# 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/Natronomonas_moolapensis.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
    ------- ------ -----    ------- ------ -----   ---- --  --------               -----------
   9.1e-152  503.0   0.0     1e-151  502.8   0.0    1.0  1  tr|M1XPT8|M1XPT8_NATM8  Probable tRNA pseudouridine synthase 


Domain annotation for each sequence (and alignments):
>> tr|M1XPT8|M1XPT8_NATM8  Probable tRNA pseudouridine synthase D OS=Natronomonas moolapensis (strain DSM 18674 / JCM 14
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  502.8   0.0  3.8e-155    1e-151       2     416 .]      11     436 ..      10     436 .. 0.97

  Alignments for each domain:
  == domain 1  score: 502.8 bits;  conditional E-value: 3.8e-155
                    TruD   2 lgielyvtdtegigGrlrespeDFiVeEieef..sge.eeakegey..lvlrvekrnwdtldlvrelaralgisrkrvgfaGtKDkr 83 
                             +gi++yv++t+g+gG+lr++peDF+VeE e+f  + + ++a+ g+y  lv+r+++r+wdt+d++++l+++lg+sr+rv++aGtKDk+
  tr|M1XPT8|M1XPT8_NATM8  11 VGIKYYVSETDGTGGHLRDRPEDFRVEEREAFgaDLRgVDADVGSYphLVFRATLRGWDTNDFASTLSKRLGVSRERVSWAGTKDKH 97 
                             8*******************************8766667999999999*************************************** PP

                    TruD  84 AvTtQlisirkvepeelekleikdvelevvgrarrklrlGdLaGNkFeirvrdvaeeeeaakraeeileelkekg............ 158
                             AvTtQl+si++ + +el+  +++++++e +gra+r++ +GdLaGN+Fe++vr+ ae++e   +a+ i+ el ++g            
  tr|M1XPT8|M1XPT8_NATM8  98 AVTTQLFSIKHPD-DELP--SVDGATIEPLGRAGRPVLFGDLAGNDFEVVVRG-AERPE---NADPIAVELGRFGadgrsadedgdg 177
                             **********988.5788..89*******************************.66676...9***********9************ PP

                    TruD 159 ..gvPNyfGvQRFGsrrpvthlvGkaivkgdleeAveayvgkpfeeesedtreareavaetgdleealeelpkslryEramlkrLae 243
                               +vPNyfG+QRFGs+rp+th vG  +v+g++e+A+ +yv++++++e+++tr+ar+ + e++++e+a e lp  lr+Era+  rLae
  tr|M1XPT8|M1XPT8_NATM8 178 avAVPNYFGQQRFGSMRPITHRVGLDVVRGEWESAAVRYVCESSDREPDRTRTARQRLDEEREWERANEVLPGGLRFERAIAGRLAE 264
                             *99************************************************************************************ PP

                    TruD 244 ...kpkdykkAlealpknLqrlFvhAyqSylFNrvlseRlerglpldepveGDvvifaeer.lpdtdrlqlvteknveevkrlierg 326
                                 p dy++Ale+lp+nLq++F +A+qSy+FNrvlseRl+rglp+ +p  GDvv+fa+ + lpd+dr+q+v+++++ +++r++erg
  tr|M1XPT8|M1XPT8_NATM8 265 gadGPADYREALETLPRNLQSMFTNAAQSYVFNRVLSERLRRGLPFGTPAVGDVVCFADGDgLPDPDRTQAVEAEQLGTIRRHCERG 351
                             99999*****************************************************9889************************* PP

                    TruD 327 rafvtaplvGtetelaegevgeierevleeegleledFklpklpelsskGtrRaillrvedlelsaeedeltleFsLpkGsYATvvl 413
                             rafvtaplvGtet+++ ge+gei revl++ +l++ dF+ p+   ++s+GtrRa+l+r++    ++e+d+ltl+FsLpkGsYATv+ 
  tr|M1XPT8|M1XPT8_NATM8 352 RAFVTAPLVGTETDFGFGEPGEIVREVLDDLDLQRGDFDRPG--AFGSEGTRRAVLFRTDL---EHESDPLTLRFSLPKGSYATVLA 433
                             ******************************************..***************95...346899***************** PP

                    TruD 414 rEi 416
                             rE+
  tr|M1XPT8|M1XPT8_NATM8 434 REF 436
                             **7 PP



Internal pipeline statistics summary:
-------------------------------------
Query model(s):                              1  (416 nodes)
Target sequences:                         2723  (809592 residues searched)
Passed MSV filter:                        76  (0.0279104); expected 54.5 (0.02)
Passed bias filter:                       51  (0.0187293); expected 54.5 (0.02)
Passed Vit filter:                         3  (0.00110173); expected 2.7 (0.001)
Passed Fwd filter:                         1  (0.000367242); expected 0.0 (1e-05)
Initial search space (Z):               2723  [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: 00:00:00.02
# Mc/sec: 16839.51
//
[ok]