# 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/SpoU_methylase.hmm.txt
# target sequence database: proteomes/Thermococcus_kodakarensis.fasta
# - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: SpoU_methylase [M=142]
Accession: PF00588.18
Description: SpoU rRNA Methylase family
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
------- ------ ----- ------- ------ ----- ---- -- -------- -----------
5.2e-35 117.8 0.0 7.8e-35 117.2 0.0 1.3 1 tr|Q5JGC0|Q5JGC0_THEKO Probable tRNA/rRNA methyltransferase,
4.8e-07 27.1 0.0 0.0016 15.7 0.0 2.2 2 tr|Q5JDI9|Q5JDI9_THEKO Uncharacterized protein OS=Thermococc
0.00084 16.6 0.0 0.0011 16.2 0.0 1.2 1 sp|Q5JEG5|TRM56_THEKO tRNA (cytidine(56)-2'-O)-methyltransf
Domain annotation for each sequence (and alignments):
>> tr|Q5JGC0|Q5JGC0_THEKO Probable tRNA/rRNA methyltransferase, SpoU family OS=Thermococcus kodakarensis (strain ATCC B
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 117.2 0.0 1e-37 7.8e-35 2 142 .] 2 150 .. 1 150 [. 0.91
Alignments for each domain:
== domain 1 score: 117.2 bits; conditional E-value: 1e-37
EEEEEES-SSHHHHHHHHHHHHHTT-SEEEEESGSSCTCGSHHHHHHCTTHHHHHH.EEEESSHHHHHHHHCCCTEEEEEEST.T-S CS
SpoU_methylase 2 livvlveiedpgNlGaiaRtakafgaselvlvkprsadllnpeakraaagalevle.lkvvdsleealkelkeegfalvatsl.kgk 86
+ vvlve+e p N+G+iaRt+k+fg+s+lvl++p+ ++e ++ a++a++vle + + ds+e+al+ ++ + v+t++ gk
tr|Q5JGC0|Q5JGC0_THEKO 2 ISVVLVEPEGPANIGMIARTMKNFGFSRLVLINPNL----TEESYAYAVHARDVLEnALILDSFEKALELFDFT----VGTTGkPGK 80
78*******************************776....699*****************************99....888887777 PP
EGCCS..............HHHTTEEEEEEBTTTBS-HHHHCTSSEEEE----TTSSS--HHHHHHHHHH CS
SpoU_methylase 87 slsei..............dlkekvalvfGnEdkGlsnelleladrlvkIpmsgeveSLNvavAvailly 142
++ + d++++v ++fG+E+ Gl+ne+l+++d +++Ip+s+e++ +N+a+A+a++ly
tr|Q5JGC0|Q5JGC0_THEKO 81 RFIPHraplmpwelvglikDYPGEVGIFFGRESIGLKNEELDAMDVTLTIPTSEEYPVMNLAQAAAVVLY 150
6663333556667788888888**********************************************99 PP
>> tr|Q5JDI9|Q5JDI9_THEKO Uncharacterized protein OS=Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 9.4 0.0 0.00018 0.14 15 42 .. 25 49 .. 19 77 .. 0.80
2 ! 15.7 0.0 2.1e-06 0.0016 59 110 .. 158 213 .. 113 232 .. 0.78
Alignments for each domain:
== domain 1 score: 9.4 bits; conditional E-value: 0.00018
HHHHHHHHHHTT-SEEEEESGSSCTCGS CS
SpoU_methylase 15 lGaiaRtakafgaselvlvkprsadlln 42
+G +aR++++fg++++++ + + +
tr|Q5JDI9|Q5JDI9_THEKO 25 VGQVARACSIFGVEHIWIYRAGGR---D 49
8**************999775444...4 PP
== domain 2 score: 15.7 bits; conditional E-value: 2.1e-06
EEESSHHHHHHHHCCCTEEE.EEESTT-SEGCCSHHH...TTEEEEEEBTTTBS-H CS
SpoU_methylase 59 kvvdsleealkelkeegfal.vatslkgkslseidlk...ekvalvfGnEdkGlsn 110
+v+ + +++ k lk++g++l +ats+kg++++e++++ ++v +vfG+ +kG+ +
tr|Q5JDI9|Q5JDI9_THEKO 158 RVHLTRKSLAKTLKKAGLDLvIATSRKGRDIREVEIPpleGEVGFVFGSPRKGVME 213
56666677778888899777477777******99777777***********99976 PP
>> sp|Q5JEG5|TRM56_THEKO tRNA (cytidine(56)-2'-O)-methyltransferase OS=Thermococcus kodakarensis (strain ATCC BAA-918 /
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 16.2 0.0 1.5e-06 0.0011 18 122 .. 24 132 .. 18 145 .. 0.77
Alignments for each domain:
== domain 1 score: 16.2 bits; conditional E-value: 1.5e-06
HHHHHHHTT-SEEEEESGSSCTCGSHHHHHHCTTHHHHHHEEEESSHHHHHHHHCCCTEEEEEESTT-SEGCCS......HHH..TTE CS
SpoU_methylase 18 iaRtakafgaselvlvkprsadllnpeakraaagalevlelkvvdsleealkelkeegfalvatslkgkslsei......dlk..ekv 97
+a ta+afga+++++ +++ + ++ + + +e++ +s++++l+e+k++g+ + ++ +g +++++ +lk +
sp|Q5JEG5|TRM56_THEKO 24 VALTARAFGADKIIIAAEEDE-HVKESVEDVVNRWGGPFEIEFNPSWKKILREWKDRGIIV-HLTMYGIHIDDAiprikdELKsgKDL 109
56699**********996665.888889999888888889999**************6555.44466776665445444433366*** PP
EEEEEBTTTBS-HHHHCTSSEEEE- CS
SpoU_methylase 98 alvfGnEdkGlsnelleladrlvkI 122
++v+G E+ +++e+ e ad+ v +
sp|Q5JEG5|TRM56_THEKO 110 LIVVGAEK--VPREVYEMADYNVAV 132
*******7..788888888887766 PP
Internal pipeline statistics summary:
-------------------------------------
Query model(s): 1 (142 nodes)
Target sequences: 2301 (637680 residues searched)
Passed MSV filter: 77 (0.0334637); expected 46.0 (0.02)
Passed bias filter: 74 (0.0321599); expected 46.0 (0.02)
Passed Vit filter: 13 (0.00564972); expected 2.3 (0.001)
Passed Fwd filter: 3 (0.00130378); expected 0.0 (1e-05)
Initial search space (Z): 2301 [actual number of targets]
Domain search space (domZ): 3 [number of targets reported over threshold]
# CPU time: 0.02u 0.00s 00:00:00.02 Elapsed: 00:00:00.01
# Mc/sec: 9055.06
//
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