# 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/RrnaAD.hmm.txt
# target sequence database: proteomes/Saccharomyces_cerevisiae.fasta
# - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: RrnaAD [M=265]
Accession: PF00398.19
Description: Ribosomal RNA adenine dimethylase
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
------- ------ ----- ------- ------ ----- ---- -- -------- -----------
4.4e-89 296.5 0.0 5.1e-89 296.3 0.0 1.0 1 sp|P14908|MTF1_YEAST Mitochondrial transcription factor 1 O
2e-80 268.2 0.1 2.3e-80 267.9 0.1 1.0 1 sp|P41819|DIM1_YEAST Dimethyladenosine transferase OS=Sacch
0.0075 13.8 0.0 0.024 12.2 0.0 1.7 2 sp|P46959|TRM61_YEAST tRNA (adenine(58)-N(1))-methyltransfer
------ inclusion threshold ------
0.016 12.7 0.0 0.032 11.7 0.0 1.4 1 sp|P27680|COQ3_YEAST Ubiquinone biosynthesis O-methyltransf
0.019 12.5 0.1 0.034 11.7 0.1 1.6 1 sp|P47163|EFM3_YEAST Protein-lysine N-methyltransferase EFM
0.059 10.9 3.1 0.086 10.3 1.0 1.9 2 sp|P40528|SYG1_YEAST Protein SYG1 OS=Saccharomyces cerevisi
Domain annotation for each sequence (and alignments):
>> sp|P14908|MTF1_YEAST Mitochondrial transcription factor 1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) O
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 296.3 0.0 5e-92 5.1e-89 2 265 .] 12 316 .. 11 316 .. 0.98
Alignments for each domain:
== domain 1 score: 296.3 bits; conditional E-value: 5e-92
GCCXXGCG--EE--HHHHHHHHHHH-GG......TTSEEEEES-TTTCCHHHH.HCC-.SEEEEE-S-HHHHHHHHCHTTTCCCEEEE- CS
RrnaAD 2 nklrksygqnflknkkvineIldklnle......ekltvleigpGkGilTeeL.akra.kqvvvlElderLakllqkklskdeklkvvh 82
+kl+++yg+++l+n++v+n+I+dkl+l+ e+l+vl+++pG+Gi+++++ +k++ +q+++lE++++L+k+l++k++ +++l++++
sp|P14908|MTF1_YEAST 12 SKLKFFYGFKYLWNPTVYNKIFDKLDLTktykhpEELKVLDLYPGVGIQSAIFyNKYCpRQYSLLEKRSSLYKFLNAKFE-GSPLQILK 99
689**************************************************9************************99.******** PP
S-CCGHHHHHHHCT...........TTCCCCEEEEEEE--TTTHHHHHHHHHH.......GGGGCEEEEEEEEEHHHHHHHH--TTSTT CS
RrnaAD 83 qDflkfetpeevte...........kdsihqeflvvanlPyeistqlvkqlle.......esrfglvkmllwlqkefarrllarpgskk 153
+D+++++t++++++ +d+i+++fl+van+++e s+ l++q+l+ ++rfg+vkmllw+++++ar+llarpg+++
sp|P14908|MTF1_YEAST 100 RDPYDWSTYSNLIDeerifvpevqsSDHINDKFLTVANVTGEGSEGLIMQWLScignknwLYRFGKVKMLLWMPSTTARKLLARPGMHS 188
***************************************************************************************** PP
-SHHHHHHHHHEEEEEEEEC-GG......................CECS--SSSEEEEEEEE-SS-S--S-HHHHHHHHHHHHCTTTSB CS
RrnaAD 154 rsrlsvlreaftdvklvakveks......................ifsPppkvdsalvelerkdedlpqkdlkkyesvvrkllnrkrkt 220
rs++sv+reaftd+kl+a+++++ i +P+ alve++++d+d+ d++++++v+r+l+++kr++
sp|P14908|MTF1_YEAST 189 RSKCSVVREAFTDTKLIAISDANelkgfdsqcieewdpilfsaaeI-WPTKGKPIALVEMDPIDFDF---DVDNWDYVTRHLMILKRTP 273
********************************************66.***66666************...******************* PP
CCCHCCCTSTCHHHHHCTT.T--TTTCCCCSGHHHHHHHHHHHHH CS
RrnaAD 221 lstslksllpggelqalsstgindnalvkklsaeqtldifkelak 265
l+t+++sl++gg+ q+++s +i+d++l+kk+++++t+d+f +l+k
sp|P14908|MTF1_YEAST 274 LNTVMDSLGHGGQ-QYFNS-RITDKDLLKKCPIDLTNDEFIYLTK 316
*************.***99.7********************9986 PP
>> sp|P41819|DIM1_YEAST Dimethyladenosine transferase OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) OX=55929
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 267.9 0.1 2.3e-83 2.3e-80 2 263 .. 28 280 .. 27 282 .. 0.98
Alignments for each domain:
== domain 1 score: 267.9 bits; conditional E-value: 2.3e-83
GCCXXGCG--EE--HHHHHHHHHHH-GGTTSEEEEES-TTTCCHHHHHCC-SEEEEE-S-HHHHHHHHCHTT...TCCCEEEE-S-CCG CS
RrnaAD 2 nklrksygqnflknkkvineIldklnleekltvleigpGkGilTeeLakrakqvvvlElderLakllqkkls...kdeklkvvhqDflk 87
+k+++++gq++lkn+ v+++I+dk+++++++ vle+gpG+G+lT++++++ak+vv++E+d+r+a++l+k+++ ++kl+++ Df+k
sp|P41819|DIM1_YEAST 28 FKFNTDLGQHILKNPLVAQGIVDKAQIRPSDVVLEVGPGTGNLTVRILEQAKNVVAVEMDPRMAAELTKRVRgtpVEKKLEIMLGDFMK 116
79***********************************************************************999************* PP
HHHHHHHCTTTCCCCEEEEEEE--TTTHHHHHHHHHHGGGGCEEEEEEEEEHHHHHHHH--TTSTT-SHHHHHHHHHEEEEEEEEC-GG CS
RrnaAD 88 fetpeevtekdsihqeflvvanlPyeistqlvkqlleesrfglvkmllwlqkefarrllarpgskkrsrlsvlreaftdvklvakveks 176
+e+p++ ++++n+Py+is++lv++l++++r++ + ++l++q+efa rllarpg+++++rls +++++++v++++kv+k+
sp|P41819|DIM1_YEAST 117 TELPYFD----------ICISNTPYQISSPLVFKLINQPRPP-RVSILMFQREFALRLLARPGDSLYCRLSANVQMWANVTHIMKVGKN 194
*****77..........7***********************7.8899****************************************** PP
CECS--SSSEEEEEEEE-SS-S--S-HHHHHHHHHHHHCTTTSBCCCHCCCTSTCHHHHHCTT.T--TTTCCCCSGHHHHHHHHHHH CS
RrnaAD 177 ifsPppkvdsalvelerkdedlpqkdlkkyesvvrkllnrkrktlstslksllpggelqalsstgindnalvkklsaeqtldifkel 263
+f+Ppp+v+s++v+le+k+++ pq+d+++++ ++r++++rk++t+s+ +ks++ ++ l+++++t++++n++++++++++++d++ke
sp|P41819|DIM1_YEAST 195 NFRPPPQVESSVVRLEIKNPR-PQVDYNEWDGLLRIVFVRKNRTISAGFKSTTVMDILEKNYKTFLAMNNEMVDDTKGSMHDVVKEK 280
*********************.8************************************************************9986 PP
>> sp|P46959|TRM61_YEAST tRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRM61 OS=Saccharomyces cerevisiae
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 12.2 0.0 2.4e-05 0.024 22 87 .. 102 171 .. 99 183 .. 0.86
2 ? -2.3 0.1 0.61 6.1e+02 58 74 .. 261 282 .. 251 299 .. 0.77
Alignments for each domain:
== domain 1 score: 12.2 bits; conditional E-value: 2.4e-05
HHHHH-GGTTSEEEEES-TTTCCHHHHHCC-SEEEEE-S-HHHHHHHHCHTT....TCCCEEEE-S-CCG CS
RrnaAD 22 IldklnleekltvleigpGkGilTeeLakrakqvvvlElderLakllqkkls....kdeklkvvhqDflk 87
I++ ln ++ v+e g+G G ++ +a + ++ ++E ++ ++++ d ++++ h+D+ +
sp|P46959|TRM61_YEAST 102 IMQRLNCSPHSRVIEAGTGSGSFSHAFARSVGHLFSFEFHHIRYEQALEEFKehglIDDNVTITHRDVCQ 171
8999**********************************887666666665665555899*******9976 PP
== domain 2 score: -2.3 bits; conditional E-value: 0.61
E-S-HHHHHHHHCHTT.....T CS
RrnaAD 58 lElderLakllqkkls.....k 74
+E++++++ +l+++l+ k
sp|P46959|TRM61_YEAST 261 YESRRQMVRSLNDALErlrdiK 282
7999999999999888544444 PP
>> sp|P27680|COQ3_YEAST Ubiquinone biosynthesis O-methyltransferase, mitochondrial OS=Saccharomyces cerevisiae (strain
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ? 11.7 0.0 3.2e-05 0.032 24 75 .. 116 169 .. 104 180 .. 0.77
Alignments for each domain:
== domain 1 score: 11.7 bits; conditional E-value: 3.2e-05
HHH-GGTTSEEEEES-TTTCCHHHH..HCC-SEEEEE-S-HHHHHHHHCHTTTC CS
RrnaAD 24 dklnleekltvleigpGkGilTeeL..akrakqvvvlElderLakllqkklskd 75
+l+ +++ vl++g G Gil+e+L +k +k+v + l ++ + + +++ +kd
sp|P27680|COQ3_YEAST 116 TNLDKRPEVSVLDVGCGGGILSESLarLKWVKNVQGIDLTRDCIMVAKEHAKKD 169
44555699*****************55566699988888777777777776655 PP
>> sp|P47163|EFM3_YEAST Protein-lysine N-methyltransferase EFM3 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ? 11.7 0.1 3.4e-05 0.034 29 74 .. 165 215 .. 147 326 .. 0.82
Alignments for each domain:
== domain 1 score: 11.7 bits; conditional E-value: 3.4e-05
GTTSEEEEES-TTTCCH.HHHHCC-...SEEEEE-S-HHHHHH.HHCHTTT CS
RrnaAD 29 eekltvleigpGkGilT.eeLakra...kqvvvlElderLakl.lqkklsk 74
++kl+vle+g+G+Gi + ++L k+ +++ v d++L++ l+ ++++
sp|P47163|EFM3_YEAST 165 KKKLNVLEVGAGTGIVSlVILQKYHefvNKMYVTDGDSNLVETqLKRNFEL 215
489*************95566888777899999999999998524554554 PP
>> sp|P40528|SYG1_YEAST Protein SYG1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) OX=559292 GN=SYG1 PE=1 SV
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ? 10.3 1.0 8.5e-05 0.086 98 188 .. 250 340 .. 236 368 .. 0.83
2 ? 0.8 0.1 0.068 68 71 120 .. 343 394 .. 337 406 .. 0.71
Alignments for each domain:
== domain 1 score: 10.3 bits; conditional E-value: 8.5e-05
TCCCCEEEEEEE--TTTHHHHHHHHHHGGGGCEEEEEEEEEHHHHHHHH--TTSTT-SHHHHHHHHHEEEEEEEEC-GGCECS--SSSE CS
RrnaAD 98 dsihqeflvvanlPyeistqlvkqlleesrfglvkmllwlqkefarrllarpgskkrsrlsvlreaftdvklvakveksifsPppkvds 186
+ +++l a + y++ qlvk + + g++km+ ++k+ r l + s +r ++++ +a ++v+lva+ ++i+s +p+ s
sp|P40528|SYG1_YEAST 250 TTQARNLLSNAIIEYYLYLQLVKSFRDINVTGFRKMVKKFDKTCHTRELTTFMSYARTHYTLFKHADANVQLVAQKMQQITSSQPTPTS 338
56678899999999*****************************************************************9998887666 PP
EE CS
RrnaAD 187 al 188
l
sp|P40528|SYG1_YEAST 339 EL 340
55 PP
== domain 2 score: 0.8 bits; conditional E-value: 0.068
HTTTCCCEEEE-S-CCGHHHHHHHCT....TTCCCCEEEEEEE--TTTHHHHHH CS
RrnaAD 71 klskdeklkvvhqDflkfetpeevte....kdsihqeflvvanlPyeistqlvk 120
+ +++e+++++++ + ++ t +t+ + + +++ + y is+q+v
sp|P40528|SYG1_YEAST 343 AQRDKEPITWLETQITEWFTTA-LTNspkdRKHNTHKLKKL-TIQYSISEQMVH 394
445899************9999.556695544444455444.577888888775 PP
Internal pipeline statistics summary:
-------------------------------------
Query model(s): 1 (265 nodes)
Target sequences: 6049 (2936363 residues searched)
Passed MSV filter: 307 (0.0507522); expected 121.0 (0.02)
Passed bias filter: 138 (0.0228137); expected 121.0 (0.02)
Passed Vit filter: 27 (0.00446355); expected 6.0 (0.001)
Passed Fwd filter: 6 (0.000991899); expected 0.1 (1e-05)
Initial search space (Z): 6049 [actual number of targets]
Domain search space (domZ): 6 [number of targets reported over threshold]
# CPU time: 0.08u 0.00s 00:00:00.08 Elapsed: 00:00:00.02
# Mc/sec: 38906.81
//
[ok]