# 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/Mus_musculus.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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 1.1e-73 248.7 0.0 1.4e-68 232.0 0.0 2.2 2 sp|Q8CE46|PUS7L_MOUSE Pseudouridylate synthase 7 homolog-lik 4.5e-73 246.8 0.0 4.4e-68 230.3 0.0 2.3 2 sp|Q91VU7|PUS7_MOUSE Pseudouridylate synthase 7 homolog OS= Domain annotation for each sequence (and alignments): >> sp|Q8CE46|PUS7L_MOUSE Pseudouridylate synthase 7 homolog-like protein OS=Mus musculus OX=10090 GN=Pus7l PE=1 SV=1 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 14.7 0.0 1.1e-06 0.013 3 43 .. 12 53 .. 10 70 .. 0.73 2 ! 232.0 0.0 1.2e-72 1.4e-68 40 416 .] 298 697 .. 280 697 .. 0.89 Alignments for each domain: == domain 1 score: 14.7 bits; conditional E-value: 1.1e-06 TruD 3 gielyvtdtegigGrlrespeDFiVeEieefsge.eeakege 43 + +++ d+ g++G++++sp DFiV Ei e + ++a++g+ sp|Q8CE46|PUS7L_MOUSE 12 NSLCFINDHVGFQGSIKTSPSDFIVIEIDEQGQLvSKATDGS 53 5668999*********************77633224555554 PP == domain 2 score: 232.0 bits; conditional E-value: 1.2e-72 TruD 40 kegeylvlrvekrnwdtldlvrelaralgisrkrvgfaGtKDkrAvTtQlisirkvepeelekl....eikdvelevvgrarrklrlG 123 + y+ ++++k+n +t +++ la +lg+ +++++aG+KDkrA+T+Q + ++kv+pe+l+++ e k++++ ++ + + lrlG sp|Q8CE46|PUS7L_MOUSE 298 GKAVYTAFTLQKENLETFEAIGLLAVKLGVIPSDFSYAGLKDKRAITYQSMVVKKVTPERLKSIkeeiEKKRMNVFNIRSVGDCLRLG 385 34557999*****************************************************999884444889999999********* PP TruD 124 dLaGNkFeirvrdv.aeeeeaakraeeileelkekg..gvPNyfGvQRFGsrrpv.thlvGkaivkgdleeAveayvgkpfeeesedt 207 +L+GN+Fei++r + + ++ a+ +e+ile++++ + g+ Ny+G QRFG+ + + t +G a++k+++ +A++ +++ ++ + sp|Q8CE46|PUS7L_MOUSE 386 QLKGNHFEIIIRHLrNQLNDSANLTERILEAIENVKnkGFVNYYGPQRFGKGQKIqTDQIGLALLKNEMVKAIKLFLTPEDV--DDPV 471 *************98777777777777777777644447***********97654399******************987654..5556 PP TruD 208 reareavaetgdleealeelpkslryEramlkrLae...kpkdykkAlealpknLqrlFvhAyqSylFNrvlseRlerglpldepveG 292 ++a++++ +t+d++ l+++p+ Era+l++L + +++ +A ++p+ ++ +++hAy S ++N++ s Rl+++ p ++veG sp|Q8CE46|PUS7L_MOUSE 472 NKAKQYFLRTEDAKGTLSLMPEFRVRERALLESLHRfgvTEEGCVRAWFSFPHSMRIFYIHAYSSRIWNEAASYRLAAYGP--KVVEG 557 79**********************************999999999*********************************987..9**** PP TruD 293 Dvvifaeer..lpdtdrlqlvteknveevkrliergrafvtaplvGtetelaegevgeierevleeegleledFklpklpelsskGtr 378 D+++ +e++ +++++lvt+++ + + +v++p++G++++ +e +vg+ +e l+++gl++ F++p+ +l++ G + sp|Q8CE46|PUS7L_MOUSE 558 DLICSDEDAdkHFPSSKVHLVTKEEESAHT----YALHQVVLPVLGYNVQYPENQVGRWYQEALSRDGLQACRFRVPA-LKLNVPGCY 640 ******998666667778888877666655....4456799************************************8.9******** PP TruD 379 Raillrve...................dlelsaeedeltleFsLpkGsYATvvlrEi 416 R+i+ +++ + +++ ++l l+F L+ +YATv lrE+ sp|Q8CE46|PUS7L_MOUSE 641 RHIVKHPRnvshrlvhpdpateearveGPHSDDTASSLSLSFDLDASCYATVCLREM 697 ****99999************9998885566778888******************96 PP >> sp|Q91VU7|PUS7_MOUSE Pseudouridylate synthase 7 homolog OS=Mus musculus OX=10090 GN=Pus7 PE=2 SV=2 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 14.2 0.0 1.6e-06 0.018 2 32 .. 113 143 .. 112 196 .. 0.88 2 ! 230.3 0.0 3.9e-72 4.4e-68 39 416 .] 251 641 .. 239 641 .. 0.94 Alignments for each domain: == domain 1 score: 14.2 bits; conditional E-value: 1.6e-06 TruD 2 lgielyvtdtegigGrlrespeDFiVeEiee 32 +gi +v++++g+ G l+e++ DF+V+Ei + sp|Q91VU7|PUS7_MOUSE 113 VGICKFVSSHHGFSGILKERYSDFVVHEIGK 143 8999*************************54 PP == domain 2 score: 230.3 bits; conditional E-value: 3.9e-72 TruD 39 akegeylvlrvekrnwdtldlvrelaralgisrkrvgfaGtKDkrAvTtQlisirkvepeelekl..eikdvelevvgrarrklrlGdL 125 +++g+y+ + + k+n dt+d+++ l++ l+++ + ++++GtKDkrA+T+Q i++ k+++++l++l + +++l ++ ++ +l+lG L sp|Q91VU7|PUS7_MOUSE 251 KSRGSYCHFVLYKENKDTMDAINVLSKYLRVKPNIFSYMGTKDKRAITVQEIAVLKISAQRLAHLnkCLMNLKLGNFSYQKTPLKLGAL 339 578***********************************************************9996668******************** PP TruD 126 aGNkFeirvrdvaeeeeaakraeeileelkekggvPNyfGvQRFGsrrpvthlvGkaivkgdleeAveayvgkpfeeesedtreareav 214 +GN+F++++r+++ ++ +++++ +++l+e+g + Ny+G+QRFG++ t+ vG+ai+++ + e ++ ++ + +e+ + re sp|Q91VU7|PUS7_MOUSE 340 QGNHFTVVLRNITGTD---EQVQQAMQSLRETG-FINYYGMQRFGTTAVPTYQVGRAILQNSWTEVMDLILKPRSGAEKGYLVKCREEW 424 ***********95444...59**********99.*******************************99999999999************* PP TruD 215 aetgdleealeelpkslryEramlkrLae.kpkdykkAlealpknLqrlFvhAyqSylFNrvlseRlerglpldepveGDvvifaeerl 302 a+t+d ++al++lp + +E ++l+ L + k++ +A+ +p+n + +++h+yqSy++N+++s+R+e++ +pv+GD+v++ sp|Q91VU7|PUS7_MOUSE 425 AKTKDPASALKKLPVKRCVEGQLLRGLSRyGMKNIVSAFGIIPRNNRLMYIHSYQSYVWNTMVSRRIEEY-G-LRPVPGDLVLKGATP- 510 ****************************977899**********************************99.3.59*******999666. PP TruD 303 pdtdrlqlvteknveevkrliergrafvtaplvGtetelaegevgeierevleeegleledFklpklpelsskGtrRaillrve..... 386 ++e+ v++++ v++pl+G+++ ++ + +e re+l+ ++l+ ++ + ++ + s +G++R+i++r++ sp|Q91VU7|PUS7_MOUSE 511 ------TYIEEDDVDNYS------IHDVVMPLPGFDVIYPKHKISEAYREMLAADNLDIDNMRH-TIRDYSLSGAYRRIIIRPQsvswe 586 ......789999999888......45799*********************************94.578********************* PP TruD 387 .........................dlelsaeedeltleFsLpkGsYATvvlrEi 416 ++ + + + l+++FsLp+ +YAT+ +rE+ sp|Q91VU7|PUS7_MOUSE 587 vvayddpkiplfntdvdnlegkpppVFASEGKYRALKMDFSLPPSTYATMAIREV 641 *******************9999986666667777******************96 PP Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (416 nodes) Target sequences: 22289 (11757923 residues searched) Passed MSV filter: 809 (0.0362959); expected 445.8 (0.02) Passed bias filter: 383 (0.0171834); expected 445.8 (0.02) Passed Vit filter: 39 (0.00174974); expected 22.3 (0.001) Passed Fwd filter: 2 (8.97304e-05); expected 0.2 (1e-05) Initial search space (Z): 22289 [actual number of targets] Domain search space (domZ): 2 [number of targets reported over threshold] # CPU time: 0.32u 0.02s 00:00:00.34 Elapsed: 00:00:00.14 # Mc/sec: 34937.83 // [ok]