# 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/Thermococcus_kodakarensis.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
    ------- ------ -----    ------- ------ -----   ---- --  --------             -----------
      2e-26   90.3   0.2    1.1e-22   78.1   0.2    3.2  1  sp|Q5JJE8|TRUB_THEKO  Probable tRNA pseudouridine synthase B 


Domain annotation for each sequence (and alignments):
>> sp|Q5JJE8|TRUB_THEKO  Probable tRNA pseudouridine synthase B OS=Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   78.1   0.2   4.7e-26   1.1e-22       1     149 []      67     180 ..      67     180 .. 0.95

  Alignments for each domain:
  == domain 1  score: 78.1 bits;  conditional E-value: 4.7e-26
                           HHHTT-S-EEESS---TT-EEEEEEEEGGGGGGHHHCTTS-EEEEEEEEETEEETTSBTTS-EEE-.--TT--HHHHHHHHHHC-EEE- CS
                TruB_N   1 krllkakkvGhtGtLDplatGvLvvavgeaTklleylleadKeYeatirlgaetdteDaegeileeekveklteekleevlkkftGeie 89 
                           kr+l+ +k+Gh+GtLDp+++GvL+va+++aT++++ ll a KeY+a ++l+ +                    e+k+ +v+++f+Gei 
  sp|Q5JJE8|TRUB_THEKO  67 KRILNLNKAGHGGTLDPKVSGVLPVALERATRVVQALLPAGKEYVALMHLHGDVP------------------EDKILAVMREFQGEII 137
                           89***********************************************986544..................346899********** PP

                           --------------------------------EEEEEEEEEEEEEEEEEEEEEESTTTTH CS
                TruB_N  90 qvppmySAvkvnGkrlyelaregeeverkkrkvtiyelelleveepevelevecskGtYi 149
                           q+pp  SAvk                 r+ r+ ++y +++le+e ++v ++v +++GtYi
  sp|Q5JJE8|TRUB_THEKO 138 QRPPLRSAVK-----------------RRLRTRKVYYIDVLEIEGRDVLFRVGVEAGTYI 180
                           **********.................899*****************************8 PP



Internal pipeline statistics summary:
-------------------------------------
Query model(s):                              1  (149 nodes)
Target sequences:                         2301  (637680 residues searched)
Passed MSV filter:                        81  (0.0352021); expected 46.0 (0.02)
Passed bias filter:                       67  (0.0291178); expected 46.0 (0.02)
Passed Vit filter:                         5  (0.00217297); expected 2.3 (0.001)
Passed Fwd filter:                         1  (0.000434594); expected 0.0 (1e-05)
Initial search space (Z):               2301  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.02u 0.00s 00:00:00.02 Elapsed: 00:00:00.00
# Mc/sec: inf
//
[ok]