# 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/Pan_troglodytes.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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 5.1e-74 249.9 0.0 6.3e-70 236.4 0.0 2.1 2 tr|H2R7C1|H2R7C1_PANTR Pseudouridylate synthase 7 like 8.9e-74 249.1 0.0 2.3e-68 231.3 0.0 2.3 2 tr|A0A2I3SFI8|A0A2I3SFI8_PANTR Uncharacterized protein OS=Pan t Domain annotation for each sequence (and alignments): >> tr|H2R7C1|H2R7C1_PANTR Pseudouridylate synthase 7 like OS=Pan troglodytes OX=9598 GN=PUS7L PE=4 SV=2 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 11.3 0.0 1.2e-05 0.14 6 36 .. 153 182 .. 149 213 .. 0.74 2 ! 236.4 0.0 5.5e-74 6.3e-70 40 416 .] 434 834 .. 423 834 .. 0.86 Alignments for each domain: == domain 1 score: 11.3 bits; conditional E-value: 1.2e-05 TruD 6 lyvtdtegigGrlrespeDFiVeEieefsge 36 +++ d+ g+ G++++sp DFiV Ei e g+ tr|H2R7C1|H2R7C1_PANTR 153 CFFNDHVGFHGTIKSSPSDFIVIEIDEQ-GQ 182 6778999******************655.22 PP == domain 2 score: 236.4 bits; conditional E-value: 5.5e-74 TruD 40 kegey..lvlrvekrnwdtldlvrelaralgisrkrvgfaGtKDkrAvTtQlisirkvepeelekl..ei..kdvelevvgrarrkl 120 +eg++ + ++++k+n ++ +++ la +lg+ +++++aG+KDk+A+T+Q + +rkv+pe+l+++ ei k++++ ++ + + +l tr|H2R7C1|H2R7C1_PANTR 434 QEGKViyTAFTLRKENLEMFEAIGFLAIKLGVIPSDFSYAGLKDKKAITYQAMVVRKVTPERLKNIekEIekKRMNVFNIRSVDDSL 520 45665448899*****************************************************9988444488999999******* PP TruD 121 rlGdLaGNkFeirvrdv.aeee...eaakraeeileelkekggvPNyfGvQRFGsrrpv.thlvGkaivkgdleeAveayvgkpfee 202 rlG+L+GN+F+i++r++ ++ + ++++r+ e +e++k+kg + Ny+G QRFG+ r v t +G a++k+++ +A++ +++ tr|H2R7C1|H2R7C1_PANTR 521 RLGQLKGNHFDIVIRNLkKQINdsaNLRERIMEAIENVKKKG-FVNYYGPQRFGKGRKVhTDQIGLALLKNEMMKAIKLFLTPED-- 604 ****************85544444455566666666777766.************8875489******************98765.. PP TruD 203 esedtreareavaetgdleealeelpkslryEramlkrLae...kpkdykkAlealpknLqrlFvhAyqSylFNrvlseRlerglpl 286 ++ +++a++++ +t+d++ l+++p+ Era+l++L + +++ +A +lp+ ++ ++vhAy S ++N+++s Rle + tr|H2R7C1|H2R7C1_PANTR 605 LDDPVNRAKKYFLQTEDAKGTLSLMPEFKVRERALLEALHRfgmTEEGCIQAWFSLPHSMRIFYVHAYTSKIWNEAVSYRLETY--G 689 45556799*********************************88888889999999***************************99..5 PP TruD 287 depveGDvvifaeer...lpdtdrlqlvteknveevkrliergrafvtaplvGtetelaegevgeierevleeegleledFklpklp 370 ++v+GD+v+ +e+ + +++++lvte++ + +v++p++G++ + ++ +vg+ +++l+++gl++ Fk+p+ tr|H2R7C1|H2R7C1_PANTR 690 ARVVQGDLVCLDEDIddeNFPNSKIHLVTEEEGSANMYA----IHQVVLPILGYNIQYPKNKVGQWYHDILSRDGLQTCRFKVPT-L 771 7**********9877666666777888877665544433....34799************************************8.9 PP TruD 371 elsskGtrRaillrve.................dlelsaeede...ltleFsLpkGsYATvvlrEi 416 +l++ G +R+il +++ ++ + + l+++F L+ +YATv l+Ei tr|H2R7C1|H2R7C1_PANTR 772 KLNVPGCYRQILKHPRnlsyqlmedhdidvktkGSHIGE---TalsLLISFDLDASCYATVCLKEI 834 *************9999999999*997766443223333...145599****************97 PP >> tr|A0A2I3SFI8|A0A2I3SFI8_PANTR Uncharacterized protein OS=Pan troglodytes OX=9598 GN=PUS7 PE=4 SV=1 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 15.6 0.0 6.1e-07 0.007 2 32 .. 114 144 .. 113 194 .. 0.87 2 ! 231.3 0.0 2e-72 2.3e-68 39 416 .] 258 648 .. 245 648 .. 0.93 Alignments for each domain: == domain 1 score: 15.6 bits; conditional E-value: 6.1e-07 TruD 2 lgielyvtdtegigGrlrespeDFiVeEiee 32 +gi +v++++g+ G l+e++ DF+V+Ei + tr|A0A2I3SFI8|A0A2I3SFI8_PANTR 114 VGITKFVSSHQGFSGILKERYSDFVVHEIGK 144 89***************************54 PP == domain 2 score: 231.3 bits; conditional E-value: 2e-72 TruD 39 akegeylvlrvekrnwdtldlvrelaralgisrkrvgfaGtKDkrAvTtQlisirkvepeelekl..eikdvelevvgr 115 +++g+y+ + + k+n dt+d+++ l++ l+++ + ++++GtKDkrA+T+Q i++ k+++++l++l + + +l ++ tr|A0A2I3SFI8|A0A2I3SFI8_PANTR 258 KSRGSYCHFVLYKENKDTMDAINVLSKYLRVKPNIFSYMGTKDKRAITVQEIAVLKITAQRLAHLnkCLMNFKLGNFSY 336 678***********************************************************9996668********** PP TruD 116 arrklrlGdLaGNkFeirvrdvaeeeeaakraeeileelkekggvPNyfGvQRFGsrrpvthlvGkaivkgdleeAvea 194 ++++l+lG+L+GN+F++++r+++ ++ +++++ +++lke g + Ny+G+QRFG++ t+ vG+ai+++ + e ++ tr|A0A2I3SFI8|A0A2I3SFI8_PANTR 337 QKNPLKLGELQGNHFTVVLRNITGTD---DQVQQAMNSLKEIG-FINYYGMQRFGTTAVPTYQVGRAILQNSWTEVMDL 411 *********************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|A0A2I3SFI8|A0A2I3SFI8_PANTR 412 ILKPRSGAEKGYLVKCREEWAKTKDPTAALRKLPVKRCVEGQLLRGLSKyGMKNIVSAFGIIPRNNRLMYIHSYQSYVW 490 9999999******************************************77899************************* PP TruD 273 NrvlseRlerglpldepveGDvvifaeerlpdtdrlqlvteknveevkrliergrafvtaplvGtetelaegevgeier 351 N+++s+R+e++ +pv+GD+v++ + ++e+ v++++ v++pl+G+++ ++ + +e r tr|A0A2I3SFI8|A0A2I3SFI8_PANTR 491 NNMVSKRIEDY-G-LKPVPGDLVLKGATA-------TYIEEDDVNNYS------IHDVVMPLPGFDVIYPKHKIQEAYR 554 *********99.4.48*******999554.......667776666666......45799******************** PP TruD 352 evleeegleledFklpklpelsskGtrRaillrve..............................dlelsaeedeltle 400 e+l ++l+ ++ + +k+ + s +G++R+i++r++ ++ + + + l+++ tr|A0A2I3SFI8|A0A2I3SFI8_PANTR 555 EMLTADNLDIDNMR-HKIRDYSLSGAYRKIIIRPQnvswevvayddpkiplfntdvdnlegktppVFASEGKYRALKMD 632 *************9.5689****************************************9999875666666777**** PP TruD 401 FsLpkGsYATvvlrEi 416 FsLp+ +YAT+ +rE+ tr|A0A2I3SFI8|A0A2I3SFI8_PANTR 633 FSLPPSTYATMAIREV 648 **************96 PP Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (416 nodes) Target sequences: 23008 (11942255 residues searched) Passed MSV filter: 838 (0.0364221); expected 460.2 (0.02) Passed bias filter: 389 (0.0169072); expected 460.2 (0.02) Passed Vit filter: 39 (0.00169506); expected 23.0 (0.001) Passed Fwd filter: 2 (8.69263e-05); expected 0.2 (1e-05) Initial search space (Z): 23008 [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: 00:00:00.12 # Mc/sec: 41399.82 // [ok]