# 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/Ciona_savignyi.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
------- ------ ----- ------- ------ ----- ---- -- -------- -----------
1.4e-67 227.7 0.1 9.5e-63 211.8 0.0 2.3 2 tr|H2ZKN4|H2ZKN4_CIOSA Uncharacterized protein OS=Ciona savi
Domain annotation for each sequence (and alignments):
>> tr|H2ZKN4|H2ZKN4_CIOSA Uncharacterized protein OS=Ciona savignyi OX=51511 PE=4 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 13.8 0.0 1.1e-06 0.012 2 32 .. 7 37 .. 6 55 .. 0.86
2 ! 211.8 0.0 8.2e-67 9.5e-63 30 416 .] 140 543 .. 120 543 .. 0.86
Alignments for each domain:
== domain 1 score: 13.8 bits; conditional E-value: 1.1e-06
TruD 2 lgielyvtdtegigGrlrespeDFiVeEiee 32
+g+ yv +++g+ G l+ +++DF+V+Ei+
tr|H2ZKN4|H2ZKN4_CIOSA 7 VGMTEYVGKHKGFTGILKLRYQDFLVNEINL 37
89***************************54 PP
== domain 2 score: 211.8 bits; conditional E-value: 8.2e-67
TruD 30 ieefsgeeeakegeylvlrvekrnwdtldlvrelaralgisrkr.vgfaGtKDkrAvTtQlisirkvepeelekl..eikdvelevv 113
i++ ++++k+ +++ + ++k+n+ t+d+v+ + r+l++ + r ++ aG KDkr+vT+Q+i+ ++pe+l + ++++++ ++
tr|H2ZKN4|H2ZKN4_CIOSA 140 INRR-RQSREKSSKFCKFVMHKENIATMDAVNLIIRKLHLRQARcFHSAGNKDKRGVTVQTITT-SISPERLVPInqLLNNIRIGNF 224
3222.2247788999**************************9984578**************95.57777755554346******** PP
TruD 114 grarrklrlGdLaGNkFeirvrdvaeeeeaakraeeileelkekggvPNyfGvQRFGsrrpvthlvGkaivkgdleeAveayvgkpf 200
+ +lrlGdL+GN+F i++r++ + ee +++ +++ ++ g + NyfG+QRFG+ t++vGk ++ ++e+Av+ +++ f
tr|H2ZKN4|H2ZKN4_CIOSA 225 EPCESALRLGDLKGNRFSIVIRNTLDIEE--ADLILAIKSFSQVG-FLNYFGMQRFGTSSVATYEVGKSLIASKWENAVDLILSSCF 308
***********************855444..34444556667666.***************************************** PP
TruD 201 eeesedtreareavaetgdleeal.eelpkslryEramlkrLae.kpkdykkAlealpknLqrlFvhAyqSylFNrvlseRlerglp 285
+ee + +r+ e g++++al ++++k+ ++Er +l+ La pk+ ++l ++p+n ++l++h+yqS+++Nrv+s+R+ +
tr|H2ZKN4|H2ZKN4_CIOSA 309 KEEMIN--LIRNWR-EAGNARKALtHQWNKRSSFERYLLEGLAYfGPKQLVQSLGRIPRNTRMLYLHSYQSFVWNRVVSRRFSVY-- 390
877654..455544.889999998357999*************999*************************************87.. PP
TruD 286 ldepveGDvvifaeerlpdtdrlqlvteknveevkrliergrafvtaplvGtetelaegevgeierevleeegleledFklpklpel 372
d+pv GD+v+ ++ + ++ ++te+nv++++ +++pl+G + + + + + +e l+++g+e+++F+ k++e
tr|H2ZKN4|H2ZKN4_CIOSA 391 GDSPVVGDLVFAETLN-CGIPDVIVLTEENVHNYS------IHDIVMPLPGQSITYPTHGAAKWYDEELSKDGIEKDMFNH-KVKEY 469
68********988666.777889999999999988......45799**********************************5.579** PP
TruD 373 sskGtrRaillrve..............................dlelsaeede......ltleFsLpkGsYATvvlrEi 416
+G++R+++ +++ +++ l ++FsLp+ sYATv +rE+
tr|H2ZKN4|H2ZKN4_CIOSA 470 FLSGAYRKVVSKPSniewdivrytdyrkpllisdvdvldkkerpT------GEKdgkytaLRISFSLPSSSYATVAMREV 543
*************99********************9997655432......2222345559******************6 PP
Internal pipeline statistics summary:
-------------------------------------
Query model(s): 1 (416 nodes)
Target sequences: 11592 (4231397 residues searched)
Passed MSV filter: 414 (0.0357143); expected 231.8 (0.02)
Passed bias filter: 206 (0.0177709); expected 231.8 (0.02)
Passed Vit filter: 12 (0.0010352); expected 11.6 (0.001)
Passed Fwd filter: 1 (8.62664e-05); expected 0.1 (1e-05)
Initial search space (Z): 11592 [actual number of targets]
Domain search space (domZ): 1 [number of targets reported over threshold]
# CPU time: 0.11u 0.00s 00:00:00.11 Elapsed: 00:00:00.05
# Mc/sec: 35205.22
//
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