# 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/Trichoplax_adhaerens.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
------- ------ ----- ------- ------ ----- ---- -- -------- -----------
3.9e-72 242.7 0.0 3.8e-65 219.7 0.0 3.3 3 tr|B3RVM0|B3RVM0_TRIAD Uncharacterized protein OS=Trichoplax
1.6e-66 224.3 0.0 2.4e-66 223.7 0.0 1.2 1 tr|B3RRZ1|B3RRZ1_TRIAD Uncharacterized protein OS=Trichoplax
Domain annotation for each sequence (and alignments):
>> tr|B3RVM0|B3RVM0_TRIAD Uncharacterized protein OS=Trichoplax adhaerens OX=10228 GN=TRIADDRAFT_23629 PE=4 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 18.1 0.0 1.1e-07 0.00062 2 32 .. 61 91 .. 60 103 .. 0.87
2 ? -2.7 0.0 0.21 1.2e+03 211 247 .. 115 149 .. 102 161 .. 0.70
3 ! 219.7 0.0 6.6e-69 3.8e-65 39 416 .] 215 601 .. 202 601 .. 0.91
Alignments for each domain:
== domain 1 score: 18.1 bits; conditional E-value: 1.1e-07
TruD 2 lgielyvtdtegigGrlrespeDFiVeEiee 32
+gi y+++ ++i+G+++++ DFiV+Ei+
tr|B3RVM0|B3RVM0_TRIAD 61 VGITEYISQLDPIQGSIKQRFADFIVHEINL 91
89***************************54 PP
== domain 2 score: -2.7 bits; conditional E-value: 0.21
TruD 211 reavaetgdleealeelpkslryEramlkrLaekpkd 247
+++ + dle+ l+el +s + ++++ L+e++ +
tr|B3RVM0|B3RVM0_TRIAD 115 DNMI--STDLENRLQELSSSHSSKKSVIIDLKENESN 149
3333..7899999999999999999999999995433 PP
== domain 3 score: 219.7 bits; conditional E-value: 6.6e-69
TruD 39 akegeylvlrvekrnwdtldlvrelaralgisrkrvgfaGtKDkrAvTtQlisirkvepeeleklei..kdvelevvgrarrklrlG 123
+++++y+ +r+ k+n+dt+++++ + + +g++ + +g+aGtKD+rA+TtQ i+ kv p++l++++ ++v+l ++ ++ +l+lG
tr|B3RVM0|B3RVM0_TRIAD 215 NEHDKYCKFRLYKENIDTMNAINLICKFTGLKPSIFGYAGTKDRRAITTQEITAFKVLPSKLHHVNSvtHKVRLGNFTYSKDRLTLG 301
567899*******************************************************999954469***************** PP
TruD 124 dLaGNkFeirvrdvaeeeeaakraeeileelkekggvPNyfGvQRFGsrrpvthlvGkaivkgdleeAveayvgkpfeeesedtrea 210
dLaGN+F++++r+v+ + ++++e+ +++lke+g + Ny+G+QRFG+ t+ +Gka++ g++++ +e ++ kp+ ++s +t ea
tr|B3RVM0|B3RVM0_TRIAD 302 DLAGNHFTLTLRNVKGS---EEQIEKSMASLKETG-FINYYGLQRFGTSHIPTYQIGKALLLGNWRKSIE-LILKPTRTDSFRTMEA 383
*************8433...469**********99.********************************97.6779999********* PP
TruD 211 reavaetgdleealeelpkslryEramlkrLae.kpkdykkAlealpknLqrlFvhAyqSylFNrvlseRlerglpldepveGDvvi 296
re+ ++++d ++al++l ++ +E +lk L+e +++ A+ ++p+n + l+v +yqS ++N v s+R+++ +pv GD+vi
tr|B3RVM0|B3RVM0_TRIAD 384 REHWWQHRDPSAALRLLRSRRGIEYYLLKGLVEhGSTSPVTAIMKIPRNARLLYVYSYQSLIWNLVASRRIKEF-G-LKPVVGDLVI 468
*********************************3456689********************************98.4.48******** PP
TruD 297 faeerlpdtdrlqlvteknveevkrliergrafvtaplvGtetelaegevgeierevleeegleledFklpklpelsskGtrRaill 383
++ r ++ + +++ +++pl+G++++ ++ e+++ ++ ++ +g++ ++ + + +e+s G +R++++
tr|B3RVM0|B3RVM0_TRIAD 469 SNSAR-----------QQDLPHYS------IHDIVLPLPGYNVMYPQHEANDWYHQQMKADGISIKNLENRH-KEFSLCGMYRKLVV 537
99655...........33333333......34689**********************************554.7************* PP
TruD 384 rve..............................dlelsaeede.ltleFsLpkGsYATvvlrEi 416
r++ ++++ + ++ l+l+FsLp+ sYAT+ lrE+
tr|B3RVM0|B3RVM0_TRIAD 538 RPKnlswstaryddftiplystdldqirqnkiiNNSVADGKNLaLLLSFSLPPSSYATMALREV 601
****************************99987444444443359******************6 PP
>> tr|B3RRZ1|B3RRZ1_TRIAD Uncharacterized protein OS=Trichoplax adhaerens OX=10228 GN=TRIADDRAFT_22091 PE=4 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 223.7 0.0 4.1e-70 2.4e-66 38 416 .] 203 629 .. 187 629 .. 0.86
Alignments for each domain:
== domain 1 score: 223.7 bits; conditional E-value: 4.1e-70
TruD 38 eakegeylvlrvekrnwdtldlvrelaralgisrkrvgfaGtKDkrAvTtQlisirkvepeelekl.....eikdvelevvgrarrk 119
++++ yl + ++krn++tld+++++a+alg + +++++aG+KD rA+T+Q +++++v+p+++ ++ + ++++ + + + +
tr|B3RRZ1|B3RRZ1_TRIAD 203 NNDNPLYLKFILRKRNVETLDAIHKIAKALGCHLSDFSYAGIKDCRAITYQQVTVKNVKPQQMINAlqkikSQEHIQYGNYQFIHTP 289
34445569999***************************************************76666744444788889999999** PP
TruD 120 lrlGdLaGNkFeirvrdv.aeee........eaakraeeileelkekggvPNyfGvQRFGsr..rpvthlvGkaivkgdleeAveay 195
+rlG+L+GN+F+i +rd+ +++ ++ +++ + +ee+k++g + NyfG QRFG++ +++ +G a++++d + Ave +
tr|B3RRZ1|B3RRZ1_TRIAD 290 IRLGQLKGNRFRILLRDIrLQDHdsslidiaDLHSQIIQSMEEVKKQG-FINYFGNQRFGKTisTVNSYDIGLAMLRRDEKMAVELI 375
******************754447999988888888999999999988.***********96336799******************* PP
TruD 196 vgkpfeeese.dtreareavaetgdleealeelpkslryEramlkrLae...kpkdykkAlealpknLqrlFvhAyqSylFNrvlse 278
+++ e+ s+ t +a +++ +gdl + l+++p+ + +lk+L + + + y+kAl ++p+n++++++h+y S l+Nr+++
tr|B3RRZ1|B3RRZ1_TRIAD 376 LSTVDEDISDnATMQALKYYHTSGDLVSTLKKIPSYKSRVYLILKALHRygqNIEGYRKALLNIPHNMRKIYIHSYCSLLWNRLVNY 462
**99988765157899999*9**************999888899999985556677******************************* PP
TruD 279 RlerglpldepveGDvvifaeer.lpdtdrlqlvteknveevkrl....ier.grafvtaplvGtetelaegevgeierevleeegl 359
R+e++ ++veGD+v+ + + +pd++++++++++++ ++ + +++ + v++pl+G++t ++ g + +++l+++g+
tr|B3RRZ1|B3RRZ1_TRIAD 463 RIEKY--GYNVVEGDLVLLGNVDnKPDSTDTDAINQDQLVKLVTKtdlaLNKyNIYDVVLPLLGSKTIYPSNTSGSVYKDMLANDGI 547
***99..468*******998766689999999999988655433311113331445799**************************** PP
TruD 360 eledFklpklpelsskGtrRaillrve..........................dlelsaeedeltleFsLpkGsYATvvlrEi 416
+ ++F p + +++ kG++R+il ++ ++++ +++ +++le +L++GsYATv lrEi
tr|B3RRZ1|B3RRZ1_TRIAD 548 NDSSFVNP-MLNIKIKGAYRKILSVPKdvnfslhilncqhlhddchdccsnilKNQTCNSRFHFKLEMTLNPGSYATVCLREI 629
*****977.79***********999999*****************9999876543434444458999999************7 PP
Internal pipeline statistics summary:
-------------------------------------
Query model(s): 1 (416 nodes)
Target sequences: 11518 (5222075 residues searched)
Passed MSV filter: 497 (0.0431499); expected 230.4 (0.02)
Passed bias filter: 221 (0.0191874); expected 230.4 (0.02)
Passed Vit filter: 12 (0.00104185); expected 11.5 (0.001)
Passed Fwd filter: 2 (0.000173641); expected 0.1 (1e-05)
Initial search space (Z): 11518 [actual number of targets]
Domain search space (domZ): 2 [number of targets reported over threshold]
# CPU time: 0.16u 0.01s 00:00:00.17 Elapsed: 00:00:00.07
# Mc/sec: 31034.05
//
[ok]