# 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/Natronomonas_moolapensis.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
------- ------ ----- ------- ------ ----- ---- -- -------- -----------
2.6e-28 96.4 0.0 1e-27 94.5 0.0 1.8 1 tr|M1XLM2|M1XLM2_NATM8 tRNA (Guanine(6)-N(2))-dimethyltransf
2.2e-22 77.0 0.2 1.5e-21 74.3 0.2 2.0 1 tr|M1XLF5|M1XLF5_NATM8 tRNA (Guanine(10),N(2))-dimethyltrans
5.2e-11 39.9 0.0 5e-10 36.7 0.0 2.0 1 tr|M1XS10|M1XS10_NATM8 Probable rRNA methyltransferase OS=Na
2e-07 28.2 0.0 0.0053 13.8 0.0 2.4 2 tr|M1Y2L8|M1Y2L8_NATM8 Adenine-specific DNA modification met
2.3e-07 28.0 0.0 0.0036 14.3 0.0 2.6 2 tr|M1XNX9|M1XNX9_NATM8 Adenine-specific DNA modification met
2.6e-06 24.6 0.0 7.7e-06 23.1 0.0 1.8 1 tr|M1Y4D2|M1Y4D2_NATM8 Probable S-adenosylmethionine-depende
2.8e-06 24.5 0.0 5.6e-06 23.5 0.0 1.4 1 tr|M1XL08|M1XL08_NATM8 Probable arsenite(III)-methyltransfer
6e-06 23.4 0.0 0.014 12.4 0.0 2.5 2 tr|M1XS34|M1XS34_NATM8 Adenine-specific DNA modification met
7.8e-06 23.0 0.1 1.9e-05 21.7 0.1 1.6 1 tr|M1Y3X8|M1Y3X8_NATM8 tRNA (Guanine(37)-N(1))-methyltransfe
0.00038 17.5 0.0 0.00078 16.5 0.0 1.5 2 tr|M1XK62|M1XK62_NATM8 tRNA (guanine(26)-N(2))-dimethyltrans
0.0017 15.4 0.0 0.75 6.8 0.0 2.2 2 tr|M1XKR6|M1XKR6_NATM8 Modification methylase OS=Natronomona
------ inclusion threshold ------
0.015 12.3 0.0 0.023 11.7 0.0 1.3 1 tr|M1XZU1|M1XZU1_NATM8 Protein-L-isoaspartate O-methyltransf
0.028 11.4 0.0 0.3 8.1 0.0 2.1 1 tr|M1XRL7|M1XRL7_NATM8 Probable S-adenosylmethionine-depende
Domain annotation for each sequence (and alignments):
>> tr|M1XLM2|M1XLM2_NATM8 tRNA (Guanine(6)-N(2))-dimethyltransferase OS=Natronomonas moolapensis (strain DSM 18674 / JC
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 94.5 0.0 4.8e-30 1e-27 1 169 [. 161 356 .. 161 362 .. 0.86
Alignments for each domain:
== domain 1 score: 94.5 bits; conditional E-value: 4.8e-30
-SSS-SS---SS-HHHHHHHHHHTT--TTS-EEETT-TTSHHHHHHHHHHTT--TTTT----SS....................... CS
UPF0020 1 RgyRefngpapLketLAaalvrlagwkpgepllDPmCGsGtilIEaallganiapgllrefvle....................... 64
R yR +++ ap + tLA+a++r+agw+p+++l+DPm Gs ti+ Eaal ++ ++p e +
tr|M1XLM2|M1XLM2_NATM8 161 RPYRICEHDAPVRGTLAYAMLRIAGWTPTDRLVDPMAGSATIPTEAALAATGAVPRPDLEPSFGalpgydvdrfrrrrdayadppsg 247
78*************************************************999854433333389********************* PP
..........HHHHHHHHHH.HH--EEEEES-HHHHHHHHHHHHHTT-GGGEEEEE--GGG--STTS---EEEE----------HHH CS
UPF0020 65 ..........lkaeaeeear.aelklygsDldrrvvqgareNaekagvgdliefsqadaakLrlkegevdvivtnpPYGerlgskka 140
+ + l + + ++ +r ++ar N e+ag++d ++++ada++ ++ + d +vtn+P+G r+g+ +
tr|M1XLM2|M1XLM2_NATM8 248 pgttrggspaDRPSTGGALDaSALDIEAREIRSRWRRCARVNREAAGLEDAFDVVDADARE---ASIDADRVVTNLPFGVRTGT--D 329
***999887523222222223666699*********************************5...55678************997..6 PP
HHHHHHHHHHHHHHH-TT..-EEEEEESS CS
UPF0020 141 lekLYseflrelkrvlrgggrlvlltsen 169
l++LY +f ++l+ grlv+lt++
tr|M1XLM2|M1XLM2_NATM8 330 LRELYGAFVDRLEA--GDIGRLVALTTSP 356
99**********98..4447999999875 PP
>> tr|M1XLF5|M1XLF5_NATM8 tRNA (Guanine(10),N(2))-dimethyltransferase OS=Natronomonas moolapensis (strain DSM 18674 / J
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 74.3 0.2 7.2e-24 1.5e-21 2 181 .. 149 296 .. 148 313 .. 0.80
Alignments for each domain:
== domain 1 score: 74.3 bits; conditional E-value: 7.2e-24
SSS-SS---SS-HHHHHHHHHHTT--TTS-EEETT-TTSHHHHHHHHHHTT--TTTT----SSHHHHHHHHHHHH--EEEEES-HHH CS
UPF0020 2 gyRefngpapLketLAaalvrlagwkpgepllDPmCGsGtilIEaallganiapgllrefvlelkaeaeeearaelklygsDldrrv 88
+++f++p+++ + A+al ++ag+ pg ++lDPmCG+G+il+Ea+l ga+++ g+D ++++
tr|M1XLF5|M1XLF5_NATM8 149 TKKPFFQPGSMAPMDARALANIAGAAPGARILDPMCGTGGILVEAGLAGASVV--------------------------GVDAQAKM 209
5789*************************************************..........................******** PP
HHHHHHHHHHTT-GGGEEEEE--GGG--STTS---EEEE----------H.HHHHHHHHHHHHHHHHH-TT..-EEEEEESSHHHHH CS
UPF0020 89 vqgareNaekagvgdliefsqadaakLrlkegevdvivtnpPYGerlgsk.kalekLYseflrelkrvlrgggrlvlltsenkalek 174
v+g+++N+ ++ ++++ da+ L+l++++vd v + PYG+ + + ++l +L +l+el rv + +++ +++ +
tr|M1XLF5|M1XLF5_NATM8 210 VRGTERNLAAYLGEGSVL--RGDATRLPLADDSVDGAVLDAPYGRQSKVAgGSLSALVGGTLSELRRVAPR-----AVLVGDRVWSD 289
********9998888775..567999999999************987654145577777777777775444.....55556666667 PP
CC---ES CS
UPF0020 175 aleeral 181
a+e + +
tr|M1XLF5|M1XLF5_NATM8 290 AAEAAGW 296
6666644 PP
>> tr|M1XS10|M1XS10_NATM8 Probable rRNA methyltransferase OS=Natronomonas moolapensis (strain DSM 18674 / JCM 14361 / 8
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 36.7 0.0 2.4e-12 5e-10 14 146 .. 37 147 .. 30 170 .. 0.89
Alignments for each domain:
== domain 1 score: 36.7 bits; conditional E-value: 2.4e-12
HHHHHHHHHHTT--...TTS-EEETT-TTSHHHHHHHHHHTT--TTTT----SSHHHHHHHHHHHH--EEEEES-HHHHHHHHHHHH CS
UPF0020 14 etLAaalvrlagwk...pgepllDPmCGsGtilIEaallganiapgllrefvlelkaeaeeearaelklygsDldrrvvqgareNae 97
+ LAa +v +a+++ +g++ lD CG+G +++ aal g + + +g+D+d++ + +areN +
tr|M1XS10|M1XS10_NATM8 37 PDLAAHIVHVADLNgdvEGRTVLDLGCGTGMLALGAALRGPELV-------------------------VGVDIDPAPLSTARENER 98
679999999988863336799*********************99.........................8***************** PP
HTT-GGGEEEEE--GGG--STTS---EEEE----------HHHHHHHHH CS
UPF0020 98 kagvgdliefsqadaakLrlkegevdvivtnpPYGerlgskkalekLYs 146
+ g ++++ d+++L+l g +++ npP+G g+++a +++ +
tr|M1XS10|M1XS10_NATM8 99 RVGAMTDVSWVRGDVTDLPLVPGGDATVLMNPPFGAQSGNEGADRAFLE 147
*******************77776779************9999877655 PP
>> tr|M1Y2L8|M1Y2L8_NATM8 Adenine-specific DNA modification methylase OS=Natronomonas moolapensis (strain DSM 18674 / J
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 11.8 0.0 0.00011 0.022 29 58 .. 125 154 .. 122 204 .. 0.77
2 ! 13.8 0.0 2.5e-05 0.0053 102 133 .. 520 550 .. 510 557 .. 0.86
Alignments for each domain:
== domain 1 score: 11.8 bits; conditional E-value: 0.00011
TS-EEETT-TTSHHHHHHHHHHTT--TTTT CS
UPF0020 29 gepllDPmCGsGtilIEaallganiapgll 58
++++lDP+ G+Gt l+Ea g + + l
tr|M1Y2L8|M1Y2L8_NATM8 125 DKKILDPFMGGGTSLVEASRFGVESVGVDL 154
789***************999888775444 PP
== domain 2 score: 13.8 bits; conditional E-value: 2.5e-05
GGGEEEEE--GGG--STTS---EEEE------ CS
UPF0020 102 gdliefsqadaakLrlkegevdvivtnpPYGe 133
g+ ++ q d++ L +e+e+dv++t+pPY
tr|M1Y2L8|M1Y2L8_NATM8 520 GQNSDVFQGDMRRLD-AEEEYDVVITDPPYYH 550
566677899******.888***********65 PP
>> tr|M1XNX9|M1XNX9_NATM8 Adenine-specific DNA modification methylase OS=Natronomonas moolapensis (strain DSM 18674 / J
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 10.8 0.0 0.0002 0.042 28 64 .. 124 160 .. 118 205 .. 0.75
2 ! 14.3 0.0 1.7e-05 0.0036 93 134 .. 504 544 .. 497 555 .. 0.86
Alignments for each domain:
== domain 1 score: 10.8 bits; conditional E-value: 0.0002
TTS-EEETT-TTSHHHHHHHHHHTT--TTTT----SS CS
UPF0020 28 pgepllDPmCGsGtilIEaallganiapgllrefvle 64
+g+++lDP+ G+Gt IE ga+++ l + + +
tr|M1XNX9|M1XNX9_NATM8 124 DGKKILDPFMGGGTSVIESSRFGAEVVGYDLNPVAWF 160
6899***************999999985555444444 PP
== domain 2 score: 14.3 bits; conditional E-value: 1.7e-05
HHHHHHTT-GGGEEEEE--GGG--STTS---EEEE------- CS
UPF0020 93 reNaekagvgdliefsqadaakLrlkegevdvivtnpPYGer 134
++N + vg+ ++ q d ++L e+e+d+++t+pPY +
tr|M1XNX9|M1XNX9_NATM8 504 KSNSFNQPVGENTTVFQGDSKDLD-YENEFDAVITDPPYYDN 544
5677788899999999********.888***********765 PP
>> tr|M1Y4D2|M1Y4D2_NATM8 Probable S-adenosylmethionine-dependent methyltransferase OS=Natronomonas moolapensis (strain
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 23.1 0.0 3.7e-08 7.7e-06 76 126 .. 66 116 .. 34 118 .. 0.91
Alignments for each domain:
== domain 1 score: 23.1 bits; conditional E-value: 3.7e-08
H--EEEEES-HHHHHHHHHHHHHTT-GGGEEEEE--GGG--STTS---EEE CS
UPF0020 76 elklygsDldrrvvqgareNaekagvgdliefsqadaakLrlkegevdviv 126
+ ++g+D+ +++++++r++a++agv+++ +f q da L+ +++ +d+++
tr|M1Y4D2|M1Y4D2_NATM8 66 GADIVGMDISEAMLEQGRRKARSAGVDESLSFIQGDAGRLPFPDDHFDAVL 116
4669*************************************9999999986 PP
>> tr|M1XL08|M1XL08_NATM8 Probable arsenite(III)-methyltransferase OS=Natronomonas moolapensis (strain DSM 18674 / JCM
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 23.5 0.0 2.7e-08 5.6e-06 75 128 .. 119 171 .. 105 172 .. 0.88
Alignments for each domain:
== domain 1 score: 23.5 bits; conditional E-value: 2.7e-08
HH--EEEEES-HHHHHHHHHHHHHTT-GGGEEEEE--GGG--STTS---EEEE- CS
UPF0020 75 aelklygsDldrrvvqgareNaekagvgdliefsqadaakLrlkegevdvivtn 128
++ +++g+D+ ++++++ar Na++ g + +ef+ ++ +L+ +++++dvi++n
tr|M1XL08|M1XL08_NATM8 119 ETGRVIGVDMTPEMIKKARANASQNGAE-NVEFRLGEIEHLPVSDDSIDVIISN 171
45569*******************9975.69***********9999*******9 PP
>> tr|M1XS34|M1XS34_NATM8 Adenine-specific DNA modification methylase OS=Natronomonas moolapensis (strain DSM 18674 / J
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 12.4 0.0 6.7e-05 0.014 29 65 .. 125 176 .. 120 206 .. 0.67
2 ! 8.3 0.0 0.0012 0.26 110 135 .. 523 547 .. 513 569 .. 0.84
Alignments for each domain:
== domain 1 score: 12.4 bits; conditional E-value: 6.7e-05
TS-EEETT-TTSHHHHHHHHHHTT--TTTT----SS...............H CS
UPF0020 29 gepllDPmCGsGtilIEaallganiapgllrefvle...............l 65
+++ lDP+ G+Gt l+Ea ga+++ l + + + l
tr|M1XS34|M1XS34_NATM8 125 DKKVLDPFMGGGTSLVEASRFGAEVVGNDLNPVAWFvtkkeleagvtdveeL 176
7889********************9976666665555444444444444440 PP
== domain 2 score: 8.3 bits; conditional E-value: 0.0012
--GGG--STTS---EEEE-------- CS
UPF0020 110 adaakLrlkegevdvivtnpPYGerl 135
da+ + ke+e+dv++++pPY + +
tr|M1XS34|M1XS34_NATM8 523 GDARTID-KEDEFDVVLSDPPYYDNI 547
6899999.999***********7665 PP
>> tr|M1Y3X8|M1Y3X8_NATM8 tRNA (Guanine(37)-N(1))-methyltransferase OS=Natronomonas moolapensis (strain DSM 18674 / JCM
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 21.7 0.1 9.3e-08 1.9e-05 74 131 .. 197 254 .. 161 257 .. 0.84
Alignments for each domain:
== domain 1 score: 21.7 bits; conditional E-value: 9.3e-08
HHH--EEEEES-HHHHHHHHHHHHHTT-GGGEEEEE--GGG--STTS---EEEE---- CS
UPF0020 74 raelklygsDldrrvvqgareNaekagvgdliefsqadaakLrlkegevdvivtnpPY 131
++ ++ +g+Dl++++v+ r+Nae+ gv+d++ + +ad+++++ ++ d iv n+P
tr|M1Y3X8|M1Y3X8_NATM8 197 KRGAECVGVDLNEAAVEYLRRNAERNGVSDRVIAINADVRDVTGYDDWADRIVMNLPH 254
4455678************************************77779*********6 PP
>> tr|M1XK62|M1XK62_NATM8 tRNA (guanine(26)-N(2))-dimethyltransferase OS=Natronomonas moolapensis (strain DSM 18674 / J
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 16.5 0.0 3.7e-06 0.00078 71 116 .. 67 112 .. 35 128 .. 0.82
2 ? -3.9 0.0 6.7 1.4e+03 79 115 .. 325 361 .. 313 363 .. 0.70
Alignments for each domain:
== domain 1 score: 16.5 bits; conditional E-value: 3.7e-06
HHHHHH--EEEEES-HHHHHHHHHHHHHTT-GGGEEEEE--GGG-- CS
UPF0020 71 eearaelklygsDldrrvvqgareNaekagvgdliefsqadaakLr 116
++a+a + g D+d+++v+ ar+N+e+ g++++i+ ++ +a + +
tr|M1XK62|M1XK62_NATM8 67 RAAEAGYAATGCDIDEAAVDLARSNLERNGLSGTIHHRNVNAHMHE 112
4556777899*****************************9988433 PP
== domain 2 score: -3.9 bits; conditional E-value: 6.7
EEEEES-HHHHHHHHHHHHHTT-GGGEEEEE--GGG- CS
UPF0020 79 lygsDldrrvvqgareNaekagvgdliefsqadaakL 115
+ ++D +++ a a+++ g++ +a +a++
tr|M1XK62|M1XK62_NATM8 325 NTAMDEFLGALREAGHEASRTHYGGTTFKTDAGVAEI 361
5677777777888888888888777776666666655 PP
>> tr|M1XKR6|M1XKR6_NATM8 Modification methylase OS=Natronomonas moolapensis (strain DSM 18674 / JCM 14361 / 8.8.11) OX
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 6.8 0.0 0.0036 0.75 107 177 .. 7 74 .. 1 80 [. 0.72
2 ! 6.6 0.0 0.0041 0.87 29 58 .. 231 260 .. 222 312 .. 0.76
Alignments for each domain:
== domain 1 score: 6.8 bits; conditional E-value: 0.0036
EEE--GGG--.STTS---EEEE----------HHHHHHHHHHHHHHHHHH-TT..-EEEEEESSHHHHHCC- CS
UPF0020 107 fsqadaakLr.lkegevdvivtnpPYGerlgskkalekLYseflrelkrvlrgggrlvlltsenkalekale 177
+++ d ++L ++++v+++vt pPY ++ ++L+se+ e+ l+ g +++ + +++lek+ +
tr|M1XKR6|M1XKR6_NATM8 7 IVTGDSRSLSkTDDDSVELVVTSPPYPM----IEMWDELFSELNPEITASLEAGEGHAAASQMHEELEKVWK 74
567788999966677***********64....4566667777777776666666667777777777777655 PP
== domain 2 score: 6.6 bits; conditional E-value: 0.0041
TS-EEETT-TTSHHHHHHHHHHTT--TTTT CS
UPF0020 29 gepllDPmCGsGtilIEaallganiapgll 58
g++ lDP+ G+Gt a + g+n + l
tr|M1XKR6|M1XKR6_NATM8 231 GDTVLDPFWGTGTTSFAAMVAGRNSVGYEL 260
7999*********99988888888874444 PP
>> tr|M1XZU1|M1XZU1_NATM8 Protein-L-isoaspartate O-methyltransferase OS=Natronomonas moolapensis (strain DSM 18674 / JC
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ? 11.7 0.0 0.00011 0.023 71 105 .. 95 129 .. 64 152 .. 0.78
Alignments for each domain:
== domain 1 score: 11.7 bits; conditional E-value: 0.00011
HHHHHH--EEEEES-HHHHHHHHHHHHHTT-GGGE CS
UPF0020 71 eearaelklygsDldrrvvqgareNaekagvgdli 105
+e +e+++ g+D+ rr+v ar+N+++ag ++
tr|M1XZU1|M1XZU1_NATM8 95 AELTDEASVHGIDIARRLVYDARSNLSAAGYSGVL 129
44458899**********************98754 PP
>> tr|M1XRL7|M1XRL7_NATM8 Probable S-adenosylmethionine-dependent methyltransferase PrmC OS=Natronomonas moolapensis (s
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ? 8.1 0.0 0.0014 0.3 105 132 .. 75 101 .. 45 172 .. 0.64
Alignments for each domain:
== domain 1 score: 8.1 bits; conditional E-value: 0.0014
EEEEE--GGG--STTS---EEEE----- CS
UPF0020 105 iefsqadaakLrlkegevdvivtnpPYG 132
ie++ d ++ +++d++v npPY
tr|M1XRL7|M1XRL7_NATM8 75 IEAVRSDLTHAF-LADSFDAVVFNPPYL 101
333444444333.4569**********7 PP
Internal pipeline statistics summary:
-------------------------------------
Query model(s): 1 (197 nodes)
Target sequences: 2723 (809592 residues searched)
Passed MSV filter: 103 (0.0378259); expected 54.5 (0.02)
Passed bias filter: 95 (0.034888); expected 54.5 (0.02)
Passed Vit filter: 24 (0.00881381); expected 2.7 (0.001)
Passed Fwd filter: 13 (0.00477415); expected 0.0 (1e-05)
Initial search space (Z): 2723 [actual number of targets]
Domain search space (domZ): 13 [number of targets reported over threshold]
# CPU time: 0.04u 0.00s 00:00:00.04 Elapsed: 00:00:00.02
# Mc/sec: 7974.48
//
[ok]