# 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/FtsJ.hmm.txt
# target sequence database: proteomes/Pseudomonas_aeruginosa.fasta
# - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: FtsJ [M=177]
Accession: PF01728.18
Description: FtsJ-like methyltransferase
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
------- ------ ----- ------- ------ ----- ---- -- -------- -----------
5.6e-57 191.0 0.0 6.6e-57 190.8 0.0 1.1 1 sp|P95454|RLME_PSEAE Ribosomal RNA large subunit methyltra
3.8e-09 35.2 0.0 6.7e-09 34.4 0.0 1.5 1 sp|Q9I3F4|RLMM_PSEAE Ribosomal RNA large subunit methyltra
0.00011 20.7 0.0 0.00016 20.2 0.0 1.2 1 sp|Q9I7A9|RSMB_PSEAE Ribosomal RNA small subunit methyltra
0.00022 19.7 0.0 0.00056 18.4 0.0 1.7 1 sp|Q9HZ63|UBIG_PSEAE Ubiquinone biosynthesis O-methyltrans
0.00044 18.8 0.0 0.00097 17.6 0.0 1.5 2 tr|Q9I615|Q9I615_PSEAE Malonyl-[acyl-carrier protein] O-meth
0.0009 17.7 0.0 0.0013 17.2 0.0 1.2 1 tr|Q9I5X8|Q9I5X8_PSEAE Uncharacterized protein OS=Pseudomona
0.0022 16.5 0.0 0.0039 15.7 0.0 1.3 1 tr|Q9I6D9|Q9I6D9_PSEAE Uncharacterized protein OS=Pseudomona
0.0038 15.7 0.0 0.0045 15.5 0.0 1.2 1 tr|Q9I2I3|Q9I2I3_PSEAE Uncharacterized protein OS=Pseudomona
0.0047 15.4 0.0 0.0077 14.7 0.0 1.5 1 sp|Q9I5G3|CMOA_PSEAE Carboxy-S-adenosyl-L-methionine synth
------ inclusion threshold ------
0.06 11.8 0.0 0.096 11.1 0.0 1.3 1 tr|Q9HT28|Q9HT28_PSEAE Uncharacterized protein OS=Pseudomona
Domain annotation for each sequence (and alignments):
>> sp|P95454|RLME_PSEAE Ribosomal RNA large subunit methyltransferase E OS=Pseudomonas aeruginosa (strain ATCC 15692 /
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 190.8 0.0 1.2e-59 6.6e-57 1 177 [] 28 204 .. 28 204 .. 1.00
Alignments for each domain:
== domain 1 score: 190.8 bits; conditional E-value: 1.2e-59
TTSHHHHHHHHHHHHH--S-TT-EEEEES-TT-HHHHHHTTT...-SEEEEEESS-----TT-EEEE--TTSSSHHHHHHHHHHHSSEE CS
FtsJ 1 yrsRsayKLleidekfklfkpgktvvDlgaaPGgwsqvllqrlgakgkvvavDlqpmaplpgvttiqgditdpetiekikealserkvd 89
yrsR++yKLlei+ek ++++pg+tvvDlgaaPGgwsqv ++ +g +g+++a D+ +m+ +p vt+iqgd+t+ ++ +i+ea+++++vd
sp|P95454|RLME_PSEAE 28 YRSRASYKLLEIQEKDRILRPGMTVVDLGAAPGGWSQVTSRVIGDRGRLIASDILEMDSIPDVTFIQGDFTEDAVFARILEAIGDHPVD 116
9*******************************************9******************************************** PP
EEEE-------S-HHHHHHHHHHHHHHHHHHHHHHEEEEEEEEEEEE-STTHHHHHHHHGGGEEEEEEE----------EEEEEEEEE CS
FtsJ 90 lvvsDgapdvsgvhdldeylqsqLllaalelalkllkpggtfvlkifrgeeteallkqlkkfFekvsvvkPkssrsesseeflvcrgf 177
lv+sD+ap++sgv++ d+ +++ L++ al la ++l+pgg f++kif+ge ++++ kq +++F+kv+++kP ssr +s+e +l++rgf
sp|P95454|RLME_PSEAE 117 LVISDMAPNMSGVRAADQPRAMYLCELALDLAGRVLRPGGDFLIKIFQGEGFDQYHKQAREMFDKVQMRKPLSSRDRSREQYLLARGF 204
**************************************************************************************98 PP
>> sp|Q9I3F4|RLMM_PSEAE Ribosomal RNA large subunit methyltransferase M OS=Pseudomonas aeruginosa (strain ATCC 15692 /
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 34.4 0.0 1.2e-11 6.7e-09 3 72 .. 182 275 .. 180 323 .. 0.76
Alignments for each domain:
== domain 1 score: 34.4 bits; conditional E-value: 1.2e-11
SHHHHHHHHHHHHH.......--S-TT-EEEEES-TT-HHHHHHTTT...-SEEEEEESS--....................---TT-E CS
FtsJ 3 sRsayKLleidekf.......klfkpgktvvDlgaaPGgwsqvllqrlgakgkvvavDlqpm....................aplpgvt 64
sRs +KL+e+ ++f k + p++ +vDlgaaPGgw+ l++r + +v avD +pm +p+++v
sp|Q9I3F4|RLMM_PSEAE 182 SRSTLKLEEAWHQFiprsewdKRLAPDMLAVDLGAAPGGWTWQLVNR---EMRVTAVDNGPMaenlmysglvdhqkvdgyqyRPRQRVD 267
8*************443333224456677***************999...389*********776666666666655555555556666 PP
EEE--TTS CS
FtsJ 65 tiqgditd 72
+ +di +
sp|Q9I3F4|RLMM_PSEAE 268 WMVCDIVE 275
66666644 PP
>> sp|Q9I7A9|RSMB_PSEAE Ribosomal RNA small subunit methyltransferase B OS=Pseudomonas aeruginosa (strain ATCC 15692 /
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 20.2 0.0 2.9e-07 0.00016 19 60 .. 241 282 .. 231 371 .. 0.80
Alignments for each domain:
== domain 1 score: 20.2 bits; conditional E-value: 2.9e-07
S-TT-EEEEES-TT-HHHHHHTTT...-SEEEEEESS----- CS
FtsJ 19 fkpgktvvDlgaaPGgwsqvllqrlgakgkvvavDlqpmapl 60
pg++v+D ++aPGg + ll+ + + vvavDl + +++
sp|Q9I7A9|RSMB_PSEAE 241 SAPGQRVLDACCAPGGKTCHLLETQPELAEVVAVDLEESRLV 282
3599********************7556********998554 PP
>> sp|Q9HZ63|UBIG_PSEAE Ubiquinone biosynthesis O-methyltransferase OS=Pseudomonas aeruginosa (strain ATCC 15692 / DSM
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 18.4 0.0 1e-06 0.00056 11 93 .. 39 119 .. 35 167 .. 0.78
Alignments for each domain:
== domain 1 score: 18.4 bits; conditional E-value: 1e-06
HHHHHH--S-TT-EEEEES-TT-HHHHHHTTT...-SEEEEEESS--....---TT-EEE....E--TTSSSHHHHHHHHHHHSSEEEE CS
FtsJ 11 eidekfklfkpgktvvDlgaaPGgwsqvllqrlgakgkvvavDlqpm....aplpgvtti....qgditdpetiekikealserkvdlv 91
+ide+ + + gk+v+D+g++ G s+ ++qr g + v ++D+++ a +++++ d ++ +++++ +e+ ++d+v
sp|Q9HZ63|UBIG_PSEAE 39 WIDERAG-L-AGKKVLDIGCGGGILSEAMAQR-G--ASVTGIDMGEAplavA---RLHQLesgvAVDYRQITAEQMAEEM--PGQFDVV 117
6888888.4.699*******************.6..69********854441...5555544345555555444444432..2479999 PP
EE CS
FtsJ 92 vs 93
++
sp|Q9HZ63|UBIG_PSEAE 118 TC 119
98 PP
>> tr|Q9I615|Q9I615_PSEAE Malonyl-[acyl-carrier protein] O-methyltransferase OS=Pseudomonas aeruginosa (strain ATCC 156
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 17.6 0.0 1.7e-06 0.00097 23 69 .. 59 110 .. 28 124 .. 0.78
2 ? -2.4 0.0 2.4 1.4e+03 118 136 .. 140 158 .. 121 181 .. 0.78
Alignments for each domain:
== domain 1 score: 17.6 bits; conditional E-value: 1.7e-06
-EEEEES-TT-HHHHHHTTT...-SEEEEEESS--.....---.TT-EEEE-- CS
FtsJ 23 ktvvDlgaaPGgwsqvllqrlgakgkvvavDlqpm.....apl.pgvttiqgd 69
++ vDlg+++G +s l +r+ga + +avD+ ++ + + ++i gd
tr|Q9I615|Q9I615_PSEAE 59 RRWVDLGCGTGYFSRALERRFGA-AEGLAVDIAEGmlrhaRARgGASHFIGGD 110
578*******************8.********887455432223344455555 PP
== domain 2 score: -2.4 bits; conditional E-value: 2.4
HHHHHHHEEEEEEEEEEEE CS
FtsJ 118 lelalkllkpggtfvlkif 136
l a ++l+pgg++ + +
tr|Q9I615|Q9I615_PSEAE 140 LAEARRVLRPGGVLAFSSL 158
4446689999998876655 PP
>> tr|Q9I5X8|Q9I5X8_PSEAE Uncharacterized protein OS=Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 17.2 0.0 2.3e-06 0.0013 14 70 .. 36 94 .. 32 129 .. 0.78
Alignments for each domain:
== domain 1 score: 17.2 bits; conditional E-value: 2.3e-06
HHH--S-TT-EEEEES-TT-HHHHHHTTT...-SEEEEEES.S--.....---TT-EEEE--T CS
FtsJ 14 ekfklfkpgktvvDlgaaPGgwsqvllqrlgakgkvvavDl.qpm.....aplpgvttiqgdi 70
++ + ++p++ +vDlga++G ++ l++ g ++vvav m + lp+v+ + g
tr|Q9I5X8|Q9I5X8_PSEAE 36 DALG-LRPQTVAVDLGAGTGKFTRLLART-G--ARVVAVEPvDAMraqlaEALPQVQALAGSA 94
5666.778999***************998.6..69****985666765544447777776655 PP
>> tr|Q9I6D9|Q9I6D9_PSEAE Uncharacterized protein OS=Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 15.7 0.0 7e-06 0.0039 21 135 .. 220 338 .. 206 355 .. 0.76
Alignments for each domain:
== domain 1 score: 15.7 bits; conditional E-value: 7e-06
TT-EEEEES-TT-HHHHHHTTT...-SEEEEEESS--........---....TT-EEEE--TTSSSHHHHHHHHHHHSSEEEEEE-- CS
FtsJ 21 pgktvvDlgaaPGgwsqvllqrlgakgkvvavDlqpm........apl....pgvttiqgditdpetiekikealserkvdlvvsDg 95
+gk+v+Dl + Ggw ++ ga + v+ vD a l ++v +++gd+++ + k + +++d+v++D
tr|Q9I6D9|Q9I6D9_PSEAE 220 QGKRVLDLFSYIGGWGIQAAAF-GA-SEVMCVDASAFaldgvernAALngvaEKVACVEGDVFEALRELKAAD----ERFDVVIADP 300
7899***********8877777.76.677777777766666665633335578999******98877766654....69******** PP
-----S-HHHHHHHHHHHHHHHHHHHHHHEEEEEEEEEEE CS
FtsJ 96 apdvsgvhdldeylqsqLllaalelalkllkpggtfvlki 135
+++ ++dl++ ++ +++ e a++ll+++g++v+
tr|Q9I6D9|Q9I6D9_PSEAE 301 PAFIKRKKDLKNGEAA--YRRLNEQAMRLLSKDGILVSAS 338
99****9999988775..4555555556688888888655 PP
>> tr|Q9I2I3|Q9I2I3_PSEAE Uncharacterized protein OS=Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 15.5 0.0 8.1e-06 0.0045 23 82 .. 46 114 .. 22 193 .. 0.84
Alignments for each domain:
== domain 1 score: 15.5 bits; conditional E-value: 8.1e-06
-EEEEES-TT-HHHHHHTTT...-SEEEEEESS--.........---.TT-EEEE--TTSSSHHHHHHHH CS
FtsJ 23 ktvvDlgaaPGgwsqvllqrlgakgkvvavDlqpm.........apl.pgvttiqgditdpetiekikea 82
t++D +++PG+ ll+r+ a ++vva+D m a + ++v+++++d tdp e++ ea
tr|Q9I2I3|Q9I2I3_PSEAE 46 FTAIDAACGPGSLGRRLLERFPA-ARVVALDADVMlleiartalAGFaERVRVVECDLTDPGWTERVAEA 114
3599****************987.***********99998864433389***********9888877754 PP
>> sp|Q9I5G3|CMOA_PSEAE Carboxy-S-adenosyl-L-methionine synthase OS=Pseudomonas aeruginosa (strain ATCC 15692 / DSM 226
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 14.7 0.0 1.4e-05 0.0077 20 75 .. 55 127 .. 48 231 .. 0.80
Alignments for each domain:
== domain 1 score: 14.7 bits; conditional E-value: 1.4e-05
-TT-EEEEES-TT-HHHHHHTTT....-SEEEEEESS--................---TT-EEEE--TTSSSH CS
FtsJ 20 kpgktvvDlgaaPGgwsqvllqrlga.kgkvvavDlqpm................aplpgvttiqgditdpet 75
+p+ Dlg++ G+ +q l +++ + +++v++vD + + l v++i++di+ +
sp|Q9I5G3|CMOA_PSEAE 55 QPNSVLYDLGCSLGAVTQSLRRHVRNdGCRVIGVDNSHAmiercseylhaqdamyQELLPVELIEADILALDL 127
4777889****************97657*******97655766666666554333333566666666655544 PP
>> tr|Q9HT28|Q9HT28_PSEAE Uncharacterized protein OS=Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ? 11.1 0.0 0.00017 0.096 7 59 .. 146 195 .. 144 255 .. 0.83
Alignments for each domain:
== domain 1 score: 11.1 bits; conditional E-value: 0.00017
HHHHHHHHHH--S-TT-EEEEES-TT-HHHHHHTTT...-SEEEEEESS---- CS
FtsJ 7 yKLleidekfklfkpgktvvDlgaaPGgwsqvllqrlgakgkvvavDlqpmap 59
KL ++ k + ++pg++ +D+g++ Gg + +++++g v +++l + ++
tr|Q9HT28|Q9HT28_PSEAE 146 AKLRHLCRKLR-LQPGEKLLDVGCGWGGLARLAAREFG--VEVTGITLSKEQL 195
59*********.99**********************97..5899999977644 PP
Internal pipeline statistics summary:
-------------------------------------
Query model(s): 1 (177 nodes)
Target sequences: 5563 (1857172 residues searched)
Passed MSV filter: 139 (0.0249865); expected 111.3 (0.02)
Passed bias filter: 134 (0.0240877); expected 111.3 (0.02)
Passed Vit filter: 22 (0.0039547); expected 5.6 (0.001)
Passed Fwd filter: 10 (0.00179759); expected 0.1 (1e-05)
Initial search space (Z): 5563 [actual number of targets]
Domain search space (domZ): 10 [number of targets reported over threshold]
# CPU time: 0.05u 0.00s 00:00:00.05 Elapsed: 00:00:00.03
# Mc/sec: 10957.31
//
[ok]