# 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/Trichomonas_vaginalis.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
------- ------ ----- ------- ------ ----- ---- -- -------- -----------
1.3e-67 230.0 2.3 1.4e-62 213.4 0.9 3.2 2 tr|A2EJH2|A2EJH2_TRIVA Uncharacterized protein OS=Trichomona
2.5e-66 225.7 8.4 6.5e-62 211.1 7.0 3.5 2 tr|A2FUM2|A2FUM2_TRIVA Uncharacterized protein OS=Trichomona
Domain annotation for each sequence (and alignments):
>> tr|A2EJH2|A2EJH2_TRIVA Uncharacterized protein OS=Trichomonas vaginalis OX=5722 GN=TVAG_050450 PE=4 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 13.3 0.0 3e-06 0.074 2 32 .. 9 39 .. 8 52 .. 0.86
2 ! 213.4 0.9 5.5e-67 1.4e-62 44 416 .] 115 501 .. 94 501 .. 0.85
Alignments for each domain:
== domain 1 score: 13.3 bits; conditional E-value: 3e-06
TruD 2 lgielyvtdtegigGrlrespeDFiVeEiee 32
+gi y d g++G +++++ DF V+Ei +
tr|A2EJH2|A2EJH2_TRIVA 9 VGITEYNNDFAGMNGIIKHRYSDFHVHEIDQ 39
899**************************43 PP
== domain 2 score: 213.4 bits; conditional E-value: 5.5e-67
TruD 44 y.lvlrvekrnwdtldlvrelaralgisrkrvgfaGtKDkrAvTtQlisirkvepeelekl.ei.kdvelevvgrarrklrlGdLaG 127
+ + + + k+n ++++ +++l+++l+i+++++g+aG KDkrA+TtQ+++ir+v ++le+l ++ ++++ + +a ++++lGdL G
tr|A2EJH2|A2EJH2_TRIVA 115 MvISMVICKENTNQQESISKLSKKLNIKKNQIGIAGNKDKRAITTQVMTIRDVGINSLEQLaNLtDKIKCGMFYQAMNPVNLGDLNG 201
33668899********************************************999999998744599******************** PP
TruD 128 NkFeirvrdv.aeee......eaakraeeileelkekggvPNyfGvQRFGsrrpvthlvGkaivkgdleeAveayvgkpfeeesedt 207
N+F++++r++ + e+++ ++ +e+l+ekg + NyfG+QRFG++ + th++G ai+++++++ ++ ++ p e ++ed+
tr|A2EJH2|A2EJH2_TRIVA 202 NHFTLVLRNLtI--PgcetveELREGLKIRMEALSEKG-FINYFGMQRFGTTAMSTHTIGIAILRKEWQKVID-MIMSPIEGNQEDV 284
*********743..334455567777777888899887.******************************9765.7889********* PP
TruD 208 reareavaetgdleealeelpkslryEramlkrLaekpkdykkAlealpknLqrlFvhAyqSylFNrvlseRlerglpldepveGDv 294
++a++++++t+d+e+a+ ++pk+ +E+++l + ++ k+ + +++++++ + l+ hAyqSy++N++ s+R++r ++v+GD+
tr|A2EJH2|A2EJH2_TRIVA 285 NKAKTIYMKTHDAEKAYALMPKHAATEKSILAAAKKGIKNPFELFKVIDRRQRLLYCHAYQSYVWNHCASARVKRS-G-FKVVPGDI 369
**************************************************************************99.4.48****** PP
TruD 295 vifaeerlpdtdrlqlvteknveevkrliergrafvtaplvGtetelaegevgeierevleeegleledFklpklpelsskGtrRai 381
v ++++ +v++ n +++ +++++ +p G+ + +e+l+++g+e+++F+++k el+ G++R++
tr|A2EJH2|A2EJH2_TRIVA 370 VEENRNY-------VTVKAGNESKYS----PFDIVIPLPADGC--------ISPDAEELLKKDGIEQSMFSAQK--ELGLVGDYRKL 435
*777444.......555555544444....5555555544444........3344579***************9..*********** PP
TruD 382 llrve................................dlelsaeede.......ltleFsLpkGsYATvvlrEi 416
+ +++ + +++eFsL + +YAT+ +rE+
tr|A2EJH2|A2EJH2_TRIVA 436 FAQPTdisfdiiehddndaelidsdidklegrtnkgnH--------VpggkfksAVVEFSLGPSQYATMCMREL 501
***999******************99998777654321........1222334599****************95 PP
>> tr|A2FUM2|A2FUM2_TRIVA Uncharacterized protein OS=Trichomonas vaginalis OX=5722 GN=TVAG_350960 PE=4 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 9.8 0.0 3.4e-05 0.85 2 34 .. 10 39 .. 9 51 .. 0.84
2 ! 211.1 7.0 2.6e-66 6.5e-62 43 416 .] 115 488 .. 94 488 .. 0.80
Alignments for each domain:
== domain 1 score: 9.8 bits; conditional E-value: 3.4e-05
TruD 2 lgielyvtdtegigGrlrespeDFiVeEieefs 34
+g ++ +++g++G +++++ DF V+Ei +
tr|A2FUM2|A2FUM2_TRIVA 10 VGCTRFANESSGFDGIIKHKYSDFHVHEI---D 39
78889999*********************...3 PP
== domain 2 score: 211.1 bits; conditional E-value: 2.6e-66
TruD 43 eylvlrvekrnwdtldlvrelaralgisrkrvgfaGtKDkrAvTtQlisirkvepeelekl..eikdvelevvgrarrklrlGdLaG 127
e + +++ k+n+++++++ ++ +l+i ++++gfaG KDkrA TtQ++++r+v +++ k ++++v+ ++ + +l+lGdL G
tr|A2FUM2|A2FUM2_TRIVA 115 EITRFTLFKENVNQQEAMAKILARLNITQNQLGFAGNKDKRAATTQYVTVRDVPLQKVVKSlsNLDKVTCGEFCHVTSPLKLGDLSG 201
44778899********************************************999997766699*********************** PP
TruD 128 NkFeirvrdv.aeeeeaakraeeileelkekggvPNyfGvQRFGsrrpvthlvGkaivkgdleeAveayvgkpfeeesedtrearea 213
N+F+i +r++ +k+++e ++++++ g + Ny+G+QRFG+ + th++G i++g++++Av+a + +p e e+++++ea+ a
tr|A2FUM2|A2FUM2_TRIVA 202 NRFTIAIRGLkI--G--QKELDEKIKSIQKSG-FINYYGMQRFGTGETATHKIGILIIQGKYDAAVDA-IMNPVEGEEQRIHEAKIA 282
*********833..2..468999999999988.*********************************98.679*************** PP
TruD 214 vaetgdleealeelpkslryEramlkrLaekpkdykkAlealpknLqrlFvhAyqSylFNrvlseRlerglpldepveGDvvifaee 300
+ ++ dl++a+e+lp+s Er+++++ +++k+y + ++a++++ ++++vhAyqSy++N++ s+R e+g+ +++e D+v ++ +
tr|A2FUM2|A2FUM2_TRIVA 283 F-QRSDLDKAMELLPHSAVAERKIVEAAHDTNKKY-EMFKAVDRRQRMMYVHAYQSYIWNKCASKRAEKGF---KVLETDTVEYKGK 364
*.9************************99966666.56********************************5...689*****99955 PP
TruD 301 rlpdtdrlqlvteknveevkrliergrafvtaplvGtetelaegevgeierevleeegleledFklpklpelsskGtrRaillrve. 386
+++++ +++++ + ++ g+ ++ +++ ++g + e+ r++ +e+g+++e k+ ++ + + +++
tr|A2FUM2|A2FUM2_TRIVA 365 I-KEPTKKSVLQDVVIPLCE-----GDTKDKMI---LDMMKEDGVTTEMFRKIAKEYGINTEYRKFMAFAKDIEYSIVKHDN---Pd 439
4.455555555444444444.....33322222...2566678888888888888888877644433322211111121111...02 PP
TruD 387 ...................dlelsaeedeltleFsLpkGsYATvvlrEi 416
++ +++++++++FsL +G YAT++lrE+
tr|A2FUM2|A2FUM2_TRIVA 440 vqlinndvellnnpklsrvAKNTGNKNSSAVISFSLGSGEYATMFLREL 488
22334457788888898775556677778******************96 PP
Internal pipeline statistics summary:
-------------------------------------
Query model(s): 1 (416 nodes)
Target sequences: 50190 (17055200 residues searched)
Passed MSV filter: 1987 (0.0395896); expected 1003.8 (0.02)
Passed bias filter: 738 (0.0147041); expected 1003.8 (0.02)
Passed Vit filter: 35 (0.00069735); expected 50.2 (0.001)
Passed Fwd filter: 2 (3.98486e-05); expected 0.5 (1e-05)
Initial search space (Z): 50190 [actual number of targets]
Domain search space (domZ): 2 [number of targets reported over threshold]
# CPU time: 0.47u 0.02s 00:00:00.49 Elapsed: 00:00:00.21
# Mc/sec: 33785.54
//
[ok]