# 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_705.faa # target HMM database: Pfam-A.hmm # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: 23726_FusoPortal_Gene_705 [L=435] Description: # 797685 # 798989 # -1 # ID=1_705;partial=00;start_type=TTG;rbs_motif=AGxAGG/AGGxGG;rbs_spacer=5-10bp;gc_cont=0.291 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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 5.9e-56 189.0 0.4 1.2e-55 188.0 0.1 1.7 2 Ham1p_like Ham1 family 1e-20 74.5 0.3 2.1e-20 73.4 0.1 1.6 2 RNase_PH 3' exoribonuclease family, domain 1 3.6e-11 42.8 0.6 1.1e-10 41.2 0.6 1.9 1 RNase_PH_C 3' exoribonuclease family, domain 2 ------ inclusion threshold ------ 0.025 14.0 1.5 11 5.4 0.0 3.7 4 Dot_icm_IcmQ Dot/Icm secretion system protein (dot_icm_IcmQ) 0.061 13.7 0.2 0.17 12.3 0.2 1.7 1 DUF406 Protein of unknown function (DUF406) Domain annotation for each model (and alignments): >> Ham1p_like Ham1 family # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? -3.4 0.0 2.3 7.7e+03 27 44 .. 197 214 .. 176 225 .. 0.61 2 ! 188.0 0.1 3.7e-59 1.2e-55 1 170 [. 244 428 .. 244 429 .. 0.88 Alignments for each domain: == domain 1 score: -3.4 bits; conditional E-value: 2.3 E.---BSSSHHHHHHHHHH CS Ham1p_like 27 l.veEtqgtfeenalkkar 44 + E+qgt ee ++ +a+ 23726_FusoPortal_Gene_705 197 EfI-EVQGTGEESTFTRAE 214 224.888888888777774 PP == domain 2 score: 188.0 bits; conditional E-value: 3.7e-59 EEEC-S-HHHHHHHHHHTTT..CCCE.EE........---BSSSHHHHHHHHHHHHHH...H-EEEEEEEEEEGGGTTTBGGGT CS Ham1p_like 1 ivfaTgNkgKlrevkeilae..llevksl........veEtqgtfeenalkkaraaae...lpvladDsgLevdaLnglPGvys 71 i++aT Nk+K++e+++i+++ ++e+ s+ v E+++tfe n++kka ++++ + ++adDsgL+vdaLng+PGvys 23726_FusoPortal_Gene_705 244 IFLATANKHKIEEISDIFSGieNIEILSIkdgieipeVIEDGDTFEANSKKKAVEISKflnMITIADDSGLCVDALNGEPGVYS 327 789**************9886644444446677775533***************999964347********************* PP TTTT..CHHHHHHHHHHHHCTC.S--EEEEEEEEEEEETTTTEEEEEEEEEEEEE-SS---SSSSTTGGGEEE.T.SSBTTTS- CS Ham1p_like 72 arfe..aedeenlaklleelek.edrsArfvcvlalvdpeeeeellfeGeveGeiveeprgeggfGyDpiFip.egektfaels 151 ar++ ++d +n++kl+++l++ e+r+A+fv+v++l++p ++e++ f+Ge++G+iv++prg++gfGyDp F++ e +kt+ael+ 23726_FusoPortal_Gene_705 328 ARYSgtGDDLKNNEKLINNLQGiENRNAKFVSVITLAKP-NGEVYSFRGEIQGKIVDTPRGNTGFGYDPHFYVeEYQKTLAELP 410 ***555899************89***************9.666699***************************54455*****8 PP CHHHHHHSHHHHHHHHHHH CS Ham1p_like 152 keeknaiShRgkAleklle 170 e kn+iShR+kAlekl++ 23726_FusoPortal_Gene_705 411 -ELKNKISHRAKALEKLKK 428 .8***************86 PP >> RNase_PH 3' exoribonuclease family, domain 1 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 73.4 0.1 6.4e-24 2.1e-20 1 129 [. 11 141 .. 11 143 .. 0.93 2 ? -2.8 0.0 2.3 7.8e+03 73 73 .. 206 206 .. 161 251 .. 0.49 Alignments for each domain: == domain 1 score: 73.4 bits; conditional E-value: 6.4e-24 EEEEEEEEESSSTCCCEEEEEEECCEEEEEEEEEEEEEE-TCCG--CCEEEECCCCECCCCEC-C.......S...HHHHHHHH CS RNase_PH 1 elRslsietgvlsqanGSaylelGdtkvlasvtgpieerpseerddaegaldveveyapfasger....rregrpsdeeielsr 80 e R+++i +v a+GS+++e+G+tkv+++ +++ ++ ps+ r + +g++++e+ + p a++er ++g+ + +++e++r 23726_FusoPortal_Gene_705 11 EERKIKITKNVNIYAEGSVLIEVGNTKVICTASVSDKV-PSFLRGTGKGWVTAEYSMLPRATNERnpreASKGKLTGRTVEIQR 93 579*********************************99.6777666679****************987645588999999**** PP HHHHHHHHCC-CCGGCTCEEEEEEEEEECCCS-GHHHCHHHHHHHHCCH CS RNase_PH 81 lleralrpsillekkpkstididitvlssdggslldalinaaslALada 129 l+ ralr+si lek + i id+ v+++dg ++ +i++ ALa a 23726_FusoPortal_Gene_705 94 LIGRALRASIDLEKLGERLITIDCDVIQADG-GTRTTSITGGYIALALA 141 *******************************.**************965 PP == domain 2 score: -2.8 bits; conditional E-value: 2.3 H CS RNase_PH 73 d 73 + 23726_FusoPortal_Gene_705 206 E 206 1 PP >> RNase_PH_C 3' exoribonuclease family, domain 2 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 41.2 0.6 3.4e-14 1.1e-10 3 66 .. 160 224 .. 159 225 .. 0.98 Alignments for each domain: == domain 1 score: 41.2 bits; conditional E-value: 3.4e-14 -EEEEEEEETTEEEES--HHHHTCSSEEEEEEEETTTEEEEEEEESSSE.EEHHHHHHHHHHHHH CS RNase_PH_C 3 viavtvgkvddkfilDptkeEedlsegdltlavagtkevvtlmkeggsq.ldeetlleaielAkk 66 v+a++vgk++ ++++D+ ++E+ +e d+++ +++++e + ++ +g+ + +++ +l + ++lA++ 23726_FusoPortal_Gene_705 160 VAAISVGKINSNLMVDLKYSEDFAAEVDMNVIMNKKDEFIEVQGTGEEStFTRAELNQLLDLAEN 224 89*************************************************************86 PP >> Dot_icm_IcmQ Dot/Icm secretion system protein (dot_icm_IcmQ) # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 0.3 0.0 0.12 4e+02 106 133 .. 15 42 .. 8 57 .. 0.75 2 ? -2.2 0.0 0.69 2.3e+03 140 161 .. 106 127 .. 95 136 .. 0.74 3 ? 4.2 0.2 0.0075 25 2 39 .. 191 229 .. 190 261 .. 0.71 4 ? 5.4 0.0 0.0033 11 62 89 .. 321 348 .. 290 352 .. 0.89 Alignments for each domain: == domain 1 score: 0.3 bits; conditional E-value: 0.12 Dot_icm_IcmQ 106 ailktkenklneayvaiyvdqsdilsls 133 + + n e+ v i v +++++ + 23726_FusoPortal_Gene_705 15 IKITKNVNIYAEGSVLIEVGNTKVICTA 42 33667788999*************9853 PP == domain 2 score: -2.2 bits; conditional E-value: 0.69 Dot_icm_IcmQ 140 dklGkllltlkdkalklenisr 161 +klG+ l+t+ ++ + +r 23726_FusoPortal_Gene_705 106 EKLGERLITIDCDVIQADGGTR 127 69*******9988887766555 PP == domain 3 score: 4.2 bits; conditional E-value: 0.0075 Dot_icm_IcmQ 2 ilkalddaie.kgpWeesnflrvigknlkeireeflkkv 39 i++ d+ ie +g ees f r+ + +l ++ e+ +k++ 23726_FusoPortal_Gene_705 191 IMNKKDEFIEvQGTGEESTFTRAELNQLLDLAENSIKRL 229 566677777757999******************999984 PP == domain 4 score: 5.4 bits; conditional E-value: 0.0033 Dot_icm_IcmQ 62 nkqeiyvslyssdGsdlksWeriiaslp 89 ++ +y + ys G dlk+ e++i +l+ 23726_FusoPortal_Gene_705 321 GEPGVYSARYSGTGDDLKNNEKLINNLQ 348 5567999*******************97 PP >> DUF406 Protein of unknown function (DUF406) # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 12.3 0.2 5.1e-05 0.17 12 68 .. 185 241 .. 178 249 .. 0.87 Alignments for each domain: == domain 1 score: 12.3 bits; conditional E-value: 5.1e-05 ---SS-SS--STTEEEEEEE-SSHHHHHHHHHHHHHHHHHH.STT-.EEEE----TT CS DUF406 12 avdvgtiidnedcvaeveivaaseaeaeaalakltekAkavesepveisseieeaed 68 vd+ i++ +d+ +ev+ +++++ +a+l++l+++A + + +e + +i ++ed 23726_FusoPortal_Gene_705 185 EVDMNVIMNKKDEFIEVQGTGEESTFTRAELNQLLDLAENSIKRLIELQDRIINQED 241 69************************************9997777777777777776 PP Internal pipeline statistics summary: ------------------------------------- Query sequence(s): 1 (435 residues searched) Target model(s): 16712 (2907032 nodes) Passed MSV filter: 806 (0.0482288); expected 334.2 (0.02) Passed bias filter: 473 (0.028303); expected 334.2 (0.02) Passed Vit filter: 39 (0.00233365); 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: 0.28u 0.25s 00:00:00.53 Elapsed: 00:00:00.32 # Mc/sec: 3951.75 // [ok]