# 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_1014.faa # target HMM database: Pfam-A.hmm # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: 23726_FusoPortal_Gene_1014 [L=290] Description: # 1126733 # 1127602 # 1 # ID=1_1014;partial=00;start_type=ATG;rbs_motif=AGGAGG;rbs_spacer=5-10bp;gc_cont=0.322 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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 1.7e-34 119.1 15.7 2e-34 118.9 11.1 2.1 2 BPD_transp_1 Binding-protein-dependent transport system inne 7.1e-16 57.8 1.0 7.1e-16 57.8 1.0 2.8 2 OppC_N N-terminal TM domain of oligopeptide transport ------ inclusion threshold ------ 0.047 13.1 9.8 0.12 11.7 4.3 2.4 2 DUF3169 Protein of unknown function (DUF3169) 2.1 8.3 12.2 0.15 12.0 6.6 2.0 2 UPF0126 UPF0126 domain 5.9 6.7 9.2 0.28 10.9 2.8 2.1 2 PspC PspC domain Domain annotation for each model (and alignments): >> BPD_transp_1 Binding-protein-dependent transport system inner membrane component # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 2.6 0.1 0.028 94 156 176 .. 26 46 .. 7 49 .. 0.59 2 ! 118.9 11.1 5.9e-38 2e-34 1 184 [. 105 288 .. 105 289 .. 0.98 Alignments for each domain: == domain 1 score: 2.6 bits; conditional E-value: 0.028 BPD_transp_1 156 ggvlalviavlllnlvadilq 176 + l+++i+++ll l+ad+++ 23726_FusoPortal_Gene_1014 26 MLGLIILIILVLLALFADVIA 46 345555556666666666554 PP == domain 2 score: 118.9 bits; conditional E-value: 5.9e-38 BPD_transp_1 1 gillGilaalnrnkkldkllrpliivllslPsfvlaillvlvfvilsilghlilp.viillllsaapyvrlirraalrslpkd 82 g +lG++++ ++++++d++++++++++l++Ps++lai +v s+lg ++l +i +++ + + ++r++r+++l++++++ 23726_FusoPortal_Gene_1014 105 GGILGAISG-YFGGVIDNVIMRVVDIFLAVPSILLAIAIV------SALGPSMLNlMISISVSYVPNFARIVRASVLSIRDQE 180 5689*****.******************************......****9999999************************** PP BPD_transp_1 83 lveaaralGasrwqifrkvvlPnalppiitglilafggllggavlleflgswpGlgtllleailgydyseis..........n 155 ++eaa+a Gas +i+ k+++Pn+l p+i + l ++g++ ++ l+f+g lg + +++g+++s + 23726_FusoPortal_Gene_1014 181 FIEAAKAIGASNSRIIMKHIIPNSLAPVIVQGTLGVAGAILSTAGLSFIG----LGIQPPAPEWGSMLSGGRqylryawwvtT 259 **************************************************....***************999*********** PP BPD_transp_1 156 ggvlalviavlllnlvadilqrlldprvr 184 ++ +a+ i +l lnl+ d l ++ldpr++ 23726_FusoPortal_Gene_1014 260 FPGVAIMITILSLNLLGDGLRDALDPRLK 288 ***************************97 PP >> OppC_N N-terminal TM domain of oligopeptide transport permease C # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 57.8 1.0 2.1e-19 7.1e-16 1 51 [] 10 64 .. 10 64 .. 0.91 2 ? 0.3 0.9 0.2 6.7e+02 22 36 .. 136 150 .. 131 163 .. 0.86 Alignments for each domain: == domain 1 score: 57.8 bits; conditional E-value: 2.1e-19 OppC_N 1 slwqdawrrFkrNklAvvglvililllliaifaPliapydp....qdliqnllpP 51 s+w +++r +++N++A++gl+ili+l+l+a+fa +ia+yd q+l +l+pP 23726_FusoPortal_Gene_1014 10 SQWAEVFRMLRKNRMAMLGLIILIILVLLALFADVIANYDTivikQNLAERLMPP 64 89**************************************988766665569998 PP == domain 2 score: 0.3 bits; conditional E-value: 0.2 OppC_N 22 ililllliaifaPli 36 il++++++++++P 23726_FusoPortal_Gene_1014 136 ILLAIAIVSALGPSM 150 789999999999976 PP >> DUF3169 Protein of unknown function (DUF3169) # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 4.2 0.2 0.0073 24 133 164 .. 23 54 .. 9 63 .. 0.77 2 ? 11.7 4.3 3.7e-05 0.12 8 68 .. 95 160 .. 90 199 .. 0.62 Alignments for each domain: == domain 1 score: 4.2 bits; conditional E-value: 0.0073 DUF3169 133 sklvlifliaivlfliilflkiiiqvrvvkli 164 ++ +l ++i i+l+l++lf+++i + ++ + 23726_FusoPortal_Gene_1014 23 RMAMLGLIILIILVLLALFADVIANYDTIVIK 54 44556669999999999999999998888444 PP == domain 2 score: 11.7 bits; conditional E-value: 3.7e-05 DUF3169 8 illmliggiiGgiiGfllgafeaekgleelsfalkelllligskilpllliiavlvviis........v 68 il + i++++Ggi+G+++g+f + +++++ + +++l + s il +++i++ l + ++ 23726_FusoPortal_Gene_1014 95 ILAISISVVVGGILGAISGYFGGV--IDNVIMRVVDIFLAVPS-ILLAIAIVSALGPSMLnlmisisvS 160 667789999999999999999766..34444444444444444.5555556666666555544333333 PP >> UPF0126 UPF0126 domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? -3.5 0.3 3.1 1e+04 68 71 .. 30 33 .. 22 42 .. 0.46 2 ? 12.0 6.6 4.4e-05 0.15 13 68 .. 84 146 .. 78 151 .. 0.78 Alignments for each domain: == domain 1 score: -3.5 bits; conditional E-value: 3.1 UPF0126 68 lvvv 71 ++ + 23726_FusoPortal_Gene_1014 30 IILI 33 2222 PP == domain 2 score: 12.0 bits; conditional E-value: 4.4e-05 UPF0126 13 vsGalvAlr.......ldllgvvvlGvvTAvgGGvlRDvllgrevPvvllre.lyataallgal 68 + Ga v l+ +++++ +lG +++ +GGv+ +v+++ v ++l + + +++a++ al 23726_FusoPortal_Gene_1014 84 IHGARVSLKvgilaisISVVVGGILGAISGYFGGVIDNVIMRV-VDIFLAVPsILLAIAIVSAL 146 567777777666443356788889******************6.98888885588888888876 PP >> PspC PspC domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? -2.1 0.5 1 3.4e+03 38 47 .. 30 36 .. 20 48 .. 0.54 2 ? 10.9 2.8 8.4e-05 0.28 11 40 .. 103 136 .. 101 176 .. 0.82 Alignments for each domain: == domain 1 score: -2.1 bits; conditional E-value: 1 PspC 38 lglllYiilw 47 + + iil+ 23726_FusoPortal_Gene_1014 30 I---ILIILV 36 3...222222 PP == domain 2 score: 10.9 bits; conditional E-value: 8.4e-05 PspC 11 vlgGVcaGlAeyfg..vdptlvRlifvlll..gl 40 v+gG+++ + yfg +d +++R++ ++l+ ++ 23726_FusoPortal_Gene_1014 103 VVGGILGAISGYFGgvIDNVIMRVVDIFLAvpSI 136 79*************9*********777764422 PP Internal pipeline statistics summary: ------------------------------------- Query sequence(s): 1 (290 residues searched) Target model(s): 16712 (2907032 nodes) Passed MSV filter: 925 (0.0553494); expected 334.2 (0.02) Passed bias filter: 469 (0.0280637); expected 334.2 (0.02) Passed Vit filter: 57 (0.00341072); expected 16.7 (0.001) Passed Fwd filter: 5 (0.000299186); expected 0.2 (1e-05) Initial search space (Z): 16712 [actual number of targets] Domain search space (domZ): 5 [number of targets reported over threshold] # CPU time: 0.31u 0.30s 00:00:00.61 Elapsed: 00:00:00.37 # Mc/sec: 2278.48 // [ok]