# 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/TruB_N.hmm.txt # target sequence database: proteomes/Xenopus_tropicalis.fasta # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: TruB_N [M=149] Accession: PF01509.17 Description: TruB family pseudouridylate synthase (N terminal domain) 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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 2.6e-48 164.6 0.0 4e-48 164.0 0.0 1.2 1 tr|F7E5E4|F7E5E4_XENTR TruB pseudouridine (psi) synthase fam 1.2e-21 78.0 0.0 1.9e-21 77.4 0.0 1.2 1 sp|Q5XGG2|TRUB2_XENTR Mitochondrial mRNA pseudouridine synt 1.3e-21 78.0 0.1 1.9e-18 67.7 0.1 3.5 1 tr|F6YJD1|F6YJD1_XENTR Uncharacterized protein OS=Xenopus tr Domain annotation for each sequence (and alignments): >> tr|F7E5E4|F7E5E4_XENTR TruB pseudouridine (psi) synthase family member 1 OS=Xenopus tropicalis OX=8364 GN=trub1 PE=3 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 164.0 0.0 4.9e-52 4e-48 3 149 .] 50 197 .. 47 197 .. 0.97 Alignments for each domain: == domain 1 score: 164.0 bits; conditional E-value: 4.9e-52 HTT-S-EEESS---TT-EEEEEEEEGGGGGGHHHCTTS-EEEEEEEEETEEETTSBTTS-EEE-.--TT--HHHHHHHHHHC-EEE- CS TruB_N 3 llkakkvGhtGtLDplatGvLvvavgeaTklleylleadKeYeatirlgaetdteDaegeileeekveklteekleevlkkftGeie 89 ++ k+Gh+GtLD a+GvLv+++g++Tk+l+ +l +K+Y+++ +lg++tdt Da+g+++ee+ ++++t+e+le +lk ftG+i+ tr|F7E5E4|F7E5E4_XENTR 50 RKQTLKIGHGGTLDSSASGVLVIGIGDGTKMLSTMLAGSKKYTTVGELGKATDTLDASGTVTEEKPYDHITKEDLEGALKLFTGNIM 136 55677***********************************************************99********************* PP ------------------------------.--EEEEEEEEEEEEEEEEEEEEEESTTTTH CS TruB_N 90 qvppmySAvkvnGkrlyelaregeeverkk.rkvtiyelelleveepevelevecskGtYi 149 qvpp +SA+k +Gkrl l r g eve k+ r+vt+y+l+l ++++p ++l+vec G+Y+ tr|F7E5E4|F7E5E4_XENTR 137 QVPPLFSALKRDGKRLSCLLRDGAEVEAKPaRPVTVYQLSLRDFQPPVFTLDVECGGGFYV 197 ***************************8877*****************************7 PP >> sp|Q5XGG2|TRUB2_XENTR Mitochondrial mRNA pseudouridine synthase Trub2 OS=Xenopus tropicalis OX=8364 GN=Trub2 PE=2 SV # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 77.4 0.0 2.3e-25 1.9e-21 7 147 .. 92 234 .. 87 236 .. 0.96 Alignments for each domain: == domain 1 score: 77.4 bits; conditional E-value: 2.3e-25 S-EEESS---TT-EEEEEEEEGGGGGGHHHCTTS-..EEEEEEEEETEEETTSBTTS-EEE-.--TT--HHHHHHHHHHC-EEE---- CS TruB_N 7 kkvGhtGtLDplatGvLvvavgeaTklleyllead..KeYeatirlgaetdteDaegeileeekveklteekleevlkkftGeieqvp 92 +vG ++ LD +++Gv v+++g++ kll+ + +++ + Y++ lg++t++ + g+++e+++++++t+ekle++l+ ++G+ ++ sp|Q5XGG2|TRUB2_XENTR 92 IRVGTGHRLDIQSSGVFVLGIGHGNKLLKDMYNSHftRDYTVRGMLGKATEDFTELGKTIEKTTYDHITREKLERILAVIQGTNQKAL 179 59****************************9987666*************************99************************ PP -----------------------------EEEEEEEEEEEEEEEEEEEEEESTTT CS TruB_N 93 pmySAvkvnGkrlyelaregeeverkkrkvtiyelelleveepevelevecskGt 147 +S ++ +++++y+la +g+ + k + i +++le+++pe++le++c + t sp|Q5XGG2|TRUB2_XENTR 180 ITHSHLDLQSQEAYDLAVQGKLRPMVKSPPIILGIRCLEFSPPEFTLEIQCMHET 234 ***************************************************9987 PP >> tr|F6YJD1|F6YJD1_XENTR Uncharacterized protein OS=Xenopus tropicalis OX=8364 GN=dkc1 PE=4 SV=1 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 67.7 0.1 2.4e-22 1.9e-18 1 149 [] 107 223 .. 107 223 .. 0.92 Alignments for each domain: == domain 1 score: 67.7 bits; conditional E-value: 2.4e-22 HHHTT-S-EEESS---TT-EEEEEEEEGGGGGGHHHCTTS-EEEEEEEEETEEETTSBTTS-EEE-.--TT--HHHHHHHHHHC-EE CS TruB_N 1 krllkakkvGhtGtLDplatGvLvvavgeaTklleylleadKeYeatirlgaetdteDaegeileeekveklteekleevlkkftGe 87 +r+l+ +k Gh+GtLDp++tG+L+v++++aT+l+++ ++a KeY+ +rl+ + ++e +l+++l+++tG+ tr|F6YJD1|F6YJD1_XENTR 107 RRILRSEKTGHSGTLDPKVTGCLIVCIDRATRLVKSQQSAGKEYVGIVRLHNALENE-----------------LQLSRALETLTGA 176 89************************************************9886544.................36899******** PP E---------------------------------EEEEEEEEEEEEEE..EEEEEEEESTTTTH CS TruB_N 88 ieqvppmySAvkvnGkrlyelaregeeverkkrkvtiyelelleveep..evelevecskGtYi 149 + q+pp ++Avk r+ r tiye +l+e++++ + v+c++GtYi tr|F6YJD1|F6YJD1_XENTR 177 LFQRPPLIAAVK-----------------RQLRVRTIYESKLIEYDPErrLGIFWVSCEAGTYI 223 ************.................8999999*******9998865678999******98 PP Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (149 nodes) Target sequences: 24182 (11782085 residues searched) Passed MSV filter: 758 (0.0313456); expected 483.6 (0.02) Passed bias filter: 543 (0.0224547); expected 483.6 (0.02) Passed Vit filter: 30 (0.00124059); expected 24.2 (0.001) Passed Fwd filter: 3 (0.000124059); expected 0.2 (1e-05) Initial search space (Z): 24182 [actual number of targets] Domain search space (domZ): 3 [number of targets reported over threshold] # CPU time: 0.16u 0.01s 00:00:00.17 Elapsed: 00:00:00.08 # Mc/sec: 21944.13 // [ok]