# hmmsearch :: search profile(s) against a sequence 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 HMM file: pfam_list/TruD.hmm.txt # target sequence database: proteomes/Macaca_mulatta.fasta # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: TruD [M=416] Accession: PF01142.17 Description: tRNA pseudouridine synthase D (TruD) Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 1.8e-74 251.3 0.0 1.5e-70 238.4 0.0 2.1 2 tr|F7HTL5|F7HTL5_MACMU Pseudouridylate synthase 7 like 1.4e-73 248.3 0.0 3.7e-68 230.5 0.0 2.4 2 tr|A0A1D5R820|A0A1D5R820_MACMU Pseudouridylate synthase 7 OS=Ma ------ inclusion threshold ------ 0.18 10.8 0.0 0.47 9.5 0.0 1.6 2 tr|F7HS17|F7HS17_MACMU Uncharacterized protein OS=Macac Domain annotation for each sequence (and alignments): >> tr|F7HTL5|F7HTL5_MACMU Pseudouridylate synthase 7 like OS=Macaca mulatta OX=9544 GN=PUS7L PE=4 SV=2 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 10.7 0.0 2.7e-05 0.19 6 33 .. 27 54 .. 23 81 .. 0.79 2 ! 238.4 0.0 2.1e-74 1.5e-70 41 416 .] 309 708 .. 293 708 .. 0.86 Alignments for each domain: == domain 1 score: 10.7 bits; conditional E-value: 2.7e-05 TruD 6 lyvtdtegigGrlrespeDFiVeEieef 33 +++ d+ g+ G++++sp DFiV Ei e tr|F7HTL5|F7HTL5_MACMU 27 CFFNDHIGFHGTIKSSPSDFIVIEIDEQ 54 5778899******************655 PP == domain 2 score: 238.4 bits; conditional E-value: 2.1e-74 TruD 41 egey..lvlrvekrnwdtldlvrelaralgisrkrvgfaGtKDkrAvTtQlisirkvepeelekl..ei..kdvelevvgrarrklr 121 eg++ + ++++k+n ++ +++ la +lg+ +++++aG+KDk+A+T+Q + +rkv+pe+l+++ ei k++++ ++ + + +lr tr|F7HTL5|F7HTL5_MACMU 309 EGNViyTAFTLRKENLEMFEAIGFLAIKLGVIPSDFSYAGLKDKKAITYQAMVVRKVTPERLRNIekEIekKRMNVFNIRSVDDSLR 395 4444338999*****************************************************9988444488999999******** PP TruD 122 lGdLaGNkFeirvrdv.aeee...eaakraeeileelkekggvPNyfGvQRFGsrrpv.thlvGkaivkgdleeAveayvgkpfeee 203 lG+L+GN+F+i++r++ ++ + ++++r+ e +e++k+kg + Ny+G QRFG+ r v t +G a++k+++ +A++ +++ tr|F7HTL5|F7HTL5_MACMU 396 LGQLKGNHFDIVIRNLkKQINdsaNLRERIMEAIENVKKKG-FVNYYGPQRFGKGRKVhTDQIGLALLKNEMTKAIKLFLTPED--L 479 ***************85544444455566666666777766.************8875489******************98765..4 PP TruD 204 sedtreareavaetgdleealeelpkslryEramlkrLae...kpkdykkAlealpknLqrlFvhAyqSylFNrvlseRlerglpld 287 ++ +++a++++ +t+d++ l+++p+ Era+l++L + +++ +A +lp+ ++ ++vhAy S ++N+++s Rl+ + tr|F7HTL5|F7HTL5_MACMU 480 DDPVNRAKKYFLQTEDAKGTLSLMPEFKARERALLEALHRfgmTEEGCIQAWFSLPHSMRIFYVHAYTSKIWNEAVSYRLATY--GA 564 5556799*********************************88888889999999***************************99..57 PP TruD 288 epveGDvvifaeer...lpdtdrlqlvteknveevkrliergrafvtaplvGtetelaegevgeierevleeegleledFklpklpe 371 ++veGD+v+ +e+ + +++++lvte++ + +v++p++G++ + ++ +vg+ +++l+++gl++ Fk+p+ + tr|F7HTL5|F7HTL5_MACMU 565 RVVEGDLVCLDEDIddeNFPNSKVHLVTEEEGSANMYA----IHQVVLPILGYNIQYPKNKVGQWYHDILSRDGLQTCRFKVPT-LK 646 **********9887665566677777777655444433....35799************************************8.9* PP TruD 372 lsskGtrRaillrve.................dlelsaeedeltleFsLpkGsYATvvlrEi 416 l++ G +R+il +++ +++++ +l+++F L+ +YATv l+Ei tr|F7HTL5|F7HTL5_MACMU 647 LNVPGCYRQILKHPRnlsyqlmedhdidvkmkGSHIDETALSLLISFDLDASCYATVCLKEI 708 ************9999999****99887765544455555569*****************97 PP >> tr|A0A1D5R820|A0A1D5R820_MACMU Pseudouridylate synthase 7 OS=Macaca mulatta OX=9544 GN=PUS7 PE=4 SV=1 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 15.5 0.0 9.8e-07 0.0069 2 33 .. 165 196 .. 164 252 .. 0.87 2 ! 230.5 0.0 5.3e-72 3.7e-68 39 416 .] 309 699 .. 296 699 .. 0.93 Alignments for each domain: == domain 1 score: 15.5 bits; conditional E-value: 9.8e-07 TruD 2 lgielyvtdtegigGrlrespeDFiVeEieef 33 +gi +v++++g+ G l+e++ DF+V+Ei + tr|A0A1D5R820|A0A1D5R820_MACMU 165 VGITKFVSSHQGFSGILKERYSDFVVHEIGKD 196 89***************************554 PP == domain 2 score: 230.5 bits; conditional E-value: 5.3e-72 TruD 39 akegeylvlrvekrnwdtldlvrelaralgisrkrvgfaGtKDkrAvTtQlisirkvepeelekl..eikdvelevvgr 115 +++g+y+ + + k+n dt+d+++ l+r l+++ + ++++GtKDkrA+T+Q i++ k+++++l++l + + +l ++ tr|A0A1D5R820|A0A1D5R820_MACMU 309 KSRGSYCHFVLYKENKDTMDAINVLSRYLRVKPNIFSYMGTKDKRAITVQEIAVLKITAQRLAHLnkCLMNFKLGNFSY 387 678***********************************************************9996668********** PP TruD 116 arrklrlGdLaGNkFeirvrdvaeeeeaakraeeileelkekggvPNyfGvQRFGsrrpvthlvGkaivkgdleeAvea 194 ++++l+lG+L+GN+F++++r+++ ++ +++++ +++l+e g + Ny+G+QRFG++ t+ vG+ai+++ + e ++ tr|A0A1D5R820|A0A1D5R820_MACMU 388 QKNPLKLGELQGNHFTVVLRNITGTD---DQVQQAMNSLREIG-FINYYGMQRFGTTAVPTYQVGRAILQNSWTEVMDL 462 *********************95444...59**********99.*******************************9999 PP TruD 195 yvgkpfeeesedtreareavaetgdleealeelpkslryEramlkrLae.kpkdykkAlealpknLqrlFvhAyqSylF 272 ++ + +e+ + re a+t+d ++al++lp + +E ++l+ L + k++ +A+ +p+n + +++h+yqSy++ tr|A0A1D5R820|A0A1D5R820_MACMU 463 ILKPRSGAEKGYLVKCREEWAKTKDPAAALRKLPVKRCVEGQLLRGLSKyGMKNIVSAFGIIPRNNRLMYIHSYQSYVW 541 9999999******************************************77899************************* PP TruD 273 NrvlseRlerglpldepveGDvvifaeerlpdtdrlqlvteknveevkrliergrafvtaplvGtetelaegevgeier 351 N+++s+R+e++ +pv+GD+v++ + + ++e+ v++++ v++pl+G+++ ++ + +e r tr|A0A1D5R820|A0A1D5R820_MACMU 542 NNMVSKRIEDY-G-LKPVPGDLVLKGATA-------SYIEEDDVNNYS------IHDVVMPLPGFDVIYPKHKIQEAYR 605 *********99.4.48*******999555.......788888887777......45799******************** PP TruD 352 evleeegleledFklpklpelsskGtrRaillrve..............................dlelsaeedeltle 400 e+l ++l+ ++ + +k+ + s +G++R+i++r++ ++ + + + l+++ tr|A0A1D5R820|A0A1D5R820_MACMU 606 EMLTADNLDIDNMR-HKIRDYSLSGAYRKIIIRPQnvswevvayddpkiplfntdvdnlegkpppVFASEGKYRALKMD 683 *************9.5689****************************************9999986666667777**** PP TruD 401 FsLpkGsYATvvlrEi 416 FsLp+ +YAT+ +rE+ tr|A0A1D5R820|A0A1D5R820_MACMU 684 FSLPPSTYATMAIREV 699 **************96 PP >> tr|F7HS17|F7HS17_MACMU Uncharacterized protein OS=Macaca mulatta OX=9544 PE=4 SV=2 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 9.5 0.0 6.6e-05 0.47 76 102 .. 57 83 .. 46 100 .. 0.86 2 ? -2.6 0.0 0.3 2.1e+03 122 137 .. 472 487 .. 471 501 .. 0.78 Alignments for each domain: == domain 1 score: 9.5 bits; conditional E-value: 6.6e-05 TruD 76 faGtKDkrAvTtQlisirkvepeelek 102 ++G KDk+A +tQ is+++ ++++ ++ tr|F7HS17|F7HS17_MACMU 57 WCGSKDKEAPSTQSISVQRESQNRTPR 83 9****************9877776655 PP == domain 2 score: -2.6 bits; conditional E-value: 0.3 TruD 122 lGdLaGNkFeirvrdv 137 G+L GNk +++++ tr|F7HS17|F7HS17_MACMU 472 CGKLFGNKHSVTIHQR 487 599**********985 PP Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (416 nodes) Target sequences: 21211 (10888574 residues searched) Passed MSV filter: 767 (0.0361605); expected 424.2 (0.02) Passed bias filter: 346 (0.0163123); expected 424.2 (0.02) Passed Vit filter: 36 (0.00169723); expected 21.2 (0.001) Passed Fwd filter: 3 (0.000141436); expected 0.2 (1e-05) Initial search space (Z): 21211 [actual number of targets] Domain search space (domZ): 3 [number of targets reported over threshold] # CPU time: 0.29u 0.01s 00:00:00.30 Elapsed: 00:00:00.10 # Mc/sec: 45296.47 // [ok]