# 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/Amphimedon_queenslandica.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
------- ------ ----- ------- ------ ----- ---- -- -------- -----------
2.6e-76 258.4 0.0 2.1e-73 248.8 0.0 2.3 2 tr|A0A1X7VCF1|A0A1X7VCF1_AMPQE Uncharacterized protein OS=Amphi
2.1e-55 189.5 0.0 5.7e-51 174.9 0.0 3.0 2 tr|A0A1X7U7D7|A0A1X7U7D7_AMPQE Uncharacterized protein OS=Amphi
Domain annotation for each sequence (and alignments):
>> tr|A0A1X7VCF1|A0A1X7VCF1_AMPQE Uncharacterized protein OS=Amphimedon queenslandica OX=400682 PE=4 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 7.1 0.0 0.00023 5 2 33 .. 49 81 .. 48 94 .. 0.79
2 ! 248.8 0.0 9.6e-78 2.1e-73 38 416 .] 182 584 .. 172 584 .. 0.90
Alignments for each domain:
== domain 1 score: 7.1 bits; conditional E-value: 0.00023
TruD 2 lgielyvtdt.egigGrlrespeDFiVeEieef 33
+gi yv ++ i l++++ DFiV+Ei+ +
tr|A0A1X7VCF1|A0A1X7VCF1_AMPQE 49 VGITEYVNKNgAQIFAILKQRYSDFIVNEISLA 81
6788888754268999**************654 PP
== domain 2 score: 248.8 bits; conditional E-value: 9.6e-78
TruD 38 eakegeylvlrvekrnwdtldlvrelaralgisrkrvgfaGtKDkrAvTtQlisirkvepeelekl..eikdvelevvg 114
++++g+y+ + + k+n+d+++++ +l++ l+++ + +++aGtKDkrA+T+Ql++ ++v p++l+++ + ++++ ++
tr|A0A1X7VCF1|A0A1X7VCF1_AMPQE 182 SKDKGDYIKFVLYKENRDSMQVITTLSKLLRVKCSVFQYAGTKDKRAITSQLVTAYRVLPSRLASIngANTNIKVGNIE 260
6789***********************************************************99954448888999** PP
TruD 115 rarrklrlGdLaGNkFeirvrdv.aeee....eaakraeeileelkekggvPNyfGvQRFGsrrpvthlvGkaivkgdl 188
+ +l+lGd +GN+F+i++rdv + ++++++l +lk+kg + NyfG+QRFG+ th +Gka+++ ++
tr|A0A1X7VCF1|A0A1X7VCF1_AMPQE 261 YCKTPLKLGDTKGNHFTIILRDVkVPVDregeIGHHHVNSLLLSLKDKG-FINYFGMQRFGTSTIPTHAIGKALLHSEW 338
**********************86433355643367999********98.***************************** PP
TruD 189 eeAveayvgkpfeeesedtreareavaetgdleealeelpkslry..EramlkrLae.kpkdykkAlealpknLqrlFv 264
+eAv+ ++ kp e esed + +re++ t d++e l+++p + r E ++l+ + + +++ +Al+ lp+n + ++v
tr|A0A1X7VCF1|A0A1X7VCF1_AMPQE 339 KEAVD-LILKPREGESEDFQVVREYYRSTSDINETLKLFPPHKRNstEYQLLRGMEKhGTTNLLAALSFLPRNARLMYV 416
****8.5779*****************************987654449********94456799*************** PP
TruD 265 hAyqSylFNrvlseRlerglpldepveGDvvifaeerlpdtdrlqlvteknveevkrliergrafvtaplvGtetelae 343
h+yqSy++N+++s R++++ pv+GD+++++e + + ++te+n ++++ + v++pl+G++++ +
tr|A0A1X7VCF1|A0A1X7VCF1_AMPQE 417 HSYQSYVWNQMVSFRFREYG--LVPVPGDLALQSET----VNGVLAITEENCHQYT------IFDVVLPLPGYSVQYPT 483
*****************994..47*******99954....4888889998888887......6789************* PP
TruD 344 gevgeierevleeegleledFklpklpelsskGtrRaillrve.............................dlelsae 393
+vge +++l++++l+ ++ k +++++++ G++R+i+ +++ +l +s
tr|A0A1X7VCF1|A0A1X7VCF1_AMPQE 484 NNVGEQYHRILANDNLTVDKLK-HRVKDFALPGSYRHIMAKPDnlewkllcyddvtvplhqsdldiledksfSLGTSGA 561
**********************.4578****************************************987654455566 PP
TruD 394 edeltleFsLpkGsYATvvlrEi 416
++ l+l+FsLp+ +YAT+ lrE+
tr|A0A1X7VCF1|A0A1X7VCF1_AMPQE 562 KRALKLSFSLPSSTYATMALREV 584
667*******************6 PP
>> tr|A0A1X7U7D7|A0A1X7U7D7_AMPQE Uncharacterized protein OS=Amphimedon queenslandica OX=400682 PE=4 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 9.6 0.0 4e-05 0.87 3 33 .. 42 72 .. 40 84 .. 0.85
2 ! 174.9 0.0 2.6e-55 5.7e-51 42 416 .] 397 811 .. 385 811 .. 0.85
Alignments for each domain:
== domain 1 score: 9.6 bits; conditional E-value: 4e-05
TruD 3 gielyvtdtegigGrlrespeDFiVeEieef 33
g+e+ + + e + G l++ p DFiV+Ei +
tr|A0A1X7U7D7|A0A1X7U7D7_AMPQE 42 GMECAIHQGEKLKGVLKTIPADFIVTEIDKN 72
899999**********************543 PP
== domain 2 score: 174.9 bits; conditional E-value: 2.6e-55
TruD 42 geylvlrvekrnwdtldlvrelaralgisrkrvgfaGtKDkrAvTtQlisirkvepeelekleikdvelevvgrarrkl 120
+ ++ + ++k+n +t + +la+ l+++ +r+ faG KDk+A+T+Q ++ ++++ ++l+ ++i+++el ++ +l
tr|A0A1X7U7D7|A0A1X7U7D7_AMPQE 397 NYFTSFSLKKENFETFLTMTKLADMLSVNPSRFAFAGSKDKKAITYQKMTAKNISMAKLAVVNIPGIELGSFEYVPCHL 475
4458899************************************************************************ PP
TruD 121 rlGdLaGNkFeirvrdv.aeee....eaakraeeileelkekggvPNyfGvQRFGsrrpvth.....lvGkaivkgdle 189
+lG+++GN+F+irvr++ + + ++++ +e ++l+ekg + NyfG+QRFG+ h lvG +++ +d
tr|A0A1X7U7D7|A0A1X7U7D7_AMPQE 476 NLGEHQGNHFQIRVRNLeTITTngkdSLEDIIEVGCKSLEEKG-FINYFGIQRFGRL-IDDHpligpLVGYYMILDDPL 552
****************854444333333344444456777776.***********85.33333333389********** PP
TruD 190 eAveayvgkpfeeesedtreareavaetgdleealeelpkslryEramlkrLae...kpkdykkAlealpknLqrlFvh 265
+A++++++ + + + +ea+e++++tgd++ ++++p+ E ++l++L + ++ +k+l +lp++ +rl+++
tr|A0A1X7U7D7|A0A1X7U7D7_AMPQE 553 NAIKVMFSPDL-TINLEAKEAKEYFTRTGDIDGTIHRMPEI-PRELMVLRNLSKygmSKFGCQKSLLSLPHQSRRLYIS 629
*****998776.5566669********************86.88**********77666679***************** PP
TruD 266 AyqSylFNrvlseRlerglpldepveGDvvifaeerlpdtdrlqlvteknveevkrliergrafvtaplvGtetelaeg 344
+ S l+N++ s R++++ +epveGD+v+ a+++ +q++t++++ + + ++ +++p+ G ++ l++
tr|A0A1X7U7D7|A0A1X7U7D7_AMPQE 630 SLTSLLWNQMASYRIREY--GTEPVEGDLVLIANQT------VQAITSEHISSRQYSLK----DIVLPVCGHKSVLPNN 696
****************99..57***********777......77777777776664444....4789************ PP
TruD 345 evgeierevleeegleledFklpklpelsskGtrRaillrve..................................... 386
+vg+ +e+l+ g++l +F+ + + G++R+++ ++
tr|A0A1X7U7D7|A0A1X7U7D7_AMPQE 697 RVGDRLKELLAALGISLLSFRSYR-YTNHLWGAYRKLISYPHdlrwrltkappftasippapgaaaalnasggpleeag 774
*********************777.577899*****9988887888888999999999999999999999999999888 PP
TruD 387 .......dlelsaeede..ltleFsLpkGsYATvvlrEi 416
d + e++ l+leF L++G+Y T+++ Ei
tr|A0A1X7U7D7|A0A1X7U7D7_AMPQE 775 sggppqsD--VPPEDSMpcLELEFDLDPGTYVTTMMNEI 811
88888443..43433334588899999999999988885 PP
Internal pipeline statistics summary:
-------------------------------------
Query model(s): 1 (416 nodes)
Target sequences: 43435 (14716620 residues searched)
Passed MSV filter: 1565 (0.0360309); expected 868.7 (0.02)
Passed bias filter: 858 (0.0197537); expected 868.7 (0.02)
Passed Vit filter: 55 (0.00126626); expected 43.4 (0.001)
Passed Fwd filter: 2 (4.60458e-05); expected 0.4 (1e-05)
Initial search space (Z): 43435 [actual number of targets]
Domain search space (domZ): 2 [number of targets reported over threshold]
# CPU time: 0.40u 0.01s 00:00:00.41 Elapsed: 00:00:00.13
# Mc/sec: 47093.18
//
[ok]