# 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/TRM.hmm.txt
# target sequence database: proteomes/Thermococcus_kodakarensis.fasta
# - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: TRM [M=376]
Accession: PF02005.15
Description: N2,N2-dimethylguanosine tRNA 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
------- ------ ----- ------- ------ ----- ---- -- -------- -----------
2.2e-117 389.5 0.0 2.5e-117 389.3 0.0 1.0 1 sp|Q5JIB3|TRM1_THEKO tRNA (guanine(26)-N(2))-dimethyltrans
2.7e-08 30.5 0.0 3.6e-08 30.0 0.0 1.2 1 tr|Q5JJ78|Q5JJ78_THEKO Probable tRNA/rRNA methyltransferase
0.00022 17.6 0.0 0.0003 17.2 0.0 1.2 1 tr|Q5JD70|Q5JD70_THEKO Met-10+ like protein OS=Thermococcus
0.0066 12.7 0.0 0.0094 12.2 0.0 1.2 1 tr|Q5JIX8|Q5JIX8_THEKO N5-glutamine methyltransferase, HemK
Domain annotation for each sequence (and alignments):
>> sp|Q5JIB3|TRM1_THEKO tRNA (guanine(26)-N(2))-dimethyltransferase OS=Thermococcus kodakarensis (strain ATCC BAA-918 /
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 389.3 0.0 4.4e-120 2.5e-117 2 376 .] 10 374 .. 9 374 .. 0.95
Alignments for each domain:
== domain 1 score: 389.3 bits; conditional E-value: 4.4e-120
TEEEEE----SS--TT--SS--GGGHHHHHHHHHH...HHHHHHHH-S-EEEEESS-TTSHHHHHHHHH-S-EEEEEEE-S-HHHHHHH CS
TRM 2 eakikvedkevtvskkeeVFYNPvqefnRDlsvlvirqlellkkklgekikvldaLsasGlRaiRfalEvpgvkevlaNDisekAveli 90
a+i v+++ +++ ++VFYNPv+ nRD+svl+ +++l+ k +vldaLsa+G+R+iR+alE + ++ev++NDise+A+ l+
sp|Q5JIB3|TRM1_THEKO 10 LARILVPKA-ERIYD-APVFYNPVMSLNRDISVLA---VKVLGPK-----RVLDALSATGIRGIRYALE-TPAEEVWLNDISEEAYGLM 87
567788887.44444.7******************...8899999.....8******************.7899*************** PP
HHHHHHTT--..............GGEEEE-S-HHHHHC--SS-EEEEEE--SS--GGGHHHHHHHEEEEEEEEEEE--HHHHTTSSHH CS
TRM 91 keNvklneve..............eivvineddAnvllaekkkrfdviDlDPfGspapfldsavqsvkekglLlvTaTDtavLaGaspe 165
k+N++ln ++vvin++dAn l+ae+ ++fd++DlDPfGsp++fld+a++sv+++g+L+vTaTDt vL+Ga+ +
sp|Q5JIB3|TRM1_THEKO 88 KKNASLNIDGelyeegdrsylwgeKLVVINKGDANRLMAENFRYFDFLDLDPFGSPVEFLDTALRSVRRNGVLAVTATDTGVLCGAYRN 176
***9998555677889999***966**************************************************************** PP
HHHHHHSSB---STTHHHHHHHHHHHHHHHHHHTTTEEEEEEEEEEETTEEEEEEEEEE-HHHHHHHHTTEEEEEEETTT--EEEE--G CS
TRM 166 kclrkYgavalkselcHEvalRillkavareaakYekavepllslsadfYvrvfvkvktgaakvkkvleklglvlhCsgClseekvkgl 254
+clrkY a +++ lcHE +lRil+++v+r+aakY+ ve+ll++ +d+Y+r+f+k+k+ga+k++k+l++lg++ ++g+
sp|Q5JIB3|TRM1_THEKO 177 ACLRKYLAEPIRGPLCHEAGLRILIGTVVRYAAKYDLGVEVLLAYHRDHYFRAFLKLKSGAKKADKSLSQLGFLWA--------DKSGR 257
**************************************************************************99........68899 PP
GG--SB-TTT-SBEEEEEEEE-S-S--HHHHHHHHHHHCT..-TTS-HHHHHHHHHHHHHHS--SS-EEHHHHHHHHT-SS---HHHHH CS
TRM 255 akfkaecehcgaklhlaGPlwlgplkdkefveevleeaekekeeelkkrvkklLklikeElldaplyydlsqlasvlklsvpplkkvvs 343
+++ ++ ++ k + GPlwlgplkd+ fvee+le a++ + +k+++ +L+li+eE ld+p+ yd++ la+ +l+ p+l+ +++
sp|Q5JIB3|TRM1_THEKO 258 FEY--RRGFLPDKPGASGPLWLGPLKDESFVEELLESARD--HPLAHKKTLSFLQLISEE-LDVPFHYDTHTLARACSLTPPKLDVIIQ 341
995..899*******************************9..4566999***********.**************************** PP
HH....TT-EE-TTSTTEEE-SS-HHHHHHHHH CS
TRM 344 alkelgfevsrtHakpkaikTnapleavvevlr 376
l+elg+ +++tH++p+++kT+ap+ +v ev++
sp|Q5JIB3|TRM1_THEKO 342 RLRELGHSATKTHFSPTSVKTDAPFGVVAEVMK 374
*******************************96 PP
>> tr|Q5JJ78|Q5JJ78_THEKO Probable tRNA/rRNA methyltransferase OS=Thermococcus kodakarensis (strain ATCC BAA-918 / JCM
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 30.0 0.0 6.3e-11 3.6e-08 50 128 .. 212 297 .. 119 301 .. 0.86
Alignments for each domain:
== domain 1 score: 30.0 bits; conditional E-value: 6.3e-11
-......EEEEESS-TTSHHHHHHHHH-S-EEEEEEE-S-HHHHHHHHHHHHHTT--GGEEEE-S-HHHHHC...--SS-EEEEEE- CS
TRM 50 k......ikvldaLsasGlRaiRfalEvpgvkevlaNDisekAvelikeNvklneveeivvineddAnvlla...ekkkrfdviDlD 127
+ ++vld ++ +G ai a+ g+ ev+a D s+ A++++keN+kln ve+ ++ + A +++ ++ ++fd++ lD
tr|Q5JJ78|Q5JJ78_THEKO 212 EkyvkpgMRVLDVFTYTGGFAIHAAVA--GADEVVAVDKSPWAINMVKENAKLNGVEDKMKYIVGSAFPVMEemiKRGEKFDIVILD 296
145555599*********99*999965..*****************************9999999*****998888999******** PP
- CS
TRM 128 P 128
P
tr|Q5JJ78|Q5JJ78_THEKO 297 P 297
9 PP
>> tr|Q5JD70|Q5JD70_THEKO Met-10+ like protein OS=Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) OX
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 17.2 0.0 5.1e-07 0.0003 52 149 .. 184 275 .. 133 277 .. 0.80
Alignments for each domain:
== domain 1 score: 17.2 bits; conditional E-value: 5.1e-07
EEEESS-TTSHHHHHHHHH-S-EEEEEEE-S-HHHHHHHHHHHHHTT--GGEEEE-S-HHHHHC--SS-EEEEEE--SS--GGGHHH CS
TRM 52 kvldaLsasGlRaiRfalEvpgvkevlaNDisekAvelikeNvklneveeivvineddAnvllaekkkrfdviDlDPfGspapflds 138
v+d +++ G +i a+ +k v+a Di++ Av ++eN kln+ + v + +d + + ++k ++ l f + fl
tr|Q5JD70|Q5JD70_THEKO 184 IVFDMFAGVGPYSILLAKK---AKLVFACDINPWAVRYLEENKKLNKTPN-VIPILGDVRKVAGQIKADRVIMNLPKF--ADRFLKE 264
5889999999999988877...899*************************.555566999999888888888888888..6789999 PP
HHHHEEEEEEE CS
TRM 139 avqsvkekglL 149
a+ svk++g++
tr|Q5JD70|Q5JD70_THEKO 265 AMMSVKSGGIV 275
99999999986 PP
>> tr|Q5JIX8|Q5JIX8_THEKO N5-glutamine methyltransferase, HemK family OS=Thermococcus kodakarensis (strain ATCC BAA-918
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 12.2 0.0 1.6e-05 0.0094 58 126 .. 43 104 .. 25 126 .. 0.79
Alignments for each domain:
== domain 1 score: 12.2 bits; conditional E-value: 1.6e-05
-TTSHHHHHHHHH-S-EEEEEEE-S-HHHHHHHHHHHHHTT--GGEEEE-S-HHHHHC--SS-EEEEEE CS
TRM 58 sasGlRaiRfalEvpgvkevlaNDisekAvelikeNvklneveeivvineddAnvllaekkkrfdviDl 126
+++G+ a+ a ++ vl Di++ Avel +eN+++n + + v+++ + l+++++ +fdvi
tr|Q5JIX8|Q5JIX8_THEKO 43 TGTGIIALLLARK---ARWVLGVDINPLAVELARENARINGIIN-VEFRLS---DLFENVSGEFDVITF 104
5667666666655...7889999********************9.889884...477788899999876 PP
Internal pipeline statistics summary:
-------------------------------------
Query model(s): 1 (376 nodes)
Target sequences: 2301 (637680 residues searched)
Passed MSV filter: 95 (0.0412864); expected 46.0 (0.02)
Passed bias filter: 86 (0.0373751); expected 46.0 (0.02)
Passed Vit filter: 14 (0.00608431); expected 2.3 (0.001)
Passed Fwd filter: 4 (0.00173837); expected 0.0 (1e-05)
Initial search space (Z): 2301 [actual number of targets]
Domain search space (domZ): 4 [number of targets reported over threshold]
# CPU time: 0.03u 0.00s 00:00:00.03 Elapsed: 00:00:00.01
# Mc/sec: 23976.77
//
[ok]