# 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/Trichoplax_adhaerens.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
------- ------ ----- ------- ------ ----- ---- -- -------- -----------
1.2e-74 249.6 0.0 1.6e-74 249.2 0.0 1.1 1 tr|B3RZP1|B3RZP1_TRIAD Uncharacterized protein OS=Trichoplax
1e-45 155.3 0.1 3.9e-45 153.4 0.0 1.8 2 tr|B3S3E8|B3S3E8_TRIAD Uncharacterized protein (Fragment) OS
3.6e-37 127.3 0.0 3.2e-36 124.3 0.0 2.2 1 tr|B3RJG2|B3RJG2_TRIAD Uncharacterized protein OS=Trichoplax
9.3e-27 93.3 0.0 3.1e-26 91.6 0.0 1.8 1 tr|B3RI87|B3RI87_TRIAD Uncharacterized protein OS=Trichoplax
0.0013 17.7 0.0 0.0034 16.4 0.0 1.6 2 tr|B3RLV1|B3RLV1_TRIAD Uncharacterized protein OS=Trichoplax
0.0043 16.1 0.0 0.01 14.8 0.0 1.6 1 tr|B3RUJ8|B3RUJ8_TRIAD Uncharacterized protein OS=Trichoplax
------ inclusion threshold ------
0.026 13.5 0.1 0.056 12.5 0.1 1.6 1 tr|B3SDC9|B3SDC9_TRIAD Putative tRNA (cytidine(32)/guanosine
0.035 13.1 0.0 0.077 12.0 0.0 1.6 2 tr|B3S5V8|B3S5V8_TRIAD Uncharacterized protein OS=Trichoplax
0.05 12.6 0.0 0.062 12.3 0.0 1.2 1 tr|B3RQF2|B3RQF2_TRIAD Uncharacterized protein OS=Trichoplax
0.068 12.2 0.0 0.15 11.0 0.0 1.7 1 tr|B3RJQ6|B3RJQ6_TRIAD Protein-L-isoaspartate O-methyltransf
Domain annotation for each sequence (and alignments):
>> tr|B3RZP1|B3RZP1_TRIAD Uncharacterized protein OS=Trichoplax adhaerens OX=10228 GN=TRIADDRAFT_26585 PE=3 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 249.2 0.0 1.4e-77 1.6e-74 1 200 [] 154 362 .. 154 362 .. 0.94
Alignments for each domain:
== domain 1 score: 249.2 bits; conditional E-value: 1.4e-77
HHHH---TT-EEEECS-TT-HHHHHHHHHTTTTSEEEEEESSCCCHHHHHHHHHHTT--SEEEEES-CCCCHHHHCC--EEEEEEEE CS
Methyltr_RsmB-F 1 allLapqeeetilDlcaaPGgKTthiaelmknkgtvvAvdankeRlkrvaenlkrLgvtntivleaDarkidkvlggelfDriLlDa 87
+++La q++e++lD+c+aPGgKTt+ia+lmkn+g +vA+d+nkeR k++++n++rLgv ntiv++ +r+++k++gg fDr+LlDa
tr|B3RZP1|B3RZP1_TRIAD 154 VMALAAQPNEKVLDMCSAPGGKTTYIAALMKNTGMIVANDVNKERCKALTANIHRLGVVNTIVCSENGRQFPKIVGG--FDRVLLDA 238
589*************************************************************************9..******** PP
--CCGGGTTT-TTHHHH.-CCHHCCHHHHHHHHHHHHHHHE....EEEEEEEEEES---CTCTHHHHHHHHHH-TTEEEESSBSTTS CS
Methyltr_RsmB-F 88 PCsgtgvirrdpdvklrrkekdiaqlaklqkellsaaidll....kkgGvlvYsTCsvlveEneevieeaLkkredvelvetelsep 170
PCsgtgvi++d +vk ++ ekdi ++++ qkell +aid++ +gG++vY+TCs+ veE+e+v+++aLk+r v+lv+t l+ +
tr|B3RZP1|B3RZP1_TRIAD 239 PCSGTGVISKDASVKSNKVEKDILRCSHIQKELLLSAIDSVdarsSTGGYIVYCTCSIMVEEDEWVVDYALKRR-SVKLVSTGLEFG 324
*****************************************999899*************************99.999*99976544 PP
TTSSECEEC........T-EEE-TTTTS.-SEEEEEEE CS
Methyltr_RsmB-F 171 kglklgeea........gtlrllPhtenkdgffiaklk 200
++ ++ ++ t+r++Ph++n+dgff+ak+k
tr|B3RZP1|B3RZP1_TRIAD 325 REGFTKFKErrfhptlkLTRRYYPHEHNMDGFFVAKFK 362
3322222225799**999******************96 PP
>> tr|B3S3E8|B3S3E8_TRIAD Uncharacterized protein (Fragment) OS=Trichoplax adhaerens OX=10228 GN=TRIADDRAFT_28123 PE=3
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ? -0.9 0.0 0.58 6.7e+02 138 166 .. 26 54 .. 21 62 .. 0.84
2 ! 153.4 0.0 3.3e-48 3.9e-45 3 165 .. 198 369 .. 196 392 .. 0.96
Alignments for each domain:
== domain 1 score: -0.9 bits; conditional E-value: 0.58
ES---CTCTHHHHHHHHHH-TTEEEESSB CS
Methyltr_RsmB-F 138 TCsvlveEneevieeaLkkredvelvete 166
T +++E e+++ ++++kr++ +l +++
tr|B3S3E8|B3S3E8_TRIAD 26 TVHFTIDEAEKMLRDIIEKRAERKLANLQ 54
5667899*************999998876 PP
== domain 2 score: 153.4 bits; conditional E-value: 3.3e-48
HH---TT-EEEECS-TT-HHHHHHHHHTTTTSEEEEEESSCCCHHHHHHHHHHTT--SEEEEES-CCCCHHHHCC............ CS
Methyltr_RsmB-F 3 lLapqeeetilDlcaaPGgKTthiaelmknkgtvvAvdankeRlkrvaenlkrLgvtntivleaDarkidkvlgg............ 77
+L+p+e++tilD+c+aPGgK thia lmknkgt++A+d++k++l+++++n +rL++ + v+ D +k ++ +
tr|B3S3E8|B3S3E8_TRIAD 198 VLNPHEGDTILDMCSAPGGKATHIATLMKNKGTIIALDKSKSKLHKIKSNAERLNLSCIEVFAFDSTKAVADICQcqeglrcppfal 284
8******************************************************************998888888899******** PP
--EEEEEEEE--CCGGGTTT-TTHHHH.-CCHHCCHHHHHHHHHHHHHHHEEEEEEEEEEES---CTCTHHHHHHHHHH-TTEEEES CS
Methyltr_RsmB-F 78 elfDriLlDaPCsgtgvirrdpdvklrrkekdiaqlaklqkellsaaidllkkgGvlvYsTCsvlveEneevieeaLkkredvelve 164
e fDriLlD PCsg+g ++p + ++ + k++ +++ q++lls a++llk gG+lvY+TC++++ Ene i aL++ ++ el++
tr|B3S3E8|B3S3E8_TRIAD 285 ESFDRILLDPPCSGMG---QRPCLAYKMSAKELRSYSCYQRKLLSQAFQLLKVGGILVYCTCTLTLSENERNISWALSNYPELELCN 368
**************98...7899999*********************************************************9987 PP
S CS
Methyltr_RsmB-F 165 t 165
tr|B3S3E8|B3S3E8_TRIAD 369 Q 369
5 PP
>> tr|B3RJG2|B3RJG2_TRIAD Uncharacterized protein OS=Trichoplax adhaerens OX=10228 GN=TRIADDRAFT_19981 PE=3 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 124.3 0.0 2.7e-39 3.2e-36 2 200 .] 154 413 .. 153 413 .. 0.86
Alignments for each domain:
== domain 1 score: 124.3 bits; conditional E-value: 2.7e-39
HHH---TT-EEEECS-TT-HHHHHHHHHTTT.......TSEEEEEESSCCCHHHHHHHHHHTT--SEEEEES-CCCCHHHHCC.... CS
Methyltr_RsmB-F 2 llLapqeeetilDlcaaPGgKTthiaelmkn.......kgtvvAvdankeRlkrvaenlkrLgvtntivleaDarkidkvlgg.... 77
llL+ q++ +lD+caaPG+KT+ + e++++ g ++A+da+++R +++ krL+ +++++Da+ ++++
tr|B3RJG2|B3RJG2_TRIAD 154 LLLDVQPHHYVLDMCAAPGSKTAQLIEFLHQdsskiipDGLIIANDADNKRCYMLVHQSKRLNSPCFMITNYDASTMPNIYISkdgi 240
5899**********************99654122222246799********************************999865545899 PP
.....--EEEEEEEE--CCGGGTTT-TTHHHH.-CCHHCCHHHHHHHHHHHHHHHEEEEEEEEEEES---CTCTHHHHHHHHHH-T. CS
Methyltr_RsmB-F 78 .....elfDriLlDaPCsgtgvirrdpdvklrrkekdiaqlaklqkellsaaidllkkgGvlvYsTCsvlveEneevieeaLkkre. 158
+++DriL D+PCsg g++r++ + r ++++ +l+ lq ++l ++ll ++G+lvYsTCs ++ Ene+ i+++Lkk
tr|B3RJG2|B3RJG2_TRIAD 241 sknipIVYDRILCDVPCSGDGTLRKNIMLWKRWNQNNALSLHCLQLRILIRGVELLARDGILVYSTCSFNPIENEAIIAALLKKAGg 327
999999*********************9955557788999******************************************99742 PP
TEEEESSBSTTSTTSSECEEC...............................................T-EEE-TTTTS.-SEEEEE CS
Methyltr_RsmB-F 159 dvelvetelsepkglklgeea...............................................gtlrllPhtenkdgffiak 198
++lv+++ + p +l++ + lr+lP+ +n+ gff+a
tr|B3RJG2|B3RJG2_TRIAD 328 SIKLVDVSDKLP---ALKRRSgmntwkvlskqgnwynnfsdvpvsdsamikpsmfppseseaqemhldRCLRILPQDQNTGGFFVAV 411
677777743332...22222233569999999*********************************999999**************98 PP
EE CS
Methyltr_RsmB-F 199 lk 200
l+
tr|B3RJG2|B3RJG2_TRIAD 412 LQ 413
85 PP
>> tr|B3RI87|B3RI87_TRIAD Uncharacterized protein OS=Trichoplax adhaerens OX=10228 GN=TRIADDRAFT_52388 PE=3 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 91.6 0.0 2.7e-29 3.1e-26 2 199 .. 113 302 .. 112 303 .. 0.76
Alignments for each domain:
== domain 1 score: 91.6 bits; conditional E-value: 2.7e-29
HHH---TT-EEEECS-TT-HHHHHHHHHTTTTSEEEEEESSCCCHHHHHHHHHHTT--SEEEEES-CCCCHHHHCC--EEEEEEEE- CS
Methyltr_RsmB-F 2 llLapqeeetilDlcaaPGgKTthiaelmknkgtvvAvdankeRlkrvaenlkrLgvtntivleaDarkidkvlggelfDriLlDaP 88
+L+p ++ i+D+caaPG KT+h+a ++ n g+++A d++ +R+k + e l + gv+ v+e++ + iLlD
tr|B3RI87|B3RI87_TRIAD 113 FTLNPPPQSCIIDACAAPGNKTSHLASIIGNVGKIYAFDISPNRIKTMRELLDKAGVN---VMEYEDV-----------EYILLDPS 185
68*******************************************************9...6666544...........459***** PP
-CCGGGTTT...-T.THHH.H.-CCHHCCHHHHHHHHHHHHH..HHEEEEEEEEEEES---CTCTHHHHHHHHHH-.TTEEEESSBS CS
Methyltr_RsmB-F 89 Csgtgvirr...dp.dvkl.rrkekdiaqlaklqkellsaai..dllkkgGvlvYsTCsvlveEneevieeaLkkr.edvelvetel 167
Csg g+++r + + kl + +++ +++la q + l+ a+ +++k +vYsTCs++veEneev+e+aLk ++ +l+++ l
tr|B3RI87|B3RI87_TRIAD 186 CSGSGIVDRgdiNAeSKKLcNANKNRLQSLADFQLKALKQALsfPSVK---KVVYSTCSMNVEENEEVVEAALKVFgNKYKLIPV-L 268
*******99433221223313345567788888888887765114455...59********************985267888887.3 PP
TT...STTSSECEECT-EEE-TTTTS.-SEEEEEE CS
Methyltr_RsmB-F 168 se...pkglklgeeagtlrllPhtenkdgffiakl 199
++ + + + + + r P+t ++ gff+a +
tr|B3RI87|B3RI87_TRIAD 269 EDwpyRGMSGYAHWKFMFRSSPKT-STTGFFVALF 302
331002233344444788888988.8889999976 PP
>> tr|B3RLV1|B3RLV1_TRIAD Uncharacterized protein OS=Trichoplax adhaerens OX=10228 GN=TRIADDRAFT_19892 PE=3 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 16.4 0.0 2.9e-06 0.0034 2 74 .. 41 114 .. 40 141 .. 0.72
2 ? -2.9 0.0 2.4 2.7e+03 121 136 .. 265 280 .. 260 325 .. 0.64
Alignments for each domain:
== domain 1 score: 16.4 bits; conditional E-value: 2.9e-06
HHH---TT-EEEECS-TT-HHHHHHHHHTTTTSEEEEEESSC...CCHHHHHHHHHHTT--SEEEEES-CCCCHHH CS
Methyltr_RsmB-F 2 llLapqeeetilDlcaaPGgKTthiaelmknkgtvvAvdank...eRlkrvaenlkrLgvtntivleaDarkidkv 74
lLap +++ +D+ + Gg T+ i++ ++ +++A+d++ R+k++a++++ ++ ++v++ ++++
tr|B3RLV1|B3RLV1_TRIAD 41 KLLAPANGQSYIDATFGGGGHTSAILKA-ATDCQIYAIDTDPlaiARAKQLASTTSNWIQR-LKVVQCRFGQMENK 114
589************************9.9999******9874447999999987766555.55555555554443 PP
== domain 2 score: -2.9 bits; conditional E-value: 2.4
HHHHHHHEEEEEEEEE CS
Methyltr_RsmB-F 121 lsaaidllkkgGvlvY 136
l+a +llk+gG l+
tr|B3RLV1|B3RLV1_TRIAD 265 LNACKALLKNGGRLIV 280
6778888899998863 PP
>> tr|B3RUJ8|B3RUJ8_TRIAD Uncharacterized protein OS=Trichoplax adhaerens OX=10228 GN=TRIADDRAFT_24037 PE=4 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 14.8 0.0 9e-06 0.01 9 73 .. 132 198 .. 127 216 .. 0.77
Alignments for each domain:
== domain 1 score: 14.8 bits; conditional E-value: 9e-06
T-E..EEECS-TT-HHHHHHHHHTTTTSEEEEEESSCCCHHHHHHHHHHTT--.SEEEEES-CCCCHH CS
Methyltr_RsmB-F 9 eet..ilDlcaaPGgKTthiaelmknkgtvvAvdankeRlkrvaenlkrLgvt.ntivleaDarkidk 73
+e +lD+c++ G+ ++ ++++t +A+d++ + ++ + n +rL++ +iv + D+ k++
tr|B3RUJ8|B3RUJ8_TRIAD 132 NESitFLDICCGSGAIGLSLLC-ENPQATCIAIDKDPNAISLTELNSQRLNLGsRMIVEHLDVMKTEF 198
443238******9997655554.4799************************98457777889988754 PP
>> tr|B3SDC9|B3SDC9_TRIAD Putative tRNA (cytidine(32)/guanosine(34)-2'-O)-methyltransferase OS=Trichoplax adhaerens OX=
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ? 12.5 0.1 4.9e-05 0.056 12 73 .. 45 105 .. 39 163 .. 0.75
Alignments for each domain:
== domain 1 score: 12.5 bits; conditional E-value: 4.9e-05
EEECS-TT-HHHHHHHHHTTTTSEEEEEESSCCCHHHHHHHHHHTT.--SEEEEES-CCCCHH CS
Methyltr_RsmB-F 12 ilDlcaaPGgKTthiaelmknkgtvvAvdankeRlkrvaenlkrLg.vtntivleaDarkidk 73
+DlcaaPG+ +++ ++n+ ++ +a+++++k va +l+ + + +i +++D++ +++
tr|B3SDC9|B3SDC9_TRIAD 45 AVDLCAAPGSWSQVLSKKLRNQENLS--EAEQSKVKIVAVDLQAMApLDGVIQIQGDITSVST 105
68***************99****996..66677788888888888615567778888877643 PP
>> tr|B3S5V8|B3S5V8_TRIAD Uncharacterized protein OS=Trichoplax adhaerens OX=10228 GN=TRIADDRAFT_64190 PE=3 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ? -4.0 0.0 5.5 6.3e+03 183 197 .. 73 87 .. 66 88 .. 0.63
2 ? 12.0 0.0 6.7e-05 0.077 7 86 .. 151 229 .. 147 254 .. 0.78
Alignments for each domain:
== domain 1 score: -4.0 bits; conditional E-value: 5.5
EE-TTTTS.-SEEEE CS
Methyltr_RsmB-F 183 rllPhtenkdgffia 197
+++ + + ++g+fia
tr|B3S5V8|B3S5V8_TRIAD 73 KVMIEPHRHEGVFIA 87
444455567899988 PP
== domain 2 score: 12.0 bits; conditional E-value: 6.7e-05
-TT-EEEECS-TT-HHHHHHHHHTTTTSEEEEEESSCCCHHHHHHHHHHTT--SEEEEES-CCCCHHHHCC.--EEEEEEE CS
Methyltr_RsmB-F 7 qeeetilDlcaaPGgKTthiaelmknkgtvvAvdankeRlkrvaenlkrLgvtntivleaDarkidkvlgg.elfDriLlD 86
+++ ++l l aa G +h+++++ ++g v+Av+ +++ + +++ k+ tn+i + Dar+++k+ ++D i D
tr|B3S5V8|B3S5V8_TRIAD 151 KPGAKVLYLGAASGTTVSHVSDIVGPNGLVYAVEFSHRSGRDLINVAKK--RTNIIPIIEDARHPHKYRMLvGMVDVIFAD 229
566789999*************************987665555544433..345677788999998875433467777666 PP
>> tr|B3RQF2|B3RQF2_TRIAD Uncharacterized protein OS=Trichoplax adhaerens OX=10228 GN=TRIADDRAFT_54966 PE=4 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ? 12.3 0.0 5.4e-05 0.062 30 88 .. 69 126 .. 44 161 .. 0.85
Alignments for each domain:
== domain 1 score: 12.3 bits; conditional E-value: 5.4e-05
TTTTSEEEEEESSCCCHHHHHHHHHHTT--SEEEEES-CCCCHHHHCC--EEEEEEEE- CS
Methyltr_RsmB-F 30 mknkgtvvAvdankeRlkrvaenlkrLgvtntivleaDarkidkvlggelfDriLlDaP 88
m +++ +v +d+++ l +n++ + ++n+++++a ++ + ++ gg+ fD +++ P
tr|B3RQF2|B3RQF2_TRIAD 69 MLDASLIVGIDIDDDALMIARRNIEEFELENVQLIKANISDT-EFFGGKIFDTVIMNPP 126
4578899**********************************9.788889******9988 PP
>> tr|B3RJQ6|B3RJQ6_TRIAD Protein-L-isoaspartate O-methyltransferase OS=Trichoplax adhaerens OX=10228 GN=TRIADDRAFT_495
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ? 11.0 0.0 0.00013 0.15 5 83 .. 75 156 .. 69 175 .. 0.75
Alignments for each domain:
== domain 1 score: 11.0 bits; conditional E-value: 0.00013
---TT-EEEECS-TT-HHHHHHHHHTTTTSEEEEEESSCCCHHHHHHHHHHTT--.....SEEEEES-CCCCHHHHCC--EEEE CS
Methyltr_RsmB-F 5 apqeeetilDlcaaPGgKTthiaelmknkgtvvAvdankeRlkrvaenlkrLgvt.....ntivleaDarkidkvlggelfDri 83
+++e+ tilD+ ++ G T+ +a ++ ++g+v+ +++ e ++ +n+++++ ++++ +D+r + g+ fD i
tr|B3RJQ6|B3RJQ6_TRIAD 75 NLKEGCTILDVGSGSGYLTACMAMMVGSSGKVYGIEHIPELISLSRNNINKFNPSllesdRIQLIVGDGRLG--YELGAPFDAI 156
6789999*****************************999988888888888764422233666677776655..2233456665 PP
Internal pipeline statistics summary:
-------------------------------------
Query model(s): 1 (200 nodes)
Target sequences: 11518 (5222075 residues searched)
Passed MSV filter: 473 (0.0410662); expected 230.4 (0.02)
Passed bias filter: 301 (0.026133); expected 230.4 (0.02)
Passed Vit filter: 31 (0.00269144); expected 11.5 (0.001)
Passed Fwd filter: 10 (0.000868206); expected 0.1 (1e-05)
Initial search space (Z): 11518 [actual number of targets]
Domain search space (domZ): 10 [number of targets reported over threshold]
# CPU time: 0.11u 0.01s 00:00:00.12 Elapsed: 00:00:00.05
# Mc/sec: 20888.30
//
[ok]