# 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/UPF0020.hmm.txt
# target sequence database: proteomes/Petromyzon_marinus.fasta
# - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: UPF0020 [M=197]
Accession: PF01170.17
Description: Putative RNA methylase family UPF0020
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
------- ------ ----- ------- ------ ----- ---- -- -------- -----------
1e-28 100.0 0.2 3.4e-28 98.3 0.2 1.8 1 tr|S4RQZ8|S4RQZ8_PETMA THUMP domain containing 2 OS=Petromyz
5.3e-25 87.9 0.0 1.5e-21 76.6 0.0 2.2 2 tr|S4R892|S4R892_PETMA THUMP domain containing 3 OS=Petromyz
1e-24 87.0 0.0 2.6e-21 75.8 0.0 2.2 2 tr|S4R896|S4R896_PETMA THUMP domain containing 3 OS=Petromyz
1.6e-08 34.1 0.0 7e-08 32.0 0.0 2.0 1 tr|S4RTT3|S4RTT3_PETMA tRNA methyltransferase 11 homolog (S.
9.1e-06 25.1 1.0 5.3e-05 22.6 0.7 2.1 1 tr|S4RXG9|S4RXG9_PETMA Methyltransferase like 5 OS=Petromyzo
2e-05 24.0 0.1 6.1e-05 22.4 0.1 1.8 1 tr|S4RMF5|S4RMF5_PETMA HemK methyltransferase family member
0.0038 16.5 0.0 1.5 8.0 0.0 2.7 2 tr|S4R4I3|S4R4I3_PETMA Phosphoethanolamine methyltransferase
------ inclusion threshold ------
0.037 13.3 0.0 0.073 12.4 0.0 1.5 1 tr|S4RC89|S4RC89_PETMA 2-methoxy-6-polyprenyl-1,4-benzoquino
0.094 12.0 0.0 2.5 7.4 0.0 2.5 2 tr|S4RMG0|S4RMG0_PETMA Phosphoethanolamine methyltransferase
Domain annotation for each sequence (and alignments):
>> tr|S4RQZ8|S4RQZ8_PETMA THUMP domain containing 2 OS=Petromyzon marinus OX=7757 PE=4 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 98.3 0.2 2.2e-31 3.4e-28 4 166 .. 243 381 .. 241 382 .] 0.96
Alignments for each domain:
== domain 1 score: 98.3 bits; conditional E-value: 2.2e-31
S-SS---SS-HHHHHHHHHHTT--TTS-EEETT-TTSHHHHHHHHHHTT--TTTT----SSHHHHHHHHHHHH--EEEEES-HHHHH CS
UPF0020 4 RefngpapLketLAaalvrlagwkpgepllDPmCGsGtilIEaallganiapgllrefvlelkaeaeeearaelklygsDldrrvvq 90
R + + L++t+A+a+ lag++p + +DPmCG Gt+l+Eaa+ ++++ g D d++ ++
tr|S4RQZ8|S4RQZ8_PETMA 243 RAYCIRSGLRSTVAYAMASLAGIQPHAVVMDPMCGMGTLLLEAAMAWKTVR------------------------CLGTDVDAQQLA 305
77777899*******************************************........................79********** PP
HHHHHHHHTT-GGGEEEEE--GGG--STTS---EEEE----------HHHHHHHHHHHHHHHHHH-TT..-EEEEE CS
UPF0020 91 gareNaekagvgdliefsqadaakLrlkegevdvivtnpPYGerlgskkalekLYseflrelkrvlrgggrlvllt 166
a+eN + a+++++i + qa +++L+ + + +dvi+++ P+G++ +s +++++L +++l+e+ rvlr gg +vll+
tr|S4RQZ8|S4RQZ8_PETMA 306 HAKENIHFAELDHRIGLLQASVTALPIPCSAIDVIICDIPFGQKYSSDEEMKHLMPKILQEMMRVLRVGGNIVLLV 381
**************************99999*************************************99999876 PP
>> tr|S4R892|S4R892_PETMA THUMP domain containing 3 OS=Petromyzon marinus OX=7757 PE=4 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 9.1 0.0 0.00047 0.71 2 27 .. 256 280 .. 254 284 .. 0.79
2 ! 76.6 0.0 9.9e-25 1.5e-21 99 195 .. 329 428 .. 308 430 .. 0.92
Alignments for each domain:
== domain 1 score: 9.1 bits; conditional E-value: 0.00047
SSS-SS---SS-HHHHHHHHHHTT-- CS
UPF0020 2 gyRefngpapLketLAaalvrlagwk 27
++++f gp++L++tLA++++r + +
tr|S4R892|S4R892_PETMA 256 NITHF-GPTTLRSTLAYGMLRQCTHR 280
55555.5**************99766 PP
== domain 2 score: 76.6 bits; conditional E-value: 9.9e-25
TT-GGGEEEEE--GGG--STTS---EEEE----------HHHHHHHHHHHHHHHHHH-TT...-EEEEEESSHHHHHCC---..ESE CS
UPF0020 99 agvgdliefsqadaakLrlkegevdvivtnpPYGerlgskkalekLYseflrelkrvlrgg.grlvlltsenkalekaleer..alr 182
g + ++++q+d++ L+lk+++vd+ vt++P+G+r+gs +++++LY+++l el+rv+r g gr++llt+++k++ k+l ++ +r
tr|S4R892|S4R892_PETMA 329 GGRSLPVDIVQWDVCRLPLKTASVDACVTDMPFGKRMGSRRRNWDLYPACLLELARVCRPGtGRAALLTQDKKCMSKVLMQMghLWR 415
55667899***************************************************999*****************999889** PP
EEEEEETTEEEEE CS
UPF0020 183 kvkeknvklglll 195
k++ ++v++g+l+
tr|S4R892|S4R892_PETMA 416 KAHTVWVNVGGLH 428
**********998 PP
>> tr|S4R896|S4R896_PETMA THUMP domain containing 3 OS=Petromyzon marinus OX=7757 PE=4 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 9.0 0.0 0.00053 0.79 2 27 .. 268 292 .. 266 296 .. 0.79
2 ! 75.8 0.0 1.7e-24 2.6e-21 102 195 .. 354 450 .. 339 452 .. 0.94
Alignments for each domain:
== domain 1 score: 9.0 bits; conditional E-value: 0.00053
SSS-SS---SS-HHHHHHHHHHTT-- CS
UPF0020 2 gyRefngpapLketLAaalvrlagwk 27
++++f gp++L++tLA++++r + +
tr|S4R896|S4R896_PETMA 268 NITHF-GPTTLRSTLAYGMLRQCTHR 292
55555.5**************99766 PP
== domain 2 score: 75.8 bits; conditional E-value: 1.7e-24
GGGEEEEE--GGG--STTS---EEEE----------HHHHHHHHHHHHHHHHHH-TT...-EEEEEESSHHHHHCC---..ESEEEE CS
UPF0020 102 gdliefsqadaakLrlkegevdvivtnpPYGerlgskkalekLYseflrelkrvlrgg.grlvlltsenkalekaleer..alrkvk 185
+ ++++q+d++ L+lk+++vd+ vt++P+G+r+gs +++++LY+++l el+rv+r g gr++llt+++k++ k+l ++ +rk++
tr|S4R896|S4R896_PETMA 354 SLPVDIVQWDVCRLPLKTASVDACVTDMPFGKRMGSRRRNWDLYPACLLELARVCRPGtGRAALLTQDKKCMSKVLMQMghLWRKAH 440
56799***************************************************999*****************999889***** PP
EEETTEEEEE CS
UPF0020 186 eknvklglll 195
++v++g+l+
tr|S4R896|S4R896_PETMA 441 TVWVNVGGLH 450
*******998 PP
>> tr|S4RTT3|S4RTT3_PETMA tRNA methyltransferase 11 homolog (S. cerevisiae) OS=Petromyzon marinus OX=7757 PE=4 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 32.0 0.0 4.7e-11 7e-08 3 137 .. 142 271 .. 141 276 .. 0.84
Alignments for each domain:
== domain 1 score: 32.0 bits; conditional E-value: 4.7e-11
SS-SS---SS-HHHHHHHHHHTT--TTS-EEETT-TTSHHHHHHHHHHTT--TTTT----SSHHHHHHHHHHHH--EEEEES-HHHH CS
UPF0020 3 yRefngpapLketLAaalvrlagwkpgepllDPmCGsGtilIEaallganiapgllrefvlelkaeaeeearaelklygsDldrrvv 89
R+f g++++ + LA + + a+++pg+ DP+ G+G++l+ a ga ++ + ++ + + ++ r+++k +g D +
tr|S4RTT3|S4RTT3_PETMA 142 TRHFIGNTSMDAGLAFIMANHARVQPGHLVCDPFVGTGSLLVACARFGAFVM---GSDIDYNTIHGLGKASRKNQKWRGPDENI--- 222
69****************************************9999999999...566777788888888899999****9875... PP
HHHHHHHHHTT-GGGEE.EEE--G.GG--STTS---EEEE--..-------- CS
UPF0020 90 qgareNaekagvgdlie.fsqada.akLrlkegevdvivtnp..PYGerlgs 137
r N++++g+++l + + + da + + ++++ +d+i+t+p PYG+r ++
tr|S4RTT3|S4RTT3_PETMA 223 ---RANLRQYGLEQLYAdVLVSDAsRPIWRPHQLFDAILTDPtaPYGIREST 271
...57*******9987523333431334489999*******999****9766 PP
>> tr|S4RXG9|S4RXG9_PETMA Methyltransferase like 5 OS=Petromyzon marinus OX=7757 PE=4 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 22.6 0.7 3.5e-08 5.3e-05 52 135 .. 76 135 .. 32 149 .. 0.83
Alignments for each domain:
== domain 1 score: 22.6 bits; conditional E-value: 3.5e-08
T--TTTT----SSHHHHHHHHHHHH--EEEEES-HHHHHHHHHHHHHTT-GGGEEEEE--GGG--..STTS---EEEE-------- CS
UPF0020 52 niapgllrefvlelkaeaeeearaelklygsDldrrvvqgareNaekagvgdliefsqadaakLr..lkegevdvivtnpPYGerl 135
+g+D d+++++++ N + vg ++++q d+++L+ + ++ + ++v npP+G +
tr|S4RXG9|S4RXG9_PETMA 76 GLC-------------------------VGFDVDEEALETCLHNVDEFDVG-VVDVVQSDVCALHqpRWRKAFHTVVMNPPFGTKQ 135
444.........................8********************97.5899999******8866779***********875 PP
>> tr|S4RMF5|S4RMF5_PETMA HemK methyltransferase family member 1 OS=Petromyzon marinus OX=7757 PE=4 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 22.4 0.1 4.1e-08 6.1e-05 73 131 .. 79 146 .. 44 151 .. 0.85
Alignments for each domain:
== domain 1 score: 22.4 bits; conditional E-value: 4.1e-08
HHHH--EEEEES-HHHHHHHHHHHHHTT-GGGEEEEE--GGG--.........STTS---EEEE---- CS
UPF0020 73 araelklygsDldrrvvqgareNaekagvgdliefsqadaakLr.........lkegevdvivtnpPY 131
a + ++ +++D+ + +v+ areNae ++d+ +++q+d++++ + g +dv+v+npPY
tr|S4RMF5|S4RMF5_PETMA 79 ASPLASCVAVDKSADAVALARENAEDLSLQDRCSVVQLDITAVGraahateavGALGPFDVLVSNPPY 146
45667899*********************************998777654333233589********* PP
>> tr|S4R4I3|S4R4I3_PETMA Phosphoethanolamine methyltransferase OS=Petromyzon marinus OX=7757 PE=4 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 8.0 0.0 0.001 1.5 95 129 .. 88 122 .. 65 145 .. 0.74
2 ! 5.4 0.0 0.0065 9.7 77 125 .. 307 354 .. 298 357 .. 0.74
Alignments for each domain:
== domain 1 score: 8.0 bits; conditional E-value: 0.001
HHHHTT-GGGEEEEE--GGG--STTS---EEEE-- CS
UPF0020 95 NaekagvgdliefsqadaakLrlkegevdvivtnp 129
N e i+f qad+++L+ +e+++dvi +n
tr|S4R4I3|S4R4I3_PETMA 88 NRELNSDHVNIKFLQADVTQLQFPENSFDVIFSNW 122
33444445689***********99*********94 PP
== domain 2 score: 5.4 bits; conditional E-value: 0.0065
--EEEEES-HHHHHHHHHHHHH.TT-GGGEEEEE--GGG--STTS---EE CS
UPF0020 77 lklygsDldrrvvqgareNaek.agvgdliefsqadaakLrlkegevdvi 125
+ + g+Dl +++v+ a e a + ++ + e+s+a ++++ e+++dv+
tr|S4R4I3|S4R4I3_PETMA 307 VDVLGMDLSSNMVEIAMERATEdSTLLVQFEISDATKRDFP--EESFDVV 354
4589*************999761455566666666666666..6699998 PP
>> tr|S4RC89|S4RC89_PETMA 2-methoxy-6-polyprenyl-1,4-benzoquinol methylase, mitochondrial OS=Petromyzon marinus OX=7757
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ? 12.4 0.0 4.8e-05 0.073 20 124 .. 31 145 .. 29 177 .. 0.71
Alignments for each domain:
== domain 1 score: 12.4 bits; conditional E-value: 4.8e-05
HHHHTT--TTS-EEETT-TTSHHH...HHHHHHHTT--TTTT----SS...........HHHHHHHHHH.HH--EEEEES-HHHHHH CS
UPF0020 20 lvrlagwkpgepllDPmCGsGtil...IEaallganiapgllrefvle...........lkaeaeeear.aelklygsDldrrvvqg 91
l+ + + +pg++llD G+G i +E + ++++ +++ +ae ++ + + + D+++++++
tr|S4RC89|S4RC89_PETMA 31 LLDIMKPTPGTRLLDVAGGTGDISfrfLECLQRASQRR-----ANASSqnltweeiagfYRAERPRDWDaRGAVAVVCDINKEMLRV 112
66667778888888888888877522233333222222.....22222233345666665555555555444557888********* PP
HHHHHHHTT-GGGEEEEE--GGG--STTS---E CS
UPF0020 92 areNaekagvgdliefsqadaakLrlkegevdv 124
+++ ae+ g ++ +++ +a +L+ +++ +d+
tr|S4RC89|S4RC89_PETMA 113 GQKRAEQQGFSEGLMWVVGNAEELPFADSRFDI 145
*************************66666764 PP
>> tr|S4RMG0|S4RMG0_PETMA Phosphoethanolamine methyltransferase OS=Petromyzon marinus OX=7757 PE=4 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ? 7.4 0.0 0.0016 2.5 80 128 .. 73 118 .. 62 145 .. 0.81
2 ? 1.7 0.0 0.092 1.4e+02 78 125 .. 306 352 .. 299 355 .. 0.74
Alignments for each domain:
== domain 1 score: 7.4 bits; conditional E-value: 0.0016
EEEES-HHHHHHHHHHHHHTT-GGGEEEEE--GGG--STTS---EEEE- CS
UPF0020 80 ygsDldrrvvqgareNaekagvgdliefsqadaakLrlkegevdvivtn 128
++D+ ++ ++ +N e g + +f qad+++L + +++dvi +n
tr|S4RMG0|S4RMG0_PETMA 73 TAVDFMENFIA---KNKEDNGHRGNLTFLQADVTQLDFPANSFDVIFSN 118
55666666664...57788899999************9999******99 PP
== domain 2 score: 1.7 bits; conditional E-value: 0.092
-EEEEES-HHHHHHHHHHHHHTT-GGGEEEEE--GGG--STTS---EE CS
UPF0020 78 klygsDldrrvvqgareNaekagvgdliefsqadaakLrlkegevdvi 125
++ g+Dl +++v+ a e a + l++f+ da+k +e+++dv+
tr|S4RMG0|S4RMG0_PETMA 306 EVLGVDLSSNMVAIAMERAVEEDAP-LVQFEISDATKRVFPENSFDVV 352
589**************99886654.5666666666544457788887 PP
Internal pipeline statistics summary:
-------------------------------------
Query model(s): 1 (197 nodes)
Target sequences: 13539 (5048892 residues searched)
Passed MSV filter: 329 (0.0243002); expected 270.8 (0.02)
Passed bias filter: 265 (0.0195731); expected 270.8 (0.02)
Passed Vit filter: 22 (0.00162494); expected 13.5 (0.001)
Passed Fwd filter: 9 (0.000664746); expected 0.1 (1e-05)
Initial search space (Z): 13539 [actual number of targets]
Domain search space (domZ): 9 [number of targets reported over threshold]
# CPU time: 0.11u 0.01s 00:00:00.12 Elapsed: 00:00:00.04
# Mc/sec: 24865.79
//
[ok]