************86 PP >> PPV_E2_N E2 (early) protein, N terminal # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 15.4 2.0 1.5e-06 0.0081 113 189 .. 32 109 .. 23 118 .. 0.86 2 ? -2.5 0.1 0.46 2.6e+03 111 136 .. 161 186 .. 155 212 .. 0.66 Alignments for each domain: == domain 1 score: 15.4 bits; conditional E-value: 1.5e-06 EEEEEEEECTT-TTSEEEEEEEE.EEEEE.ETTEEEEE--EE-SSEEEEE.ETTEEEEEEEHHHHHHHH-SSS-EEEE CS PPV_E2_N 113 kgktveviydgdeeNateytlWe.evyvqdeedewekvkskvdaeGiyyvdkegekeyyvkFeedAerysktgewevk 189 +++tv+v yd ++ N + ++ +++ ++ ++ + +++ +Giyyv+++ + + + +e+ ++ys++ +ev 23726_FusoPortal_Gene_805 32 HAETVHVKYDASKVNLSTLLKYYfKIIDPTSVNKQGNDRGSQYRTGIYYVNQNDKSVIQDEIKEQQKKYSQKIVVEVL 109 5789***********9887765516666688889999999999****************************9988885 PP == domain 2 score: -2.5 bits; conditional E-value: 0.46 EEEEEEEEEECTT-TTSEEEEEEEEE CS PPV_E2_N 111 KkkgktveviydgdeeNateytlWee 136 K ++k+ ev+ +gd+e a + W+ 23726_FusoPortal_Gene_805 161 KLNSKQYEVTQNGDTERAFQNDYWDF 186 55566666666666666655555543 PP Internal pipeline statistics summary: ------------------------------------- Query sequence(s): 1 (295 residues searched) Target model(s): 16712 (2907032 nodes) Passed MSV filter: 790 (0.0472714); expected 334.2 (0.02) Passed bias filter: 369 (0.0220799); expected 334.2 (0.02) Passed Vit filter: 31 (0.00185495); expected 16.7 (0.001) Passed Fwd filter: 3 (0.000179512); expected 0.2 (1e-05) Initial search space (Z): 16712 [actual number of targets] Domain search space (domZ): 3 [number of targets reported over threshold] # CPU time: 0.24u 0.23s 00:00:00.47 Elapsed: 00:00:00.31 # Mc/sec: 2766.37 // [ok]