# 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_80.faa # target HMM database: Pfam-A.hmm # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: 23726_FusoPortal_Gene_80 [L=474] Description: # 100730 # 102151 # -1 # ID=1_80;partial=00;start_type=ATG;rbs_motif=AGxAGG/AGGxGG;rbs_spacer=5-10bp;gc_cont=0.295 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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 9.5e-131 435.5 1.9 1.1e-130 435.4 0.2 1.7 2 tRNA-synt_1e tRNA synthetases class I (C) catalytic domain 5.2e-16 58.8 0.9 1.7e-15 57.1 0.1 2.2 2 DALR_2 DALR domain 1.3e-15 57.0 1.4 3.5e-08 32.6 0.6 2.2 2 tRNA-synt_1g tRNA synthetases class I (M) 3.1e-08 32.8 0.1 0.0006 18.7 0.0 2.2 2 tRNA-synt_1f tRNA synthetases class I (K) 0.00013 20.2 0.1 0.35 9.0 0.0 2.6 2 tRNA-synt_1 tRNA synthetases class I (I, L, M and V) ------ inclusion threshold ------ 0.15 12.0 5.1 2.2 8.3 0.4 3.5 3 DUF1447 Protein of unknown function (DUF1447) 1.6 8.9 9.0 0.38 10.9 2.9 2.8 3 Seryl_tRNA_N Seryl-tRNA synthetase N-terminal domain Domain annotation for each model (and alignments): >> tRNA-synt_1e tRNA synthetases class I (C) catalytic domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 435.4 0.2 4.5e-134 1.1e-130 2 300 .. 15 314 .. 14 315 .. 0.98 2 ? -0.7 0.1 0.28 6.7e+02 69 95 .. 345 371 .. 327 439 .. 0.66 Alignments for each domain: == domain 1 score: 435.4 bits; conditional E-value: 4.5e-134 ---SBTTEEEEEEEEEBTTS--BHHHHHHHHHHHHHHHHHHHTT-EEEEEEEBB--SHHHHHHHHHTTS-HHHHHHHHHHHHHHH CS tRNA-synt_1e 2 vkpleekkvtlYvCGptvydashlGhaRslvafDilrrilqalgYdvqfvqnvtDidDkiikrareeeksvkelaekfieefkkd 86 +kpl+e++v++YvCGptvy+++h+G+aR++++fD +rr+l+++gY+v++vqn+tD+dDk+i++a+ e+ s+ke+ae++i+++++d 23726_FusoPortal_Gene_80 15 FKPLKENEVSMYVCGPTVYNYIHIGNARPAIFFDTVRRYLEYRGYKVNYVQNFTDVDDKMINKANIENVSIKEIAERYIKAYFED 99 78999******************************************************************************** PP HHHTT----.SB--BGGGGHHHHHHHHHHHHHTTSEEE-TTS-EEE-GGG-.TTTTTTTT--HHHHHHT----S--S-SSTT-EE CS tRNA-synt_1e 87 leaLnvlkp.tleprvsekvdeiielvekliekgyaYavsdgdvyfdvskk.eeYgklskqnleelelgaegevseekkdkkDfa 169 +++n+++ ++p+++e+++e+ie+++ l++kgyaY+++ gdvyf+v+k+ + Yg+lskqn+e+le+ga+++v+e k+d+ Dfa 23726_FusoPortal_Gene_80 100 TSKINLKEEgMIRPKATENINEMIEIIQSLVDKGYAYESN-GDVYFEVKKYrDGYGELSKQNIEDLESGARIDVNEIKRDALDFA 183 ******9752679*************************99.******9987257******************************* PP EEEE--TTS--B--TTSSEEE-SSHHHHHHHHHHH-SSEEEEEEEGGGTTTHHHHHHHHHHHHSSS--EEEEEEE--EEETTBE- CS tRNA-synt_1e 170 LWkaskegepswdsPwgkGRPGWhieCsvmaskllgseidihsGGiDLafPhhenelaqseaafdkqlvkyflhnghlkiegekm 254 LWkask++epswdsPwgkGRPGWhieCs+m++k+lg+++dih+GG DL+fPhhene+aqs++ + ++++y++hng+++i+gekm 23726_FusoPortal_Gene_80 184 LWKASKPNEPSWDSPWGKGRPGWHIECSAMSRKYLGDSFDIHGGGLDLIFPHHENEMAQSKCGCGGTFARYWMHNGYININGEKM 268 ************************************************************************************* PP -TTTT---BHHHHHTTS-HHHHHHHHHSS-TTS-EEE-HHHHHHHH CS tRNA-synt_1e 255 sksLknfitikdvlkkfdprqlRllllsahyrsqldfkeelleeak 300 sks + f++++d+lk f++r++Rl++l hyr++++f++++l+++k 23726_FusoPortal_Gene_80 269 SKSSGSFVLLRDILKYFEGRVIRLFVLGSHYRKPMEFSDTELNQTK 314 ******************************************9987 PP == domain 2 score: -0.7 bits; conditional E-value: 0.28 TS-HHHHHHHHHHHHHHHHHHTT---- CS tRNA-synt_1e 69 eksvkelaekfieefkkdleaLnvlkp 95 + ke+ +kfie++++d+++ + l 23726_FusoPortal_Gene_80 345 LATKKEMEAKFIEAMNEDFNTAQALGH 371 455667777777777777766554443 PP >> DALR_2 DALR domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 57.1 0.1 7.3e-19 1.7e-15 1 60 [. 354 420 .. 354 422 .. 0.84 2 ? -1.3 0.0 1.3 3e+03 18 52 .. 427 458 .. 425 466 .. 0.58 Alignments for each domain: == domain 1 score: 57.1 bits; conditional E-value: 7.3e-19 HHHHHHTBT--HHHHHHHHHHHHHHHHH..HHHTT-HHHHHHHHHHHHHH....HGGGT-.S-S-HH CS DALR_2 1 kFeeaMdDDFNTaeAiavlFelakeiNr..alkeedkaaasalkallrel....aevLGl.lqeepe 60 kF+eaM++DFNTa+A++++Fel+k++N+ ++++ +k+ ++ ++++ l ++vLG+ l+ e e 23726_FusoPortal_Gene_80 354 KFIEAMNEDFNTAQALGHIFELVKAVNKtlDEANISKKGLEVIDEVYSYLvmiiQDVLGVqLKLEVE 420 7***************************55555557777788888888888889*****98877665 PP == domain 2 score: -1.3 bits; conditional E-value: 1.3 HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHGGG CS DALR_2 18 vlFelakeiNralkeedkaaasalkallrelaevL 52 l el+ e++r ++ ++++ al + +r+ L 23726_FusoPortal_Gene_80 427 DLIELILELRR---NAREEKNWALSDKIRDRLLEL 458 57788889999...444444444444444433333 PP >> tRNA-synt_1g tRNA synthetases class I (M) # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 32.6 0.6 1.5e-11 3.5e-08 12 126 .. 34 148 .. 25 153 .. 0.93 2 ! 23.0 0.0 1.2e-08 2.8e-05 312 373 .. 252 312 .. 231 327 .. 0.75 Alignments for each domain: == domain 1 score: 32.6 bits; conditional E-value: 1.5e-11 S---HHHHHHHHHHHHHHHHHHHTT-EEEEEEEE---SHHHHHHHHHTTS-HHHHHHHHHHHHHHHHHHTT---SEEEETTSHHH CS tRNA-synt_1g 12 gkpHlGhllsvisaDifarykrlrgeevlfvcgtDehGtpielkAekegvtpeelvdkvseeikelfkkfnisfdkfirttseeh 96 + +H+G+++ +i D++ ry rg++v +v ++ kA+ e+v+ +e+++++ +++ e+ +k+n++ + ir + e+ 23726_FusoPortal_Gene_80 34 NYIHIGNARPAIFFDTVRRYLEYRGYKVNYVQNFTDVDDKMINKANIENVSIKEIAERYIKAYFEDTSKINLKEEGMIRPKATEN 118 679****************************99888889999******************************************* PP HHHHHHHHHHHHHTT-EEEEEEEEEEETTT CS tRNA-synt_1g 97 kelvqeffkklkekgliyekeieqlYcpsd 126 + + e+++ l +kg+ ye++ +++ +++ 23726_FusoPortal_Gene_80 119 INEMIEIIQSLVDKGYAYESNGDVYFEVKK 148 *******************99999988765 PP == domain 2 score: 23.0 bits; conditional E-value: 1.2e-08 -S-EEEE--EEE--------------HHHHHHHH-HHHHHHHHHHHS-TTS-EEE-HHHHHH CS tRNA-synt_1g 312 pkkvvaheyltvegkKmSkSrgnvvdakealerldvdllRyylaaespekkDldfsweefve 373 + + ++y++++g+KmSkS g +v +++l++++ ++R +++ + k ++fs e+ + 23726_FusoPortal_Gene_80 252 ARYWMHNGYININGEKMSKSSGSFVLLRDILKYFEGRVIRLFVLGS-HYRKPMEFSDTELNQ 312 5566789*********************************988754.345556666555544 PP >> tRNA-synt_1f tRNA synthetases class I (K) # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 11.8 0.0 3.3e-05 0.078 29 90 .. 28 93 .. 10 100 .. 0.75 2 ! 18.7 0.0 2.5e-07 0.0006 277 340 .. 264 325 .. 256 340 .. 0.83 Alignments for each domain: == domain 1 score: 11.8 bits; conditional E-value: 3.3e-05 tRNA-synt_1f 29 sGispSGliHiGnlrevltadlvaralrkrgeevrlilisDdmDglRkvpe...nlpek.llekyl 90 G ++ iHiGn+r + d v+r l+ rg +v+ + d+D + n+ k ++e+y+ 23726_FusoPortal_Gene_80 28 CGPTVYNYIHIGNARPAIFFDTVRRYLEYRGYKVNYVQNFTDVDDKMINKAnieNVSIKeIAERYI 93 56677778******************************9999996433333122444444555555 PP == domain 2 score: 18.7 bits; conditional E-value: 2.5e-07 tRNA-synt_1f 277 kggekmssSkGnvltledwlevaepevlrflilrrkPkkakkldldleilrlvdeYdklerkyf 340 + gekms+S+G ++ l+d+l++ e v+r+++l ++ +k ++++ e+ ++ +++e+ + 23726_FusoPortal_Gene_80 264 N-GEKMSKSSGSFVLLRDILKYFEGRVIRLFVLGSHYRKPMEFSDT-ELNQTKSSLERIENTLK 325 4.56******************************999999999877.88888888888888775 PP >> tRNA-synt_1 tRNA synthetases class I (I, L, M and V) # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 9.0 0.0 0.00015 0.35 23 67 .. 21 65 .. 11 149 .. 0.87 2 ! 8.7 0.0 0.00017 0.42 557 601 .. 261 305 .. 238 306 .. 0.88 Alignments for each domain: == domain 1 score: 9.0 bits; conditional E-value: 0.00015 tRNA-synt_1 23 kefilvdgPPyvtGslHiGhalaktlkdivirykrmkGkevlyvp 67 +e ++++ P v +HiG+a + d+v ry + +G++v+yv 23726_FusoPortal_Gene_80 21 NEVSMYVCGPTVYNYIHIGNARPAIFFDTVRRYLEYRGYKVNYVQ 65 45677788899999****************************985 PP == domain 2 score: 8.7 bits; conditional E-value: 0.00017 tRNA-synt_1 557 rdeeGrKmSKslgNvidpldvikkygadalRltlilsdvgrdinl 601 ++ +G KmSKs g + d++k ++Rl+++ s++ + +++ 23726_FusoPortal_Gene_80 261 ININGEKMSKSSGSFVLLRDILKYFEGRVIRLFVLGSHYRKPMEF 305 5668********************************999988876 PP >> DUF1447 Protein of unknown function (DUF1447) # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 3.2 0.0 0.036 86 16 52 .. 19 69 .. 4 76 .. 0.72 2 ? 8.3 0.4 0.00092 2.2 25 63 .. 104 142 .. 92 148 .. 0.80 3 ? 0.0 0.1 0.35 8.3e+02 30 53 .. 339 362 .. 325 368 .. 0.85 Alignments for each domain: == domain 1 score: 3.2 bits; conditional E-value: 0.036 DUF1447 16 REkTksLYleaeseee...............vrklveenteyniEfieelsg 52 +E+ s+Y+ + + vr+++e + y++ ++++ ++ 23726_FusoPortal_Gene_80 19 KENEVSMYVCGPTVYNyihignarpaiffdtVRRYLEYR-GYKVNYVQNFTD 69 55555555555555555555555556666669******9.*******98765 PP == domain 2 score: 8.3 bits; conditional E-value: 0.00092 DUF1447 25 eaeseeevrklveenteyniEfieelsgkhLeYEkesed 63 + ++e +r + en + iE i++l +k +YE + 23726_FusoPortal_Gene_80 104 NLKEEGMIRPKATENINEMIEIIQSLVDKGYAYESNGDV 142 5566667999999999999***************98543 PP == domain 3 score: 0.0 bits; conditional E-value: 0.35 DUF1447 30 eevrklveenteyniEfieelsgk 53 ++ ++l+++++e++ fie+++++ 23726_FusoPortal_Gene_80 339 DDCQELLATKKEMEAKFIEAMNED 362 56789999999********99986 PP >> Seryl_tRNA_N Seryl-tRNA synthetase N-terminal domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 0.0 0.0 0.38 9.1e+02 11 39 .. 47 75 .. 47 90 .. 0.87 2 ? 10.9 2.9 0.00016 0.38 15 95 .. 314 398 .. 304 411 .. 0.71 3 ? -2.5 0.1 2.3 5.4e+03 75 92 .. 420 437 .. 416 459 .. 0.62 Alignments for each domain: == domain 1 score: 0.0 bits; conditional E-value: 0.38 HHHHHHHHCCCTCCCHHHHHHHHHHHHHH CS Seryl_tRNA_N 11 peavkeklkkRgedkadvdelleldekrr 39 +++v++ l+ Rg ++ v+ + ++d+k+ 23726_FusoPortal_Gene_80 47 FDTVRRYLEYRGYKVNYVQNFTDVDDKMI 75 58999999999999999999999999874 PP == domain 2 score: 10.9 bits; conditional E-value: 0.00016 HHHHCCCTCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCTT.......S-TCCCCCCCHHHHHHHHHHHHHHHH CS Seryl_tRNA_N 15 keklkkRgedkadvdelleldekrrelqveleelqaerNelskeIgkakkkk.......edaeeliaevkelkeelkaleaelke 92 k +l+ R +++++++ eld++ + + + +el a ++e+ +++ +a++++ + el++ v++ +e + ++ l+ 23726_FusoPortal_Gene_80 314 KSSLE-R--IENTLKRIKELDRENIKGIDDCQELLATKKEMEAKFIEAMNEDfntaqalGHIFELVKAVNKTLDEANISKKGLEV 395 44443.3..6899**************************************9966644444444455555555555555555555 PP HHH CS Seryl_tRNA_N 93 lea 95 +++ 23726_FusoPortal_Gene_80 396 IDE 398 555 PP == domain 3 score: -2.5 bits; conditional E-value: 2.3 CCHHHHHHHHHHHHHHHH CS Seryl_tRNA_N 75 evkelkeelkaleaelke 92 ev++++++l +l el+ 23726_FusoPortal_Gene_80 420 EVNNISADLIELILELRR 437 555555555555555544 PP Internal pipeline statistics summary: ------------------------------------- Query sequence(s): 1 (474 residues searched) Target model(s): 16712 (2907032 nodes) Passed MSV filter: 1120 (0.0670177); expected 334.2 (0.02) Passed bias filter: 583 (0.0348851); expected 334.2 (0.02) Passed Vit filter: 55 (0.00329105); expected 16.7 (0.001) Passed Fwd filter: 8 (0.000478698); expected 0.2 (1e-05) Initial search space (Z): 16712 [actual number of targets] Domain search space (domZ): 7 [number of targets reported over threshold] # CPU time: 0.31u 0.23s 00:00:00.54 Elapsed: 00:00:00.32 # Mc/sec: 4306.04 // [ok]