# 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_1837.faa # target HMM database: Pfam-A.hmm # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: 23726_FusoPortal_Gene_1837 [L=186] Description: # 1966752 # 1967309 # -1 # ID=1_1837;partial=00;start_type=ATG;rbs_motif=AGGA;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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 1.9e-13 50.2 0.1 3.1e-13 49.5 0.1 1.4 1 HTH_3 Helix-turn-helix 6.4e-11 41.7 0.0 9e-11 41.2 0.0 1.2 1 Cupin_2 Cupin domain 7.9e-11 41.7 0.1 1.4e-10 40.9 0.1 1.5 1 HTH_19 Helix-turn-helix domain 1.3e-05 25.3 0.0 2.2e-05 24.6 0.0 1.2 1 HTH_31 Helix-turn-helix domain 0.0015 18.1 0.0 0.0035 16.9 0.0 1.6 2 Cupin_1 Cupin 0.0033 16.6 0.0 0.0049 16.1 0.0 1.3 1 Lyx_isomer D-lyxose isomerase 0.0038 17.5 0.1 0.0069 16.7 0.1 1.4 1 HTH_26 Cro/C1-type HTH DNA-binding domain 0.0046 17.0 0.0 0.0085 16.2 0.0 1.4 1 CENP-C_C Mif2/CENP-C like 0.0078 16.0 0.0 0.015 15.1 0.0 1.5 1 HTH_25 Helix-turn-helix domain ------ inclusion threshold ------ 0.032 14.0 0.0 0.044 13.6 0.0 1.2 1 MannoseP_isomer Mannose-6-phosphate isomerase 0.052 13.4 0.8 0.085 12.7 0.1 1.7 2 HTH_37 Helix-turn-helix domain 0.057 13.0 0.0 0.09 12.4 0.0 1.3 1 Cupin_3 Protein of unknown function (DUF861) 0.067 13.2 0.0 0.32 11.1 0.0 2.2 2 HTH_AraC Bacterial regulatory helix-turn-helix protei Domain annotation for each model (and alignments): >> HTH_3 Helix-turn-helix # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 49.5 0.1 2.4e-16 3.1e-13 1 53 [. 11 63 .. 11 65 .. 0.97 Alignments for each domain: == domain 1 score: 49.5 bits; conditional E-value: 2.4e-16 HHHHHHHTTHHHHHHHHHHTSSHHHHHHHHTTSSCSBHHHHHHHHHHHTSEHH CS HTH_3 1 lkelRkqlglsqeeLAeklGvsrstisriEnGernPsletlkklakaLgvsld 53 +k +Rk ++l ++++A k+G+s s +s+iE+G +nPsl t+k +a++L v+l 23726_FusoPortal_Gene_1837 11 IKNIRKSKKLLLKDVALKCGISSSMLSQIEKGNANPSLNTIKSIAQVLEVPLF 63 899***********************************************985 PP >> Cupin_2 Cupin domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 41.2 0.0 7e-14 9e-11 10 70 .. 120 180 .. 112 181 .. 0.89 Alignments for each domain: == domain 1 score: 41.2 bits; conditional E-value: 7e-14 EEEEECSSSEEEEEEEEESEEEEEECTEEEEEETTEEEEE-TT-EEEEEE-SSS.-EEEEEE CS Cupin_2 10 sapshrHpgedeffyVleGegeltvdgeeveleaGdsvyfpagtpHrfrNtgde.parllvv 70 s ++ H+ge e+ + l G+++lt++ ++l+ Gds+++p+ tpH++ N +e +++++v 23726_FusoPortal_Gene_1837 120 SVKPMAHKGE-EIAVLLNGKVKLTIGKFSIVLSSGDSIHIPSMTPHKWTNLHTEkSVVIFSV 180 677889****.***************************************988867777766 PP >> HTH_19 Helix-turn-helix domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 40.9 0.1 1.1e-13 1.4e-10 3 61 .. 10 67 .. 8 72 .. 0.91 Alignments for each domain: == domain 1 score: 40.9 bits; conditional E-value: 1.1e-13 HTH_19 3 rLkeaReelgltqeelaerlgisrskisaiEngkkdvpsaelllkiaealgidleyllq 61 +k +R+ ++l ++++a ++gis s++s+iE+g+ +ps +++++ia+ l+++l +++ 23726_FusoPortal_Gene_1837 10 TIKNIRKSKKLLLKDVALKCGISSSMLSQIEKGNA-NPSLNTIKSIAQVLEVPLFKFFM 67 59*********************************.*****************765555 PP >> HTH_31 Helix-turn-helix domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 24.6 0.0 1.7e-08 2.2e-05 6 57 .. 11 61 .. 7 62 .. 0.90 Alignments for each domain: == domain 1 score: 24.6 bits; conditional E-value: 1.7e-08 HTH_31 6 LralReraGLsqeevAerlgvsestlsrlEqGrrgrpspavlealaralgld 57 + R+ L +++vA +g+s s ls++E G +ps+ ++ ++a++l ++ 23726_FusoPortal_Gene_1837 11 IKNIRKSKKLLLKDVALKCGISSSMLSQIEKGNA-NPSLNTIKSIAQVLEVP 61 5667888889999*********************.6*************997 PP >> Cupin_1 Cupin # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? -1.9 0.0 1.7 2.2e+03 29 60 .. 27 57 .. 23 59 .. 0.72 2 ! 16.9 0.0 2.7e-06 0.0035 36 114 .. 111 181 .. 76 184 .. 0.74 Alignments for each domain: == domain 1 score: -1.9 bits; conditional E-value: 1.7 HSSTEEEEEEEE.TTEEEEEEEESSS-EEEEE CS Cupin_1 29 ntlgisaarvdlepgglllPhyhpnateiayv 60 +++gis+ ++ ++g P+ + +ia v 23726_FusoPortal_Gene_1837 27 LKCGISSSMLSQIEKGNANPSLN-TIKSIAQV 57 67999999999877777777777.66666655 PP == domain 2 score: 16.9 bits; conditional E-value: 2.7e-06 EEEEE.TTEEEEEEEESSS-EEEEEEESEEEEEEEETTSS.EEEEEEEETTEEEEE-TT-EEEEEEESSSSEEEEEEEE CS Cupin_1 36 arvdlepgglllPhyhpnateiayvlqGegrvgfvvpgngnrdfhkklreGdvfvvPaglvhfqynsgdepavaivvfd 114 + + ++ + P h + +eia+ l+G++ ++ g +f+ +l+ Gd + +P+ +h + n e+ v+i++++ 23726_FusoPortal_Gene_1837 111 TLIGKNAETSVKPMAH-KGEEIAVLLNGKVK---LTIG----KFSIVLSSGDSIHIPSMTPHKWTNLHTEKSVVIFSVS 181 4444455666789999.9*************...5556....699**********************988888888765 PP >> Lyx_isomer D-lyxose isomerase # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 16.1 0.0 3.8e-06 0.0049 132 187 .. 126 181 .. 105 184 .. 0.86 Alignments for each domain: == domain 1 score: 16.1 bits; conditional E-value: 3.8e-06 Lyx_isomer 132 lededvtvsvDGvkktvaageklrlkpGesitlepglyHkfwaekgkgkvlvgevs 187 + e++ v ++G k + + +++l+ G+si + ++ Hk++ +++++v+++ vs 23726_FusoPortal_Gene_1837 126 HKGEEIAVLLNGKVKLTIGKFSIVLSSGDSIHIPSMTPHKWTNLHTEKSVVIFSVS 181 3678999********9999***********************************99 PP >> HTH_26 Cro/C1-type HTH DNA-binding domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 16.7 0.1 5.4e-06 0.0069 3 52 .. 12 60 .. 10 63 .. 0.87 Alignments for each domain: == domain 1 score: 16.7 bits; conditional E-value: 5.4e-06 HTH_26 3 relmadrgitkseLargtgisaatlsrlvkgkpervsldtLdkiCdaLgc 52 +++ + +++ +++a ++gis++ ls + kg ++sl+t+ i+++L++ 23726_FusoPortal_Gene_1837 12 KNIRKSKKLLLKDVALKCGISSSMLSQIEKGN-ANPSLNTIKSIAQVLEV 60 5666677777889999***************9.5**************98 PP >> CENP-C_C Mif2/CENP-C like # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 16.2 0.0 6.6e-06 0.0085 39 83 .. 134 178 .. 116 180 .. 0.88 Alignments for each domain: == domain 1 score: 16.2 bits; conditional E-value: 6.6e-06 EEESEEEEEETTEEEEEETT-EEEE-TT-EEEEEE-SSS-EEEEE CS CENP-C_C 39 VikGrvevtvsetsFvitkgsvfqvPrgneysieNignkeaklfF 83 ++G+v+ t+ + s v+++g++ +P++ + N + +++++ F 23726_FusoPortal_Gene_1837 134 LLNGKVKLTIGKFSIVLSSGDSIHIPSMTPHKWTNLHTEKSVVIF 178 579**********************************99888777 PP >> HTH_25 Helix-turn-helix domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 15.1 0.0 1.1e-05 0.015 3 34 .. 12 43 .. 10 61 .. 0.92 Alignments for each domain: == domain 1 score: 15.1 bits; conditional E-value: 1.1e-05 HHHHHTTT--HHHHHHHSS--HHHHHHHHCT- CS HTH_25 3 raaRearglsleevaketkIrkdylealEedd 34 ++ R++++l l++va + I+ ++l ++E+++ 23726_FusoPortal_Gene_1837 12 KNIRKSKKLLLKDVALKCGISSSMLSQIEKGN 43 789***************************97 PP >> MannoseP_isomer Mannose-6-phosphate isomerase # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 13.6 0.0 3.4e-05 0.044 72 125 .. 115 169 .. 79 180 .. 0.82 Alignments for each domain: == domain 1 score: 13.6 bits; conditional E-value: 3.4e-05 MannoseP_isomer 72 Pgeklslqkhhhraeh.WvvvkGtakvtvddevlllkenestyiplgaihrlenp 125 +++ s++ h+ e v ++G k+t+++ +++l++ +s++ip + h+ n 23726_FusoPortal_Gene_1837 115 KNAETSVKPMAHKGEEiAVLLNGKVKLTIGKFSIVLSSGDSIHIPSMTPHKWTNL 169 466778888888877615778*****************************98885 PP >> HTH_37 Helix-turn-helix domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 12.7 0.1 6.6e-05 0.085 21 57 .. 9 45 .. 4 59 .. 0.84 2 ? -2.4 0.1 3.4 4.4e+03 67 79 .. 131 143 .. 130 144 .. 0.79 Alignments for each domain: == domain 1 score: 12.7 bits; conditional E-value: 6.6e-05 HHHHHHHHHCT--HHHHHHHHT--HHHHHHHHTT--T CS HTH_37 21 laiaeliearglsqseaaqllgiaqPkvsrllrgkls 57 ++i++++++++l +++a ++gi+ + +s++++g+ + 23726_FusoPortal_Gene_1837 9 ITIKNIRKSKKLLLKDVALKCGISSSMLSQIEKGNAN 45 689*****************************98753 PP == domain 2 score: -2.4 bits; conditional E-value: 3.4 HHHHTTEEEEEEE CS HTH_37 67 lltalGqkveivv 79 +++ l++kv++ + 23726_FusoPortal_Gene_1837 131 IAVLLNGKVKLTI 143 6788999999987 PP >> Cupin_3 Protein of unknown function (DUF861) # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 12.4 0.0 7e-05 0.09 23 65 .. 126 167 .. 117 174 .. 0.86 Alignments for each domain: == domain 1 score: 12.4 bits; conditional E-value: 7e-05 ESSEEEEEEEECEEEEEETTTEEEEEETTEEEEE-TTEEECCC CS Cupin_3 23 yeedEfcyileGevkvtpeggetvelraGDlvvlpkglsgtwd 65 + +E++ +l G+vk+t g + l+ GD++ +p + +w+ 23726_FusoPortal_Gene_1837 126 HKGEEIAVLLNGKVKLTI-GKFSIVLSSGDSIHIPSMTPHKWT 167 5569**************.8888************99999997 PP >> HTH_AraC Bacterial regulatory helix-turn-helix proteins, AraC family # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 11.1 0.0 0.00025 0.32 7 27 .. 18 38 .. 7 39 .. 0.87 2 ? -2.8 0.0 5.7 7.3e+03 10 16 .. 50 56 .. 48 58 .. 0.80 Alignments for each domain: == domain 1 score: 11.1 bits; conditional E-value: 0.00025 CT--HHHHHHHTTSSHHHHHH CS HTH_AraC 7 tnltiediAdelgfSrsyFsr 27 +l ++d+A +g+S+s +s+ 23726_FusoPortal_Gene_1837 18 KKLLLKDVALKCGISSSMLSQ 38 56889*********9998886 PP == domain 2 score: -2.8 bits; conditional E-value: 5.7 -HHHHHH CS HTH_AraC 10 tiediAd 16 ti++iA+ 23726_FusoPortal_Gene_1837 50 TIKSIAQ 56 8999997 PP Internal pipeline statistics summary: ------------------------------------- Query sequence(s): 1 (186 residues searched) Target model(s): 16712 (2907032 nodes) Passed MSV filter: 522 (0.031235); expected 334.2 (0.02) Passed bias filter: 388 (0.0232169); expected 334.2 (0.02) Passed Vit filter: 43 (0.002573); expected 16.7 (0.001) Passed Fwd filter: 13 (0.000777884); expected 0.2 (1e-05) Initial search space (Z): 16712 [actual number of targets] Domain search space (domZ): 13 [number of targets reported over threshold] # CPU time: 0.24u 0.23s 00:00:00.47 Elapsed: 00:00:00.31 # Mc/sec: 1744.22 // [ok]