# 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/Pseudomonas_aeruginosa.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
------- ------ ----- ------- ------ ----- ---- -- -------- -----------
1.7e-58 196.8 0.0 9.2e-39 131.7 0.0 2.1 2 sp|Q9HY04|TRUD_PSEAE tRNA pseudouridine synthase D OS=Pseudo
Domain annotation for each sequence (and alignments):
>> sp|Q9HY04|TRUD_PSEAE tRNA pseudouridine synthase D OS=Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 10
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 131.7 0.0 1.7e-42 9.2e-39 17 171 .. 23 172 .. 16 178 .. 0.89
2 ! 63.2 0.0 1e-21 5.8e-18 255 416 .] 191 340 .. 175 340 .. 0.82
Alignments for each domain:
== domain 1 score: 131.7 bits; conditional E-value: 1.7e-42
TruD 17 rlrespeDFiVeEieefsgeeeakegeylvlrvekrnwdtldlvrelaralgisrkrvgfaGtKDkrAvTtQlisi..rkvepeelekl 103
l++ +eDF V+E+ e+ + ege+l+l+vekr+ +t +++r+l ra+g+++k+v++aG+KD++A+T+Q++s+ + +l ++
sp|Q9HY04|TRUD_PSEAE 23 VLKAVAEDFQVDEVLEIPLS---GEGEHLWLWVEKRGLNTEEAARRLGRAAGVQQKNVSYAGLKDRQALTRQWFSLhlPGKADPDLGAA 108
7999**********999553...67**************************************************83334444568888 PP
TruD 104 eikdvelevvgrarrklrlGdLaGNkFeirvrdv.aeeeeaakraeeileelkekggvPNyfGvQRFGs 171
e d++++ r++rkl+ G +a N F++r++++ a +++ +++ le++++ g vPNyfG+QRFG
sp|Q9HY04|TRUD_PSEAE 109 EGADLRILRCTRHSRKLQRGAHAANGFTLRLTGLrA----ERAPLDARLERIAADG-VPNYFGLQRFGH 172
99*******************************833....24689********988.***********6 PP
== domain 2 score: 63.2 bits; conditional E-value: 1e-21
TruD 255 lpknLqrlFvhAyqSylFNrvlseRlerglpldepveGDvvifaeerlpdtdrlqlvteknveevkrliergrafvtaplvGtetelae 343
++nL++ F++A +SylFNr+l+eR+++g +++++ GD++ f+++r ++ l+ e++ ++++ + + ++t+pl G + +
sp|Q9HY04|TRUD_PSEAE 191 ANRNLRSRFLSAGRSYLFNRLLAERVAEG-SWNRAAVGDLLAFTDSR-----SFFLAGEEECRDAR--LAALDLHPTGPLWGEGDPPSG 271
5799*************************.9*************888.....77777777777776..9999***********999877 PP
TruD 344 gevgeierevleeegleledFklpklpelsskGtrRaillrvedlelsa.eedeltleFsLpkGsYATvvlrEi 416
v + e ++ +g e++ + + + +++ +rR ++l+++ l+ + e d l+leF Lp G++ATvv+rEi
sp|Q9HY04|TRUD_PSEAE 272 AGVLDRELAL---AGREPALCRWLA--KAGMAHERRILRLPIQGLAWHYpEPDVLQLEFVLPAGCFATVVVREI 340
6655555544...455677666444..789999**********777665145669******************7 PP
Internal pipeline statistics summary:
-------------------------------------
Query model(s): 1 (416 nodes)
Target sequences: 5563 (1857172 residues searched)
Passed MSV filter: 137 (0.024627); expected 111.3 (0.02)
Passed bias filter: 108 (0.019414); expected 111.3 (0.02)
Passed Vit filter: 11 (0.00197735); expected 5.6 (0.001)
Passed Fwd filter: 1 (0.000179759); expected 0.1 (1e-05)
Initial search space (Z): 5563 [actual number of targets]
Domain search space (domZ): 1 [number of targets reported over threshold]
# CPU time: 0.07u 0.00s 00:00:00.07 Elapsed: 00:00:00.03
# Mc/sec: 25752.79
//
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