# 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/Methyltr_RsmB-F.hmm.txt
# target sequence database: proteomes/Saccharomyces_cerevisiae.fasta
# - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: Methyltr_RsmB-F [M=200]
Accession: PF01189.16
Description: 16S rRNA methyltransferase RsmB/F
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
------- ------ ----- ------- ------ ----- ---- -- -------- -----------
3.1e-83 276.8 0.0 6.5e-83 275.7 0.0 1.6 1 sp|P40991|NOP2_YEAST 25S rRNA (cytosine(2870)-C(5))-methyltr
3e-42 143.0 0.1 2.2e-41 140.2 0.1 2.2 1 sp|P38205|NCL1_YEAST Multisite-specific tRNA:(cytosine-C(5))
4.7e-18 64.0 0.0 3.9e-11 41.4 0.0 2.4 2 sp|P53972|RCM1_YEAST 25S rRNA (cytosine(2278)-C(5))-methyltr
------ inclusion threshold ------
0.027 12.6 0.0 0.06 11.4 0.0 1.5 2 sp|P15646|FBRL_YEAST rRNA 2'-O-methyltransferase fibrillarin
Domain annotation for each sequence (and alignments):
>> sp|P40991|NOP2_YEAST 25S rRNA (cytosine(2870)-C(5))-methyltransferase OS=Saccharomyces cerevisiae (strain ATCC 20450
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 275.7 0.0 4.3e-86 6.5e-83 1 200 [] 338 547 .. 338 547 .. 0.95
Alignments for each domain:
== domain 1 score: 275.7 bits; conditional E-value: 4.3e-86
HHHH---TT-EEEECS-TT-HHHHHHHHHTTTTSEEEEEESSCCCHHHHHHHHHHTT--SEEEEES-CCCCHHHHCC--EEEEEEEE-- CS
Methyltr_RsmB-F 1 allLapqeeetilDlcaaPGgKTthiaelmknkgtvvAvdankeRlkrvaenlkrLgvtntivleaDarkidkvlggelfDriLlDaPC 89
+++L+p+e+e+ilD++aaPGgKTt+i+++mkn+g+v+A+dank+R+k++++n++rLg+tntiv+++Dar+++kv+gg fDriLlDaPC
sp|P40991|NOP2_YEAST 338 VIALDPHENERILDMAAAPGGKTTYISAMMKNTGCVFANDANKSRTKSLIANIHRLGCTNTIVCNYDAREFPKVIGG--FDRILLDAPC 424
589*************************************************************************9..********** PP
CCGGGTTT-TTHHHH.-CCHHCCHHHHHHHHHHHHHHHE....EEEEEEEEEES---CTCTHHHHHHHHHH-TTEEEESSBSTTSTTSS CS
Methyltr_RsmB-F 90 sgtgvirrdpdvklrrkekdiaqlaklqkellsaaidll....kkgGvlvYsTCsvlveEneevieeaLkkredvelvetelsepkglk 174
sgtgvi +d++vk++r+ekd++q+ +lqk+ll +aid++ k+gGv+vYsTCsv+veE+e+vi++aL+kr++v+lv+t l
sp|P40991|NOP2_YEAST 425 SGTGVIGKDQSVKVSRTEKDFIQIPHLQKQLLLSAIDSVdcnsKHGGVIVYSTCSVAVEEDEAVIDYALRKRPNVKLVDTGLAI----- 508
********************************************************************************6554..... PP
ECEEC..............T-EEE-TTTTS.-SEEEEEEE CS
Methyltr_RsmB-F 175 lgeea..............gtlrllPhtenkdgffiaklk 200
g+ea ++r++Pht+n+dgff+ak++
sp|P40991|NOP2_YEAST 509 -GKEAftsyrgkkfhpsvkLARRYYPHTYNVDGFFVAKFQ 547
.4444444445788999999******************96 PP
>> sp|P38205|NCL1_YEAST Multisite-specific tRNA:(cytosine-C(5))-methyltransferase OS=Saccharomyces cerevisiae (strain A
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 140.2 0.1 1.4e-44 2.2e-41 2 199 .. 159 408 .. 158 409 .. 0.88
Alignments for each domain:
== domain 1 score: 140.2 bits; conditional E-value: 1.4e-44
HHH---TT-EEEECS-TT-HHHHHHHHH.TTT....TSEEEEEESSCCCHHHHHHHHHHTT--SEEEEES-CCCCHHHHCC........ CS
Methyltr_RsmB-F 2 llLapqeeetilDlcaaPGgKTthiael.mkn....kgtvvAvdankeRlkrvaenlkrLgvtntivleaDarkidkvlgg........ 77
++L+ +++ t+lD+caaPG+KT+ + e k+ +g vvA+da+++R + +++ lkrL+ n++v++ Da+ ++++ +
sp|P38205|NCL1_YEAST 159 IVLEVKPHHTVLDMCAAPGSKTAQLIEAlHKDtdepSGFVVANDADARRSHMLVHQLKRLNSANLMVVNHDAQFFPRIRLHgnsnnknd 247
789********************9887624432222588************************************99877668999999 PP
.--EEEEEEEE--CCGGGTTT-TTHHHH.-CCHHCCHHHHHHHHHHHHHHHEEEEEEEEEEES---CTCTHHHHHHHHHH-.TTEEEES CS
Methyltr_RsmB-F 78 .elfDriLlDaPCsgtgvirrdpdvklrrkekdiaqlaklqkellsaaidllkkgGvlvYsTCsvlveEneevieeaLkkr.edvelve 164
+fDriL D+PCsg g++r++ +v + + l+ q ++l+ ++llk++G lvYsTCs+++ Ene+v++eaL+k ++++lv+
sp|P38205|NCL1_YEAST 248 vLKFDRILCDVPCSGDGTMRKNVNVWKDWNTQAGLGLHAVQLNILNRGLHLLKNNGRLVYSTCSLNPIENEAVVAEALRKWgDKIRLVN 336
999**********************66667777789*******************************************9636789998 PP
SBSTTST.TSSECEEC....................................T-EEE-TTTTS.-SEEEEEE CS
Methyltr_RsmB-F 165 telsepk.glklgeea....................................gtlrllPhtenkdgffiakl 199
+ + p + + g+ + + +r++Ph++n+ gffi+ +
sp|P38205|NCL1_YEAST 337 CDDKLPGlIRSKGVSKwpvydrnltektkgdegtldsffspseeeaskfnlqNCMRVYPHQQNTGGFFITVF 408
865544303333444499*********************************999**************9866 PP
>> sp|P53972|RCM1_YEAST 25S rRNA (cytosine(2278)-C(5))-methyltransferase OS=Saccharomyces cerevisiae (strain ATCC 20450
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 41.4 0.0 2.6e-14 3.9e-11 2 98 .. 236 339 .. 235 353 .. 0.87
2 ! 20.3 0.0 7.7e-08 0.00012 111 158 .. 377 423 .. 356 487 .. 0.76
Alignments for each domain:
== domain 1 score: 41.4 bits; conditional E-value: 2.6e-14
HHH---TT-EEEECS-TT-HHHHHHHHHT......TTTSEEEEEESSCCCHHHHHHHHHHTT--.SEEEEES-CCCCHHHHCC--EEEE CS
Methyltr_RsmB-F 2 llLapqeeetilDlcaaPGgKTthiaelm......knkgtvvAvdankeRlkrvaenlkrLgvt.ntivleaDarkidkvlggelfDri 83
+L+p + + ++D c+aPG KTth a + +n+ +++A +++ eR+k +++ +k g+ n+ v +D +k + + +
sp|P53972|RCM1_YEAST 236 HILNPGPSDIVIDSCSAPGNKTTHTASYIypeppkDNNTRIYAFEKDPERAKVLQKMIKIAGCSpNISVNVGDFTKLATPEKYKDVTCF 324
68***********************987423333257899***********************99999********9776666889999 PP
EEEE--CCGGGTTT- CS
Methyltr_RsmB-F 84 LlDaPCsgtgvirrd 98
++D Csg g+ r+
sp|P53972|RCM1_YEAST 325 IVDPSCSGSGIFGRK 339
***********9886 PP
== domain 2 score: 20.3 bits; conditional E-value: 7.7e-08
CCHHHHHHHHHHHHHHHEEEEEEEEEEES---CTCTHHHHHHHHHH-T CS
Methyltr_RsmB-F 111 aqlaklqkellsaaidllkkgGvlvYsTCsvlveEneevieeaLkkre 158
a+l++ q ++++ a+ + +vYsTCs++ eEne v+ ++L ++
sp|P53972|RCM1_YEAST 377 AKLSSFQFQMVKHAMSF-PAAKKIVYSTCSIHAEENERVVIDLLLDKS 423
55555666666655543.344579**************9998887764 PP
>> sp|P15646|FBRL_YEAST rRNA 2'-O-methyltransferase fibrillarin OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ? 11.4 0.0 3.9e-05 0.06 9 84 .. 167 241 .. 162 254 .. 0.78
2 ? -3.3 0.0 1.3 2e+03 33 50 .. 282 299 .. 278 306 .. 0.80
Alignments for each domain:
== domain 1 score: 11.4 bits; conditional E-value: 3.9e-05
T-EEEECS-TT-HHHHHHHHHTTTTSEEEEEESSCCCHHHHHHHHHHTT--SEEEEES-CCCCHHHHCC.--EEEEE CS
Methyltr_RsmB-F 9 eetilDlcaaPGgKTthiaelmknkgtvvAvdankeRlkrvaenlkrLgvtntivleaDarkidkvlgg.elfDriL 84
++++l l aa G +h+++++ ++g+v+Av+ +++ +++++ k+ + n+i + Dar+++k+ ++D +
sp|P15646|FBRL_YEAST 167 GKKVLYLGAASGTSVSHVSDVVGPEGVVYAVEFSHRPGRELISMAKKRP--NIIPIIEDARHPQKYRMLiGMVDCVF 241
6679999**************************9988888877776654..45666678888887654323556555 PP
== domain 2 score: -3.3 bits; conditional E-value: 1.3
TSEEEEEESSCCCHHHHH CS
Methyltr_RsmB-F 33 kgtvvAvdankeRlkrva 50
+ tv+A +++k R +r++
sp|P15646|FBRL_YEAST 282 AETVFAREVQKLREERIK 299
578999999999988876 PP
Internal pipeline statistics summary:
-------------------------------------
Query model(s): 1 (200 nodes)
Target sequences: 6049 (2936363 residues searched)
Passed MSV filter: 229 (0.0378575); expected 121.0 (0.02)
Passed bias filter: 163 (0.0269466); expected 121.0 (0.02)
Passed Vit filter: 11 (0.00181848); expected 6.0 (0.001)
Passed Fwd filter: 4 (0.000661266); expected 0.1 (1e-05)
Initial search space (Z): 6049 [actual number of targets]
Domain search space (domZ): 4 [number of targets reported over threshold]
# CPU time: 0.07u 0.00s 00:00:00.07 Elapsed: 00:00:00.03
# Mc/sec: 19575.75
//
[ok]