# 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_1247.faa # target HMM database: Pfam-A.hmm # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: 23726_FusoPortal_Gene_1247 [L=182] Description: # 1363511 # 1364056 # -1 # ID=1_1247;partial=00;start_type=ATG;rbs_motif=AGxAGG/AGGxGG;rbs_spacer=5-10bp;gc_cont=0.240 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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 4.8e-22 78.1 0.1 7.5e-22 77.5 0.1 1.3 1 AhpC-TSA AhpC/TSA family 5e-18 65.1 0.0 6.3e-18 64.8 0.0 1.1 1 Redoxin Redoxin 1.6e-11 44.3 0.1 3.2e-11 43.3 0.1 1.5 1 Thioredoxin_8 Thioredoxin-like 1.7e-09 37.4 0.6 4.8e-05 23.1 0.2 2.3 2 Thioredoxin Thioredoxin 6.5e-07 29.3 0.4 1.8e-06 27.8 0.4 1.8 1 SCO1-SenC SCO1/SenC 1.1e-05 25.7 0.3 2e-05 24.9 0.3 1.4 1 Thioredoxin_2 Thioredoxin-like domain 6.6e-05 22.3 0.0 9.8e-05 21.8 0.0 1.3 1 GSHPx Glutathione peroxidase ------ inclusion threshold ------ 0.012 15.4 0.0 0.51 10.1 0.0 2.1 2 TraF F plasmid transfer operon protein 0.028 13.9 0.1 0.11 12.1 0.0 1.8 2 YtfJ_HI0045 Bacterial protein of unknown function (YtfJ_HI 0.072 13.2 0.0 0.12 12.5 0.0 1.3 1 CGGC CGGC domain 0.1 12.7 0.2 1.8 8.7 0.3 2.1 2 Thioredoxin_7 Thioredoxin-like Domain annotation for each model (and alignments): >> AhpC-TSA AhpC/TSA family # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 77.5 0.1 4.9e-25 7.5e-22 4 122 .. 32 157 .. 30 159 .. 0.93 Alignments for each domain: == domain 1 score: 77.5 bits; conditional E-value: 4.9e-25 B----EEE-TTS-EEESGGGTTSEEEEEEE-T.T-HHHHHHHHHHHHHHHHSSTTSEEEEEEE-SSS-............... CS AhpC-TSA 4 kapdfelknadgetvslsdykgkpvvlffypkdwcpvCttelpalaklyeefkergvevigvsvdspe..............s 72 p++el ++ g++ +l+dykgk+v+++f+ + wc C+ e+p+ +ly+e+ e++ ++i++ v +p + 23726_FusoPortal_Gene_1247 32 TLPNIELVDQYGKKHNLEDYKGKVVMINFWVS-WCSDCKGEMPKVVELYKEYGENKKDLIILGVATPIskeypnnkdkidkkA 113 579*****************************.********************999888888887777778898999999988 PP -GGGGG---.S-EEEE-TTSHHHHHTT--......SSSEEEEE-TTSBEE CS AhpC-TSA 73 hkkfiekeslnfpllsDeegkvakaygvlkeekglalratfvidkegkir 122 + k i+++++ fp l De+gk+ +y++ +++tf+id++g+++ 23726_FusoPortal_Gene_1247 114 LLKYIADNKYVFPSLFDETGKTYAEYEIE------EYPSTFIIDRNGHLK 157 999999999********************......9***********986 PP >> Redoxin Redoxin # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 64.8 0.0 4.1e-21 6.3e-18 5 148 .] 32 177 .. 27 177 .. 0.82 Alignments for each domain: == domain 1 score: 64.8 bits; conditional E-value: 4.1e-21 BB---ECCEETTCEEEEEHHHHTTSEEEEEEESTTT-HHHHHTHHHHHTHHHHHHCSTTTEEEEEESSSHH.....HHHHHHH CS Redoxin 5 kaPdftlplaatdgnsvslsefkgkkvvvvfvpgafcPtCsaehpyleklaellkekgvdviavvadndaf.....vkeawgk 82 ++P+++l +++ g++++l+++kgk+v+++f+ + +c C+ e+p++ +l+++++e++ d i++ +++ k+ ++k 23726_FusoPortal_Gene_1247 32 TLPNIEL--VDQYGKKHNLEDYKGKVVMINFWVS-WCSDCKGEMPKVVELYKEYGENKKDLIILGVATPISkeypnNKDKIDK 111 589*998..55***********************.*****************************5555444444553333333 PP .........TT-TSEEEE-TTSHHHHHTT-TTEEE.GGGEEE-EEEEEEETTEEEEEEESSSCHT.STTSHHHHH CS Redoxin 83 .........eglkfpflsDgsaaftkalGlrlaedasegirlpryavidedgkvvylevepekegveesnaeavL 148 ++ fp l D++++ +++ ++ +p++++id++g ++ ++ ++ ++++ + n+e+vL 23726_FusoPortal_Gene_1247 112 kallkyiadNKYVFPSLFDETGKTYAEYEIE---------EYPSTFIIDRNGHLKVYIKGAISKEELKQNIESVL 177 4444466559999999*************77.........89***********9999999888666667776665 PP >> Thioredoxin_8 Thioredoxin-like # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 43.3 0.1 2.1e-14 3.2e-11 1 94 [. 53 155 .. 53 156 .. 0.88 Alignments for each domain: == domain 1 score: 43.3 bits; conditional E-value: 2.1e-14 .SEEEEEE--SSSHHHHHHHHHHHHHHHHHHH.TTSEEEEEEE-..........SS.-HHHHHHHGGGS-TTSEE.EE-TT-H CS Thioredoxin_8 1 gkvvlLyfgaswcppckaftpklkelyeklkk.kkkveivyvsl..........dk.keeefekylkknkkpwlsvpfddkkr 71 gkvv++ f+ swc++ck +pk+ ely+++ + kk++ i+ v dk ++++ ky+++n + +p +++ 23726_FusoPortal_Gene_1247 53 GKVVMINFWVSWCSDCKGEMPKVVELYKEYGEnKKDLIILGVATpiskeypnnkDKiDKKALLKYIADN---KYVFPSLFDET 132 79*****************************98999999999989999999999544788999999999...66666555677 PP HHHTT-S--TT-SEEEEE-TT-B CS Thioredoxin_8 72 nklkkkynvkaiPtlvvldknge 94 k + +y+++++P+++++d+ng 23726_FusoPortal_Gene_1247 133 GKTYAEYEIEEYPSTFIIDRNGH 155 888999***************95 PP >> Thioredoxin Thioredoxin # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 23.1 0.2 3.2e-08 4.8e-05 18 56 .. 53 94 .. 36 124 .. 0.81 2 ! 13.1 0.0 4.4e-05 0.066 59 102 .. 130 174 .. 112 176 .. 0.82 Alignments for each domain: == domain 1 score: 23.1 bits; conditional E-value: 3.2e-08 SSEEEEEEE-TTSHHHHCHHHHHHHHHHHCTT...TSEEEEE CS Thioredoxin 18 kklvlvdFyApwCgpCkalaPeleelaeelkd...kvklakv 56 k v+++F+ +wC Ck P++ el +e+ + ++ ++ v 23726_FusoPortal_Gene_1247 53 GKVVMINFWVSWCSDCKGEMPKVVELYKEYGEnkkDLIILGV 94 57899************************9876556666555 PP == domain 2 score: 13.1 bits; conditional E-value: 4.4e-05 TTSHHHHHHTT-SSSSEEEEEETTEEEE.EEESS-SHHHHHHHHH CS Thioredoxin 59 denkdlaskyevegiPtlklfkngkkve.kyegarekdelaafik 102 de ++ ++ye+e +P ++ + +++ ++ga +k+el+++i+ 23726_FusoPortal_Gene_1247 130 DETGKTYAEYEIEEYPSTFIIDRNGHLKvYIKGAISKEELKQNIE 174 67788999********6555555555554999**********997 PP >> SCO1-SenC SCO1/SenC # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 27.8 0.4 1.2e-09 1.8e-06 34 95 .. 35 95 .. 4 162 .. 0.78 Alignments for each domain: == domain 1 score: 27.8 bits; conditional E-value: 1.2e-09 --EEEETTS-EEECGGGTTS-EEEEEE-TTSSSCHCCCHHHHHHHHHHHHHCTTT-EEEEEE CS SCO1-SenC 34 pfklidlkgkkfeeenLkGklsliyFgftncpdicpealekltdllkkLkeekidvqvvfis 95 ++l+d++gkk + e+ kGk+++i F ++ c d c ++ k+ +l k+ e+k+d++++ ++ 23726_FusoPortal_Gene_1247 35 NIELVDQYGKKHNLEDYKGKVVMINFWVSWCSD-CKGEMPKVVELYKEYGENKKDLIILGVA 95 589****************************55.9999******************998765 PP >> Thioredoxin_2 Thioredoxin-like domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 24.9 0.3 1.3e-08 2e-05 4 107 .. 52 171 .. 49 173 .. 0.69 Alignments for each domain: == domain 1 score: 24.9 bits; conditional E-value: 1.3e-08 Thioredoxin_2 4 ngkpvlvvftdpdCpyCkklkk.elkel....ddvtvrvllfp.......lkpsfepkavaiwcakekkkafkd......... 65 +gk v++ f+ ++C +Ck + +++ + + + +p ++++ + ++ + k a+ + 23726_FusoPortal_Gene_1247 52 KGKVVMINFWVSWCSDCKGEMPkVVELYkeygE----NK---KdliilgvATPISKEYPNNKDKIDKK--ALLKyiadnkyvf 125 699***************866625555554431....32...12222122222222333333333322..233356669**** PP Thioredoxin_2 66 ...ieenvelarkygvrgtPtivfldgk.eivarlpGyvpaeelea 107 +e+ + +y++++ P+++++d + ++G++++eel++ 23726_FusoPortal_Gene_1247 126 pslFDETGKTYAEYEIEEYPSTFIIDRNgHLKVYIKGAISKEELKQ 171 **9999999999*****************777799********987 PP >> GSHPx Glutathione peroxidase # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 21.8 0.0 6.4e-08 9.8e-05 5 83 .. 37 123 .. 33 135 .. 0.72 Alignments for each domain: == domain 1 score: 21.8 bits; conditional E-value: 6.4e-08 EEEBTTSSEEEGGGGTTSEEEEEEEESSSTTHH.HHHHHHHHHHHHGG..GTEEEEEEEE-TTTT---S-GGG......HHHT CS GSHPx 5 sakdidgekvkleklrgkvvlivnvaskCglte.qykeleelqkrykd..kglvilgfPCnqfgkqepgsdee......ikkf 78 + +d+ g+k +le ++gkvv+i s C+ + + ++ el+k+y + k l+ilg + p ++++ +k++ 23726_FusoPortal_Gene_1247 37 ELVDQYGKKHNLEDYKGKVVMINFWVSWCSDCKgEMPKVVELYKEYGEnkKDLIILGVATPISKE-YPNNKDKidkkalLKYI 118 6678899************************999************7522679999875432222.22221221233555555 PP SSCTT CS GSHPx 79 rqgky 83 + +ky 23726_FusoPortal_Gene_1247 119 ADNKY 123 55555 PP >> TraF F plasmid transfer operon protein # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 3.6 0.0 0.03 46 117 159 .. 41 83 .. 32 116 .. 0.88 2 ? 10.1 0.0 0.00033 0.51 175 223 .. 125 173 .. 115 174 .. 0.80 Alignments for each domain: == domain 1 score: 3.6 bits; conditional E-value: 0.03 TraF 117 keekeaalkqlakeygLlfFyrgdcpyceaqapilqafadkyg 159 + k+ l++ ++++ ++ F + c+ c+ ++p + ++ ++yg 23726_FusoPortal_Gene_1247 41 QYGKKHNLEDYKGKVVMINFWVSWCSDCKGEMPKVVELYKEYG 83 55678889999******************************98 PP == domain 2 score: 10.1 bits; conditional E-value: 0.00033 TraF 175 lpnsrvdkgq.aarlgvkrtPalflvdpksqkvvpvaaGllsldeleeri 223 +p+ +++g+ a++++++ P +f++d++ + ++ G++s +el+++i 23726_FusoPortal_Gene_1247 125 FPSLFDETGKtYAEYEIEEYPSTFIIDRN-GHLKVYIKGAISKEELKQNI 173 56655555551569***************.88888889**********98 PP >> YtfJ_HI0045 Bacterial protein of unknown function (YtfJ_HI0045) # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? -0.6 0.0 0.56 8.5e+02 11 43 .. 24 59 .. 17 77 .. 0.66 2 ? 12.1 0.0 7e-05 0.11 98 157 .. 121 176 .. 104 178 .. 0.84 Alignments for each domain: == domain 1 score: -0.6 bits; conditional E-value: 0.56 YtfJ_HI0045 11 evsdkgelvlkedkv...syknWnssqlaGkvrviq 43 +++++g+++l + ++ k+ n ++ +Gkv +i+ 23726_FusoPortal_Gene_1247 24 NMDKDGNVTLPNIELvdqYGKKHNLEDYKGKVVMIN 59 566666666666443111235666677788888776 PP == domain 2 score: 12.1 bits; conditional E-value: 7e-05 YtfJ_HI0045 98 skkefpwsqlvlDkkgvvkkaWdLkeessaivvldkqGkvkfvkeGaLsekevkqvleli 157 +k fp+ + D++g+ ++++e s+ + +d++G++k +Ga+s++e+kq +e + 23726_FusoPortal_Gene_1247 121 NKYVFPS---LFDETGKTYAEYEIEEYPSTFI-IDRNGHLKVYIKGAISKEELKQNIESV 176 5555553...5799***********9999876.5*********************99865 PP >> CGGC CGGC domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 12.5 0.0 7.7e-05 0.12 25 81 .. 43 103 .. 37 125 .. 0.70 Alignments for each domain: == domain 1 score: 12.5 bits; conditional E-value: 7.7e-05 CGGC 25 erkgaFeeyeeevelvgfv..tCggCpgk..kvveklkelkkegvdvihlssCi..ktkkakk 81 +k++ e+y+ +v ++ f+ C++C+g+ kvve ke+ +++ d i l+ + + k ++ 23726_FusoPortal_Gene_1247 43 GKKHNLEDYKGKVVMINFWvsWCSDCKGEmpKVVELYKEYGENKKDLIILGVATpiS--KEYP 103 6889999999888888886236****776569******************9997322..2222 PP >> Thioredoxin_7 Thioredoxin-like # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 8.7 0.3 0.0012 1.8 16 33 .. 52 69 .. 47 76 .. 0.94 2 ? 1.6 0.0 0.19 3e+02 15 80 .. 84 150 .. 72 152 .. 0.70 Alignments for each domain: == domain 1 score: 8.7 bits; conditional E-value: 0.0012 HT--EEEEE--TT-HHHH CS Thioredoxin_7 16 rkkpvLvdfgaswcftCq 33 ++k v+++f swc++C+ 23726_FusoPortal_Gene_1247 52 KGKVVMINFWVSWCSDCK 69 6899*************7 PP == domain 2 score: 1.6 bits; conditional E-value: 0.19 HHT--EEEEE--TT-HHHHHHHHHHHH-HHHHH.HH.HT-EEEEESS--S-GGG.-TT---SSEEEEE CS Thioredoxin_7 15 erkkpvLvdfgaswcftCqalerdvlsdeevka.lr.ekfvllrvdvterdanilaldeqgvPvvafl 80 e+kk++++ a+ ++ +++d ++++ + + ++ +k+v+ + +++++ +++ + +P +++ 23726_FusoPortal_Gene_1247 84 ENKKDLIILGVATPISKEYPNNKDKIDKKALLKyIAdNKYVFPSLFDETGKTYA-EYEIEEYPSTFII 150 677777777777777777778899899988888888889999888887777633.2222336666655 PP Internal pipeline statistics summary: ------------------------------------- Query sequence(s): 1 (182 residues searched) Target model(s): 16712 (2907032 nodes) Passed MSV filter: 643 (0.0384753); expected 334.2 (0.02) Passed bias filter: 447 (0.0267472); expected 334.2 (0.02) Passed Vit filter: 42 (0.00251316); expected 16.7 (0.001) Passed Fwd filter: 11 (0.00065821); expected 0.2 (1e-05) Initial search space (Z): 16712 [actual number of targets] Domain search space (domZ): 11 [number of targets reported over threshold] # CPU time: 0.26u 0.23s 00:00:00.49 Elapsed: 00:00:00.32 # Mc/sec: 1653.37 // [ok]