# 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_1617.faa # target HMM database: Pfam-A.hmm # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: 23726_FusoPortal_Gene_1617 [L=412] Description: # 1736540 # 1737775 # -1 # ID=1_1617;partial=00;start_type=ATG;rbs_motif=AGGA;rbs_spacer=5-10bp;gc_cont=0.243 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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 3.6e-18 66.4 0.9 7.8e-18 65.3 0.9 1.6 1 Radical_SAM Radical SAM superfamily 0.0012 18.9 0.0 0.0028 17.7 0.0 1.6 1 Tim44 Tim44-like domain 0.0033 17.5 1.2 0.0096 16.0 1.2 1.8 1 Fer4_14 4Fe-4S single cluster domain ------ inclusion threshold ------ 0.027 14.6 0.1 0.084 13.0 0.1 1.8 1 HTH_34 Winged helix DNA-binding domain 0.029 14.5 3.3 0.057 13.6 3.0 1.6 1 Fer4_12 4Fe-4S single cluster domain 0.032 14.1 0.1 0.12 12.2 0.1 2.0 1 Phage_sheath_1C Phage tail sheath C-terminal domain 0.076 13.0 0.0 0.24 11.4 0.0 1.8 2 HemN_C HemN C-terminal domain Domain annotation for each model (and alignments): >> Radical_SAM Radical SAM superfamily # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 65.3 0.9 3.3e-21 7.8e-18 3 166 .. 48 218 .. 46 219 .. 0.84 Alignments for each domain: == domain 1 score: 65.3 bits; conditional E-value: 3.3e-21 EESEESS--TTTSCCTTHHHHHHHHHHHHHHHHHHHHHHHH....HTT.SEEEEEESSTGGGSTTHHHHHHHHHHTC.....C CS xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....xxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxx.....x RF Radical_SAM 3 vtrgCnlrCsfCarpetvrregrgrslsveeileevkelka....ekg.vkevilgggepllypdfvellerlakla.....v 75 +t+ C CsfC+ +++ + + + + ++ ee+k++ a + +++v++ggg+p+ +++ +l + l+ l 23726_FusoPortal_Gene_1617 48 HTPYCDKICSFCNMNRK--QLDNDLEEYTKYLCEEIKKYGAyefcKTSeIDVVFFGGGTPTIFKKE-QLERILKTLNenfkfA 127 799************96..5555555556666666666652356644559************8754.4555555555699*** PP CTEEEEEEECSSCH.HHHHHHHHHTT-SEEEEEEBSSSHHHHHHHHTCTSHHHHHHHHHHHHHHCTSET..EEEEEEEBTTTS CS xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxx RF Radical_SAM 76 pgiritvetngtlpdeeklerllelgvdrvslgleaaddekvlklmnrghtfeevlealeklreagikr..vvdrivglpGen 156 +++++t+et + ++ ekl+ + e gv+r+s+g+++++++ +kl+nr+++ + v+e l+ ++++ + ++d+i+ +++ 23726_FusoPortal_Gene_1617 128 KDYEMTFETTLHNLSFEKLKIMEENGVNRISVGIQTFSNR-GRKLLNRTYDKDYVVERLKEIKKR-FSGlvCIDIIYNYANQT 208 ****************************************.***********************9.88889************ PP HHHHHHHHHH CS xxxxxxxxxx RF Radical_SAM 157 deeleellel 166 dee+ + ++l 23726_FusoPortal_Gene_1617 209 DEEVLQDADL 218 ***9998887 PP >> Tim44 Tim44-like domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 17.7 0.0 1.2e-06 0.0028 32 76 .. 343 387 .. 324 391 .. 0.86 Alignments for each domain: == domain 1 score: 17.7 bits; conditional E-value: 1.2e-06 HHHHHHT-HHHHHHHB-HHHHHHHHHHHHHHHHTT-EE--EEEEE CS Tim44 32 leayakgDletLrkllteevyeefkaeikerakqgltldaellgi 76 l++++k Dle+++k++ ee y+ + +++ke +k+g+++ +++ +i 23726_FusoPortal_Gene_1617 343 LMQFDKFDLEVIKKYCNEESYKIIYRKLKEFEKEGYIKIENNFAI 387 789*******************************99887766665 PP >> Fer4_14 4Fe-4S single cluster domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 16.0 1.2 4e-06 0.0096 2 96 .. 46 144 .. 45 160 .. 0.68 Alignments for each domain: == domain 1 score: 16.0 bits; conditional E-value: 4e-06 Fer4_14 2 fvrlsgCnlsCkgCdnketwkselgkpqteelleqilkdlkk...seikiqglvltG.GePLhyenkkellklvkrlkeey.. 78 ++ + C C +C + ++ ++ +++t+ l e+i k + + ++i+ +v+ G G P ++ +k++l +++k l e++ 23726_FusoPortal_Gene_1617 46 YFHTPYCDKICSFCNMNRKQLDNDLEEYTKYLCEEIKKYGAYefcKTSEID-VVFFGgGTPTIF-KKEQLERILKTLNENFkf 126 566889********9555555555555666666566653333011333356.6666559***88.999************976 PP Fer4_14 79 .pekkiwletngtleiele 96 ++++ ++et ++++e 23726_FusoPortal_Gene_1617 127 aKDYEMTFETTL-HNLSFE 144 666999999963.344555 PP >> HTH_34 Winged helix DNA-binding domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 13.0 0.1 3.5e-05 0.084 3 50 .. 337 385 .. 336 388 .. 0.88 Alignments for each domain: == domain 1 score: 13.0 bits; conditional E-value: 3.5e-05 HTH_34 3 lavlsyLasvdeadfvelkeale.atdgnLsvhlkkLekagYievdkef 50 l+++s L++ d+ d + +k+ + ++ ++ +lk +ek gYi+++ +f 23726_FusoPortal_Gene_1617 337 LSMISGLMQFDKFDLEVIKKYCNeESYKIIYRKLKEFEKEGYIKIENNF 385 78899*************998762678889***************9887 PP >> Fer4_12 4Fe-4S single cluster domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 13.6 3.0 2.4e-05 0.057 13 110 .. 50 151 .. 39 181 .. 0.71 Alignments for each domain: == domain 1 score: 13.6 bits; conditional E-value: 2.4e-05 Fer4_12 13 sgCnlsCkgCfnketwsfksgkeftkelleeiiedlkk....esiegltllG.GEPllpenaeallelvkevkeekp.ekdiw 89 C+ C+ C + + + +e+tk l eei + + +s ++++++G G P +++e+l +++k + e++ kd 23726_FusoPortal_Gene_1617 50 PYCDKICSFCNMNRKQLDNDLEEYTKYLCEEIKKYGAYefckTSEIDVVFFGgGTPTI-FKKEQLERILKTLNENFKfAKDYE 131 57*******9777777677778888888888766433212225556666665055666.****************98787777 PP Fer4_12 90 lytgytleelskkekeellke 110 ++ +tl +ls +ek ++++e 23726_FusoPortal_Gene_1617 132 MTFETTLHNLS-FEKLKIMEE 151 77777777775.456666665 PP >> Phage_sheath_1C Phage tail sheath C-terminal domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 12.2 0.1 5.1e-05 0.12 31 76 .. 167 216 .. 154 247 .. 0.79 Alignments for each domain: == domain 1 score: 12.2 bits; conditional E-value: 5.1e-05 HHHTTT....SHHHHHHHHHHHHHHHHHHHHTTSB-S--STTSEEEECSS CS Phage_sheath_1C 31 lgkkln....nddgralvksalnaylkelqregaienfdnksdleveakn 76 g+kl ++d+++ ++++++ + l+ +++i+n+ n++d+ev +++ 23726_FusoPortal_Gene_1617 167 RGRKLLnrtyDKDYVVERLKEIKKRFSGLVCIDIIYNYANQTDEEVLQDA 216 34454423335599999999**************************9844 PP >> HemN_C HemN C-terminal domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? -3.1 0.0 3.4 8.1e+03 25 49 .. 129 153 .. 127 154 .. 0.70 2 ? 11.4 0.0 0.0001 0.24 11 56 .. 339 384 .. 338 391 .. 0.94 Alignments for each domain: == domain 1 score: -3.1 bits; conditional E-value: 3.4 HemN_C 25 afeqrfgldleellaaaleklqeqG 49 ++e f+ +l +l +l+ ++e+G 23726_FusoPortal_Gene_1617 129 DYEMTFETTLHNLSFEKLKIMEENG 153 6777777777777744499999888 PP == domain 2 score: 11.4 bits; conditional E-value: 0.0001 HemN_C 11 iilgLRlreGldlaafeqrfgld.leellaaaleklqeqGLLeldgg 56 +i gL+ +++dl+ ++ + +++ + ++++ l++++++G+++++++ 23726_FusoPortal_Gene_1617 339 MISGLMQFDKFDLEVIKKYCNEEsYKIIYRK-LKEFEKEGYIKIENN 384 899*****************999999999**.***********9985 PP Internal pipeline statistics summary: ------------------------------------- Query sequence(s): 1 (412 residues searched) Target model(s): 16712 (2907032 nodes) Passed MSV filter: 1170 (0.0700096); expected 334.2 (0.02) Passed bias filter: 583 (0.0348851); expected 334.2 (0.02) Passed Vit filter: 61 (0.00365007); expected 16.7 (0.001) Passed Fwd filter: 7 (0.000418861); expected 0.2 (1e-05) Initial search space (Z): 16712 [actual number of targets] Domain search space (domZ): 7 [number of targets reported over threshold] # CPU time: 0.29u 0.24s 00:00:00.53 Elapsed: 00:00:00.33 # Mc/sec: 3629.39 // [ok]