# 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/Petromyzon_marinus.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
------- ------ ----- ------- ------ ----- ---- -- -------- -----------
4.3e-54 183.5 0.0 1e-47 162.5 0.0 2.9 2 tr|S4RNV6|S4RNV6_PETMA Pseudouridylate synthase 7, like OS=P
Domain annotation for each sequence (and alignments):
>> tr|S4RNV6|S4RNV6_PETMA Pseudouridylate synthase 7, like OS=Petromyzon marinus OX=7757 PE=4 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 17.2 0.0 9.8e-08 0.0013 5 38 .. 15 48 .. 12 58 .. 0.82
2 ! 162.5 0.0 7.5e-52 1e-47 39 415 .. 317 722 .. 304 723 .. 0.85
Alignments for each domain:
== domain 1 score: 17.2 bits; conditional E-value: 9.8e-08
TruD 5 elyvtdtegigGrlrespeDFiVeEieefsgeee 38
+y+ ++g+ G +++speDFiV Ei e s++++
tr|S4RNV6|S4RNV6_PETMA 15 YYYIGRHPGFCGAIKQSPEDFIVVEIDEHSNRAD 48
58999*********************77665433 PP
== domain 2 score: 162.5 bits; conditional E-value: 7.5e-52
TruD 39 akegeylvlrvekrnwdtldlvrelaralgisrkrvgfaGtKDkrAvTtQlisirkvepeelekl....eikdvelevvgrarrklr 121
+ g y+v++++k+n++tl +++ la++lg+ +++++aGtKDk+AvT Q + ++kv+p++l+++ + +++++ + ra r+lr
tr|S4RNV6|S4RNV6_PETMA 317 IDGGIYTVFTLQKTNMETLGAISMLASELGVLPSDFSYAGTKDKKAVTFQRMVVQKVTPSRLQEAaarlQARGLRVAAAKRAARPLR 403
57799********************************************************9988776688**************** PP
TruD 122 lGdLaGNkFeirvrdv.aeee.......eaakraeeileelkekggvPNyfGvQRFGsrrpv.thlvGkaivkgdleeAveayvgkp 199
lG+L+GN+F++++r+v a + ++++e+ ++ + e+g + Ny+G QRFG+ +++ t ++Gk+++kg+l++A++ +++
tr|S4RNV6|S4RNV6_PETMA 404 LGELWGNHFRVTLRGVgAPTAtpqpddaAVRDCVERSVRGVVEHG-FINYYGPQRFGASQSIkTDEIGKHLLKGELDKALKLFFTPE 489
***************965444566665544556666666666665.************9987489****************999866 PP
TruD 200 feeesedtreareavaetgdleealeelpkslryEramlkrLae...kpkdykkAlealpknLqrlFvhAyqSylFNrvlseRlerg 283
+ ++ +++a++++ et ++++ ++l + r+ +k L ++ + ++++++ l v ++ ++ s ++e+
tr|S4RNV6|S4RNV6_PETMA 490 A--GDDAVNQAKRLFLETVNIKNQCDLLTTFGTRRRTAIKLLWAfsgLAEALPHCWHDVSSESCLLCVIVTVNIIYPEISSLKIESS 574
5..5567778999999**************9999999999999966566677777888****9*********************986 PP
TruD 284 ...lpldepveGDvvifaeerlpdtdrlqlvteknveevkrliergrafvtaplvGtetelaegevgeierevleeegleledFklp 367
+++ + ve + ++ + ++++++vte++ ++ i+ +v++p++G++++ ++ e+g+ r+ l+++gl + F++
tr|S4RNV6|S4RNV6_PETMA 575 ggiVQWSQLVESSSSVVQS--ICLSSKVHVVTEEEEANEVYTID----QVVLPMPGSSVRYPDNEAGAAYRATLRRDGLADSAFRVA 655
2335677777776666664..45888889998866554444443....589**********************************99 PP
TruD 368 klpelsskGtrRaillrve....................dlelsaeedeltleFsLpkGsYATvvlrE 415
+ ++s G++R++l r++ ++ + ++++l+++F Lp+ +YATv l E
tr|S4RNV6|S4RNV6_PETMA 656 E-LRVSLPGAYRRLLARPAnvslawterglpgattsgseETFAVGSSSSLVITFDLPSSCYATVCLGE 722
9.89**************99************99998853333334556***************9977 PP
Internal pipeline statistics summary:
-------------------------------------
Query model(s): 1 (416 nodes)
Target sequences: 13539 (5048892 residues searched)
Passed MSV filter: 370 (0.0273285); expected 270.8 (0.02)
Passed bias filter: 195 (0.0144028); expected 270.8 (0.02)
Passed Vit filter: 17 (0.00125563); expected 13.5 (0.001)
Passed Fwd filter: 1 (7.38607e-05); expected 0.1 (1e-05)
Initial search space (Z): 13539 [actual number of targets]
Domain search space (domZ): 1 [number of targets reported over threshold]
# CPU time: 0.15u 0.01s 00:00:00.16 Elapsed: 00:00:00.05
# Mc/sec: 42006.78
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