# 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_1694.faa # target HMM database: Pfam-A.hmm # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: 23726_FusoPortal_Gene_1694 [L=902] Description: # 1818408 # 1821113 # -1 # ID=1_1694;partial=00;start_type=ATG;rbs_motif=GGAGG;rbs_spacer=5-10bp;gc_cont=0.269 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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 5.6e-19 68.3 38.6 8.3e-06 25.4 5.1 9.9 11 LptC Lipopolysaccharide-assembly, LptC-related 8.8e-15 54.8 44.9 3.1e-05 24.1 0.0 9.3 8 OstA OstA-like protein 4.8e-05 22.9 3.8 4.8e-05 22.9 3.8 5.2 5 OstA_2 OstA-like protein Domain annotation for each model (and alignments): >> LptC Lipopolysaccharide-assembly, LptC-related # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? -3.1 0.0 0.84 4.7e+03 52 75 .. 48 71 .. 33 76 .. 0.76 2 ! 12.0 0.7 1.9e-05 0.11 53 140 .. 106 186 .. 93 202 .. 0.67 3 ? -1.6 0.0 0.29 1.6e+03 125 175 .. 226 276 .. 208 278 .. 0.72 4 ! 20.0 0.5 6.8e-08 0.00038 80 165 .. 302 414 .. 277 422 .. 0.87 5 ! 6.0 0.3 0.0014 7.7 122 165 .. 400 443 .. 391 444 .. 0.87 6 ! 3.7 0.8 0.007 39 121 164 .. 428 473 .. 417 475 .. 0.81 7 ? 2.0 0.1 0.023 1.3e+02 119 160 .. 457 498 .. 449 507 .. 0.83 8 ! 4.7 0.0 0.0033 18 97 154 .. 528 580 .. 511 594 .. 0.86 9 ! 9.7 0.1 0.0001 0.56 95 162 .. 615 677 .. 596 681 .. 0.89 10 ! 9.5 0.5 0.00011 0.63 52 118 .. 663 724 .. 662 756 .. 0.83 11 ! 25.4 5.1 1.5e-09 8.3e-06 36 175 .. 744 882 .. 737 883 .. 0.89 Alignments for each domain: == domain 1 score: -3.1 bits; conditional E-value: 0.84 -EEEEEEEEEEETTTTEEEEESEE CS LptC 52 qyrltadklehypdddqteftnPv 75 +y+++a+k y d+++++f++ 23726_FusoPortal_Gene_1694 48 DYHVEAEKEIDYLDEKESKFEKAK 71 688999999999999999998755 PP == domain 2 score: 12.0 bits; conditional E-value: 1.9e-05 EEEEEEEEEEETTTTEEEEESEEEEEE-TTSEEEEEE-SEEEE-T.TSEEEEEEEEEEEE-SSS-SEEEEEEEEEEEETTT-E CS LptC 53 yrltadklehypdddqteftnPvliiydegtqswkvtAkkAkltkkgqeleLegnVviqsltkksrlqtitTeeltvnlktkd 135 ++++a++l++ +++++ t+P + +e + ++v A+k k t + ++Le+ Vvi+++ l i ++++ +n ++k+ 23726_FusoPortal_Gene_1694 106 WEIKASELKYDKTTQELISTKPMYAKNEE--KGIEVLANKFKTTISMDNITLEDGVVIKNK-----LFSILADKANYNNSSKI 181 66777777777777777777775433333..467777777777777777777777777777.....77777777777777777 PP EEEEE CS LptC 136 ittdq 140 it + 23726_FusoPortal_Gene_1694 182 ITLEG 186 66444 PP == domain 3 score: -1.6 bits; conditional E-value: 0.29 EEEEEETTT-EEEEEEEEEEEESS-EEEEEEEEEETTTTEEEEEEEEEETT CS LptC 125 eeltvnlktkdittdqpVkitgpnfsttGvgmkanlktkkieLlskVrgry 175 ++ nl+++ + + ++ +G+ + n t+ ++ + +V+ +y 23726_FusoPortal_Gene_1694 226 SKVYFNLDERNLYATDGFDLKYDEVGLRGKNIVLNETTQSLKVTDDVKFTY 276 555667777777777777777777778888888888888888888888666 PP == domain 4 score: 20.0 bits; conditional E-value: 6.8e-08 -TTSEEEEEE-SEEEE-T.TSEEEEEEEEEEEE-SSS-S..........................EEEEEEEEEEEETTT-EE CS LptC 80 degtqswkvtAkkAkltkkgqeleLegnVviqsltkksr..........................lqtitTeeltvnlktkdi 136 ++g++ + v A+k++++ +++++ + gnV i+s++ ++ + +++e++++n+ tk + 23726_FusoPortal_Gene_1694 302 KGGNPVYSVLADKGEYNVNDKKIRIFGNVDITSTKGEKLvldnvvyssatkeadmygnkikytspENNLEAEYIHYNTVTKEV 384 344599****************************77777******************************************** PP EEEEEEEEEESS-.EEEEEEEEEETTTTEE CS LptC 137 ttdqpVkitgpnf.sttGvgmkanlktkki 165 tt++p ++++ tG+ +nl tk + 23726_FusoPortal_Gene_1694 385 TTNKPFDSWNQKGeGLTGTSISYNLGTKDF 414 *****98766666489********999865 PP == domain 5 score: 6.0 bits; conditional E-value: 0.0014 EEEEEEEEETTT-EEEEEEEEEEEESS-EEEEEEEEEETTTTEE CS LptC 122 itTeeltvnlktkdittdqpVkitgpnfsttGvgmkanlktkki 165 +t +++++nl tkd+++++ ++++++ t + +++ +t+++ 23726_FusoPortal_Gene_1694 400 LTGTSISYNLGTKDFYSKENITVKNKDYGLTTKNVTYKEETGIL 443 78899********************9999999998888888876 PP == domain 6 score: 3.7 bits; conditional E-value: 0.007 EEEEEEEEEETTT-EEEEEEEEEEEESS-..EEEEEEEEEETTTTE CS LptC 121 titTeeltvnlktkdittdqpVkitgpnf..sttGvgmkanlktkk 164 +tT++ t++ +t + t +p i++ + +++G+ ++n kt++ 23726_FusoPortal_Gene_1694 428 GLTTKNVTYKEETGILTAPEPYVIKSNSGdsTVNGNSITYNKKTGE 473 5899999***********9998887766555999*******99986 PP == domain 7 score: 2.0 bits; conditional E-value: 0.023 EEEEEEEEEEEETTT-EEEEEEEEEEEESS-EEEEEEEEEET CS LptC 119 lqtitTeeltvnlktkdittdqpVkitgpnfsttGvgmkanl 160 t++ +++t+n kt + ++ i+++++ ++G +++n+ 23726_FusoPortal_Gene_1694 457 DSTVNGNSITYNKKTGELLSPGEIIIDNKGTIIKGHDLVYNN 498 457888999999999999999999999999999999999997 PP == domain 8 score: 4.7 bits; conditional E-value: 0.0033 T.TSEEEEEEEEEEEE-SSS-SEEEEEEEEEEEETTT-EEEEEEEEEEEESS-EEEEE CS LptC 97 kkgqeleLegnVviqsltkksrlqtitTeeltvnlktkdittdqpVkitgpnfsttGv 154 kkg+ ++L g +++++ ++ ++ ++++ k+ + ++pVk+++p +s+ G+ 23726_FusoPortal_Gene_1694 528 KKGDYVDLVGPIKAKRD-----TTNMEFANARYLYKDGLVHVNTPVKFNDPVSSMVGS 580 44888888888888888.....89999**************************99886 PP == domain 9 score: 9.7 bits; conditional E-value: 0.0001 E-T.TSEEEEEEEEEEEE-SSS-SEEEEEEEEEEEETTT-EEEEEEEEEEEESS-EEEEEEEEEETTT CS LptC 95 ltkkgqeleLegnVviqsltkksrlqtitTeeltvnlktkdittdqpVkitgpnfsttGvgmkanlkt 162 ++k++++leL gn + s ++ i +++++l+tkd++t + i+ + +++++ k+n + 23726_FusoPortal_Gene_1694 615 YNKDKRRLELVGNAYLSSG-----KDNISGPKIVYYLDTKDAETPTNSVINYDQYTIKSTYAKVNRES 677 5778889******999999.....889********************************999999876 PP == domain 10 score: 9.5 bits; conditional E-value: 0.00011 -EEEEEEEEEEETTTTEEEEESEEEEEE-TTSEEEEEE-SEEEE-T.TSEEEEEEEEEEEE-SSS-S CS LptC 52 qyrltadklehypdddqteftnPvliiydegtqswkvtAkkAkltkkgqeleLegnVviqsltkksr 118 qy++++++++ + +++ ++ ++++ d++ + +A++Ak + ++ ++++gnV+ +s++k+++ 23726_FusoPortal_Gene_1694 663 QYTIKSTYAKVNRESGAVFAKKADVKSVDGN----EFSANEAKGNT-NDVVHFTGNVKGKSKQKEGD 724 7888888999999999888899999999999....89*********.***************99987 PP == domain 11 score: 25.4 bits; conditional E-value: 1.5e-09 XXXXXXXXXXXXXXXX-EEEEEEEEEEET.TTTEEEEESEEEEEE-TTSEEEEEE-SEEEE-T.TSEEEEEEEEEEEE-SSS- CS LptC 36 vaenfettqydedGklqyrltadklehyp.dddqteftnPvliiydegtqswkvtAkkAkltkkgqeleLegnVviqsltkks 117 +a+++ ++ +l+ ++ +++le +++ + +nPvl+i d+ + s+ v+A+ + + ++++++L+ nV ++++++k+ 23726_FusoPortal_Gene_1694 744 QAKKVIVDTKSTFTQLNRKIDSNYLELDLiKKEVYARKNPVLTIDDGPKGSTLVKADDVTGYIDKELIKLNKNVYVKNINEKK 826 5555555555555678999999999999999999999********************************************** PP SEEEEEEEEEEEETTT-EEEEEEEEEEEESS-EEEEEEEEEETTTTEEEEEEEEEETT CS LptC 118 rlqtitTeeltvnlktkdittdqpVkitgpnfsttGvgmkanlktkkieLlskVrgry 175 +++ +t+++ tv + d++ ++Vki + ++tt++ ++++ ++ki+ +++V+ y 23726_FusoPortal_Gene_1694 827 EETVLTADRGTVTKEMADVY--DKVKIVTKESVTTANEGHYDMVNRKIRAKGNVHVDY 882 *********99977766666..9******************************98766 PP >> OstA OstA-like protein # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 6.6 0.2 0.0015 8.3 44 112 .. 54 120 .. 38 121 .. 0.70 2 ! 8.3 0.4 0.00043 2.4 2 27 .. 168 193 .. 138 294 .. 0.49 3 ! 6.7 1.3 0.0014 7.5 72 98 .. 311 338 .. 283 383 .. 0.52 4 ! 9.8 1.9 0.00015 0.81 2 110 .. 310 410 .. 309 413 .. 0.82 5 ! 7.4 0.7 0.00084 4.7 60 112 .. 418 472 .. 394 473 .. 0.83 6 ! 24.1 0.0 5.5e-09 3.1e-05 60 112 .. 596 649 .. 537 650 .. 0.89 7 ! 6.4 3.0 0.0017 9.5 5 111 .. 698 808 .. 689 810 .. 0.72 8 ! 10.3 6.5 0.0001 0.57 16 94 .. 816 898 .. 792 901 .. 0.75 Alignments for each domain: == domain 1 score: 6.6 bits; conditional E-value: 0.0015 OstA 44 skkierleakgtatfrqkvdlvgeqirGkAerieydskkeiivLtgnat.ltqnsnsveGseitydikee 112 +k+i++l+ k ++ ++k +++g + +++++ +d k++ ++L n ++ n++++++se++yd++++ 23726_FusoPortal_Gene_1694 54 EKEIDYLDEKESKFEKAKAKIQGMLL--SGDNVFLD-KDRNLTLDTNILgISPNGWEIKASELKYDKTTQ 120 56677777777555555555555444..56777777.5566888866542569*************9998 PP == domain 2 score: 8.3 bits; conditional E-value: 0.00043 OstA 2 IeAdkaelddkkkvavftGnVvvtqG 27 I Adka++++++k ++++Gn ++ G 23726_FusoPortal_Gene_1694 168 ILADKANYNNSSKIITLEGNIRLSNG 193 33444444444444444444444443 PP == domain 3 score: 6.7 bits; conditional E-value: 0.0014 OstA 72 kAerieydskkeiivLtgnatlt.qnsn 98 A+++ey++++++i++ gn+ +t ++++ 23726_FusoPortal_Gene_1694 311 LADKGEYNVNDKKIRIFGNVDITsTKGE 338 4455555555555555555555442222 PP == domain 4 score: 9.8 bits; conditional E-value: 0.00015 OstA 2 IeAdkaelddkkkvavftGnVvvtqGnltlkAdkvtvtqdkkskkierleakgtatfrqkvdlvgeqirGkAerieydskkei 84 + Adk e++ ++k++ + GnV++t k++k+++ + s+++++++ +g +k++ ++ + + +Ae i+y++ ++ 23726_FusoPortal_Gene_1694 310 VLADKGEYNVNDKKIRIFGNVDITS----TKGEKLVLDNVVYSSATKEADMYG-----NKIKYTSPENNLEAEYIHYNTVTK- 382 679999****9999*******9984....468888888888877788888888.....8999999999999******99998. PP OstA 85 ivLtgnatlt...qnsnsveGseitydik 110 + t n ++ q+++ ++G+ i+y+ 23726_FusoPortal_Gene_1694 383 -EVTTNKPFDswnQKGEGLTGTSISYNLG 410 .5555666666689999999999999875 PP == domain 5 score: 7.4 bits; conditional E-value: 0.00084 OstA 60 qkvdlvgeqirGkAerieydskkeiivLtgnatlt..qnsnsveGseitydikee 112 +++++++++ + ++++y++++ i++ + +++ +++++v+G+ ity++k++ 23726_FusoPortal_Gene_1694 418 ENITVKNKDYGLTTKNVTYKEETGILTAPEPYVIKsnSGDSTVNGNSITYNKKTG 472 4566677777778899999999999988888888899999************997 PP == domain 6 score: 24.1 bits; conditional E-value: 5.5e-09 OstA 60 qkvdlvgeqirGkAerie.ydskkeiivLtgnatltqnsnsveGseitydikee 112 ++ ++++ + ++kA++i+ y+++k+ ++L gna l++++++++G +i+y+ +++ 23726_FusoPortal_Gene_1694 596 TNFNMEEPDRSAKAQNIVlYNKDKRRLELVGNAYLSSGKDNISGPKIVYYLDTK 649 678899999*******97477899*************************99885 PP == domain 7 score: 6.4 bits; conditional E-value: 0.0017 OstA 5 dkaelddkkkvavftGnVv....vtqGnltlkAdkvtvtqdkkskkierleakgtatfrqkvdlvgeqirGkAerieydskke 83 ++a+ + ++v++ftGnV+ + G+ ++dk++++ +k ++++ak+ +++ +k ++++ + + +++ +e+d k+ 23726_FusoPortal_Gene_1694 698 NEAKGNT-NDVVHFTGNVKgkskQKEGDVFFTGDKADLYMSKV---NDKYQAKK-VIVDTKSTFTQLNRKIDSNYLELDLIKK 775 3333333.447*******7332245688999*******99998...88888888.7777777777888888888888887777 PP OstA 84 iivLtgnatlt.....qnsnsveGseitydike 111 ++ +n +lt ++s v+++ +t +i++ 23726_FusoPortal_Gene_1694 776 EVYARKNPVLTiddgpKGSTLVKADDVTGYIDK 808 777777888888888777888888887777766 PP == domain 8 score: 10.3 bits; conditional E-value: 0.0001 OstA 16 avftGnVvvtqGnltlkAdkvtvtqdkkskkierleakg....tatfrqkvdlvgeqirGkAe.rieydskkeiivLtgnatl 93 v+ n ++ ++ l+Ad+ tvt++ + + +++++ t+ + ++d+v+++ir+k++ ++y+ +k++ ++ ++ t 23726_FusoPortal_Gene_1694 816 NVYVKNINEKKEETVLTADRGTVTKEMA-DVYDKVKIVTkesvTTANEGHYDMVNRKIRAKGNvHVDYTGDKSTSTIFNDMTS 897 57777888899999*********99999.444443333323577778899999*****9999845789999998888877665 PP OstA 94 t 94 t 23726_FusoPortal_Gene_1694 898 T 898 5 PP >> OstA_2 OstA-like protein # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 4.3 0.2 0.0046 25 72 150 .. 112 192 .. 52 197 .. 0.61 2 ! 22.9 3.8 8.7e-09 4.8e-05 12 157 .. 284 431 .. 279 432 .. 0.90 3 ? -2.3 0.0 0.49 2.7e+03 67 107 .. 459 499 .. 436 505 .. 0.63 4 ? -1.8 0.3 0.34 1.9e+03 98 136 .. 655 697 .. 641 722 .. 0.62 5 ! 5.9 2.2 0.0015 8.3 81 149 .. 810 881 .. 792 890 .. 0.75 Alignments for each domain: == domain 1 score: 4.3 bits; conditional E-value: 0.0046 OstA_2 72 rleYdGntklaelrknvrledrektLtTdsldydrly..klayyfdgGkivdeentLtskeGeYstatkeavfrknVklvn 150 l+Yd t+ ++ +k + +++ek + ++ ++ ++ + dg i ++ + +++ +Y+ ++k + + n++l n 23726_FusoPortal_Gene_1694 112 ELKYDKTTQELISTKPMYAKNEEKGIEVLANKFKTTIsmDNITLEDGVVIKNKLFSILADKANYNNSSKIITLEGNIRLSN 192 555555555555555555555555544333333333300333333444444455555555555555555555555555554 PP == domain 2 score: 22.9 bits; conditional E-value: 8.7e-09 OstA_2 12 leadkeknpdaqilkgnvklkhdgavltcdsAvlyeeeNsleAFgnVrleQgDTlsltgdrleYdGntklaelr.knvrledr 93 +++ke+n d++ + g++k + + +d+ + ++ ++ FgnV + l d + Y+ tk a + ++++ ++ 23726_FusoPortal_Gene_1694 284 SYIEKEPNSDIINIYGKIKGGNPVYSVLADKGEYNVNDKKIRIFGNVDITSTKGEKLVLDNVVYSSATKEADMYgNKIKYTSP 366 56677899999999999988888899999*********************99999999*************9986889***** PP OstA_2 94 ektLtTdsldydrlyklayyfdgGkivdee.ntLtskeGeYstatkeavfrknVklvnkkytlts 157 e+ L + ++y+ ++k + +++ +++ + Lt ++ Y+ tk+++ ++n++++nk+y lt+ 23726_FusoPortal_Gene_1694 367 ENNLEAEYIHYNTVTKEVTTNKPFDSWNQKgEGLTGTSISYNLGTKDFYSKENITVKNKDYGLTT 431 **************9999988887777665278*****************************998 PP == domain 3 score: -2.3 bits; conditional E-value: 0.49 OstA_2 67 sltgdrleYdGntklaelrknvrledrektLtTdsldydrl 107 +++g+ Y+ +t + ++ + ++ ++++ l y+ + 23726_FusoPortal_Gene_1694 459 TVNGNSITYNKKTGELLSPGEIIIDNKGTIIKGHDLVYNNI 499 45566666666655555556666666666666666666655 PP == domain 4 score: -1.8 bits; conditional E-value: 0.34 OstA_2 98 tTdsldydrlyklayyf....dgGkivdeentLtskeGeYsta 136 t ++yd+ + ++y + G + ++ s G+ ++a 23726_FusoPortal_Gene_1694 655 TNSVINYDQYTIKSTYAkvnrESGAVFAKKADVKSVDGNEFSA 697 4456788877777777522224677777777777777654443 PP == domain 5 score: 5.9 bits; conditional E-value: 0.0015 OstA_2 81 laelrknvrledrektLtTdsldydr...lyklayyfdgGkivdeentLtskeGeYstatkeavfrknVklv 149 l++l+knv +++ ++ l dr + ++a d+ kiv +e + t++eG+Y +++ + nV++ 23726_FusoPortal_Gene_1694 810 LIKLNKNVYVKNINEKKEETVLTADRgtvTKEMADVYDKVKIVTKESVTTANEGHYDMVNRKIRAKGNVHVD 881 5566667766666655555555555533256899999999****************9999999999999875 PP Internal pipeline statistics summary: ------------------------------------- Query sequence(s): 1 (902 residues searched) Target model(s): 16712 (2907032 nodes) Passed MSV filter: 775 (0.0463739); expected 334.2 (0.02) Passed bias filter: 283 (0.0169339); expected 334.2 (0.02) Passed Vit filter: 19 (0.00113691); 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: 0.44u 0.27s 00:00:00.71 Elapsed: 00:00:00.38 # Mc/sec: 6900.38 // [ok]