# 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/Branchiostoma_floridae.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
------- ------ ----- ------- ------ ----- ---- -- -------- -----------
7.6e-123 411.1 0.1 1e-122 410.6 0.1 1.0 1 tr|C3ZMS8|C3ZMS8_BRAFL tRNA (guanine(26)-N(2))-dimethyltrans
3.8e-62 211.3 2.7 3.3e-20 73.3 0.1 4.0 4 tr|C3ZCI9|C3ZCI9_BRAFL tRNA (guanine(26)-N(2))-dimethyltrans
0.00029 20.8 0.0 0.00042 20.3 0.0 1.2 1 tr|C3Y0G4|C3Y0G4_BRAFL Uncharacterized protein (Fragment) OS
0.0012 18.8 3.7 13 5.5 0.1 3.7 4 tr|C3Z0G4|C3Z0G4_BRAFL Uncharacterized protein (Fragment) OS
0.0023 17.8 0.0 0.003 17.4 0.0 1.1 1 tr|C3Z9A5|C3Z9A5_BRAFL Uncharacterized protein OS=Branchiost
------ inclusion threshold ------
0.1 12.4 0.3 0.13 12.1 0.3 1.2 1 tr|C3ZJ94|C3ZJ94_BRAFL Uncharacterized protein (Fragment) OS
0.16 11.8 0.0 0.22 11.3 0.0 1.1 1 tr|C3Z1J4|C3Z1J4_BRAFL Uncharacterized protein OS=Branchiost
0.26 11.1 0.1 0.52 10.1 0.0 1.5 2 tr|C3Y673|C3Y673_BRAFL Uncharacterized protein OS=Branchiost
0.28 11.0 0.0 0.44 10.3 0.0 1.2 1 tr|C3XPE3|C3XPE3_BRAFL Uncharacterized protein OS=Branchiost
Domain annotation for each sequence (and alignments):
>> tr|C3ZMS8|C3ZMS8_BRAFL tRNA (guanine(26)-N(2))-dimethyltransferase OS=Branchiostoma floridae OX=7739 GN=BRAFLDRAFT_1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 410.6 0.1 3.3e-126 1e-122 7 341 .. 41 435 .. 35 443 .. 0.92
Alignments for each domain:
== domain 1 score: 410.6 bits; conditional E-value: 3.3e-126
E----SS--TT--SS--GGGHHHHHHHHHH....HHHHHHHH-S-.......................................EEE CS
TRM 7 vedkevtvskkeeVFYNPvqefnRDlsvlvir.qlellkkklgek.......................................ikv 53
+ ++e+ +++k++VFYNPvqefnRDl+v+vi + e + kk g i++
tr|C3ZMS8|C3ZMS8_BRAFL 41 EGKAEILFPNKNKVFYNPVQEFNRDLTVAVISlFAEEQLKKKGVSvggigleqsdkerlatddlptgsqdntdmvqagekcqdgITI 127
4455588***********************9866655555555559***************************************** PP
EESS-TTSHHHHHHHHH-S-EEEEEEE-S-HHHHHHHHHHHHHTT--GGEEEE-S-HHHHHC...--SS-EEEEEE--SS--GGGHH CS
TRM 54 ldaLsasGlRaiRfalEvpgvkevlaNDisekAvelikeNvklneveeivvineddAnvlla...ekkkrfdviDlDPfGspapfld 137
l+aLsa+GlRa+Rfa+Evpg ke++aND+s +Av +i++N++ n v+++vv+n++dA++ ++ k+ +fdviDlDP+Gsp+ fld
tr|C3ZMS8|C3ZMS8_BRAFL 128 LEALSATGLRAVRFAKEVPGIKEIVANDLSREAVSSIQKNITHNGVDDMVVANHADASAYMYehrGKQIKFDVIDLDPYGSPSAFLD 214
**************************************************************87777889***************** PP
HHHHHEEEEEEEEEEE--HHHHTTSSHHHHHHHHSSB---STTHHHHHHHHHHHHHHHHHHTTTEEEEEEEEEEETTEEEEEEEEEE CS
TRM 138 savqsvkekglLlvTaTDtavLaGaspekclrkYgavalkselcHEvalRillkavareaakYekavepllslsadfYvrvfvkvkt 224
savqsvk++glL++T+TD av++G+ e+c kYg+++l+ ++cHE+alRi+l+ ++r+a++Y+++++p lsl adfY rvfv+v
tr|C3ZMS8|C3ZMS8_BRAFL 215 SAVQSVKDGGLLCITCTDAAVMCGNGSETCWTKYGSMSLRAKYCHEMALRIVLSCLDRHANRYHRYIVPQLSLFADFYCRVFVRVYI 301
*************************************************************************************** PP
-HHHHHHHHTTEEEEEEETTT...........--EEEE--GGG--........SB-TTT-SBEEEEEEEE-S-S--HHHHHHHHHHH CS
TRM 225 gaakvkkvleklglvlhCsgC...........lseekvkglakfk........aecehcgaklhlaGPlwlgplkdkefveevleea 292
++a++k++++k+++v+hCsgC + +++ kf+ +cehc+a+++++GP+w++pl+d+ fv+++l +
tr|C3ZMS8|C3ZMS8_BRAFL 302 SQAQAKRSASKQAMVYHCSGCetfnvqrigriV---EKNRSVKFHpgngppvgPKCEHCNATHQIGGPIWAEPLHDAGFVQRLLSSV 385
*********************988876644322...33333333477799999********************************** PP
CT..-TTS..-HHHHHHHHHHHHHHS--SS-EEHHHHHHHHT-SS---HHH CS
TRM 293 ekekeeel..kkrvkklLklikeElldaplyydlsqlasvlklsvpplkkv 341
e++ ++ + ++r+ ++L++++eEl+d p++y l++lasv++++ ppl v
tr|C3ZMS8|C3ZMS8_BRAFL 386 ENSADR-FntAQRMVGMLSVVSEELPDCPMFYCLDKLASVVRVNCPPLLAV 435
*97644.3369************************************9877 PP
>> tr|C3ZCI9|C3ZCI9_BRAFL tRNA (guanine(26)-N(2))-dimethyltransferase OS=Branchiostoma floridae OX=7739 GN=BRAFLDRAFT_1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 45.3 0.0 3.3e-15 1.1e-11 11 100 .. 27 113 .. 16 130 .. 0.83
2 ! 73.3 0.1 1e-23 3.3e-20 101 195 .. 155 246 .. 137 248 .. 0.90
3 ! 56.8 0.0 1e-18 3.3e-15 126 196 .. 248 318 .. 245 335 .. 0.93
4 ! 34.0 0.0 8.9e-12 2.8e-08 314 375 .. 388 447 .. 372 448 .. 0.90
Alignments for each domain:
== domain 1 score: 45.3 bits; conditional E-value: 3.3e-15
-SS--TT--SS--GGGHHHHHHHHHH...HHHHHHHH-S-EEEEESS-TTSHHHHHHHHH-S-EE.EEEEE-S-HHHHHHHHHHHHH CS
TRM 11 evtvskkeeVFYNPvqefnRDlsvlvirqlellkkklgekikvldaLsasGlRaiRfalEvpgvk.evlaNDisekAvelikeNvkl 96
+ ++k++ FYNP +++nR++++ + l+++ ++ + +++ lda+ a+G+ +i +++ +++++ +v + Di+e+ v li++Nv+
tr|C3ZCI9|C3ZCI9_BRAFL 27 NHATPEKTDTFYNPKMRMNREMVLCA---LATMAEE-QDQLRCLDAFGATGIEGILWTKYLKSKRpQVTIGDIKEETVTLIRRNVRS 109
355788999*************9999...7777777.5889*****************999877648*****************998 PP
TT-- CS
TRM 97 neve 100
n
tr|C3ZCI9|C3ZCI9_BRAFL 110 NGFR 113
8765 PP
== domain 2 score: 73.3 bits; conditional E-value: 1e-23
GGEEEE-S-HHHHHC--SS-EEEEEE--SS--GGGHHHHHHHEEEEEEEEEEE--HHHHTTSSHHHHHHHHSSB---STTHHHHHHH CS
TRM 101 eivvineddAnvllaekkkrfdviDlDPfGspapfldsavqsvkekglLlvTaTDtavLaGaspekclrkYgavalkselcHEvalR 187
e +++ dAnvll +++ fd++ lDP+G ++++ld+a + v ++g+++vT+TDt++ G+ p+ r+Y+++ ++se++ E+a+R
tr|C3ZCI9|C3ZCI9_BRAFL 155 E-IEVVCCDANVLL--HQRPFDFVHLDPYGCSVQYLDAAFRNVPKDGIVAVTSTDTSAVYGKCPNVTQRHYNGYITRSEFMREMAVR 238
4.455556******..899******************************************************************** PP
HHHHHHHH CS
TRM 188 illkavar 195
++l +v+r
tr|C3ZCI9|C3ZCI9_BRAFL 239 LILASVVR 246
***99976 PP
== domain 3 score: 56.8 bits; conditional E-value: 1e-18
E--SS--GGGHHHHHHHEEEEEEEEEEE--HHHHTTSSHHHHHHHHSSB---STTHHHHHHHHHHHHHHHH CS
TRM 126 lDPfGspapfldsavqsvkekglLlvTaTDtavLaGaspekclrkYgavalkselcHEvalRillkavare 196
lDP+G ++++ld+a + v ++g+++vT+TDt++ G+ p+ r+Y+++ ++se++ E+a+R++l +v+r+
tr|C3ZCI9|C3ZCI9_BRAFL 248 LDPYGCSVQYLDAAFRNVPKDGIVAVTSTDTSAVYGKCPNVTQRHYNGYITRSEFMREMAVRLILASVVRS 318
9****************************************************************999886 PP
== domain 4 score: 34.0 bits; conditional E-value: 8.9e-12
HHS--SS-EEHHHHHHHHT-SS---HHHHHHH....TT-EE-TTSTTEEE-SS-HHHHHHHH CS
TRM 314 ElldaplyydlsqlasvlklsvpplkkvvsalkelgfevsrtHakpkaikTnapleavvevl 375
E ++ p+yy++++ + + k ++p+++k+ + +++ g+++srtH+ p ai+T+a+l ++ vl
tr|C3ZCI9|C3ZCI9_BRAFL 388 E-PHPPFYYNIHRHCAKSK-DSPKMQKILQYMRKEGYRASRTHFDPVAIRTDATLLQLKAVL 447
5.789**********9987.689*******************************98887776 PP
>> tr|C3Y0G4|C3Y0G4_BRAFL Uncharacterized protein (Fragment) OS=Branchiostoma floridae OX=7739 GN=BRAFLDRAFT_245805 PE=
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 20.3 0.0 1.3e-07 0.00042 53 119 .. 234 297 .. 190 303 .. 0.79
Alignments for each domain:
== domain 1 score: 20.3 bits; conditional E-value: 1.3e-07
EEESS-TTSHHHHHHHHH-S-EEEEEEE-S-HHHHHHHHHHHHHTT--GGEEEE-S-HHHHHC--SS CS
TRM 53 vldaLsasGlRaiRfalEvpgvkevlaNDisekAvelikeNvklneveeivvineddAnvllaekkk 119
v d +++ G +i a e+laND++++ ++ + +N+kln+v+++v + ++d + +++e+ k
tr|C3Y0G4|C3Y0G4_BRAFL 234 VYDVFAGVGPFSIPAARK---RCEILANDLNPESYKWLVHNTKLNKVQDRVRTFNMDGRQFIQEVVK 297
566667777666666655...679*****************************999***99986544 PP
>> tr|C3Z0G4|C3Z0G4_BRAFL Uncharacterized protein (Fragment) OS=Branchiostoma floridae OX=7739 GN=BRAFLDRAFT_221501 PE=
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 4.3 0.0 0.0094 30 351 372 .. 4 25 .. 3 29 .. 0.85
2 ! 4.2 0.1 0.0098 31 351 372 .. 31 52 .. 26 56 .. 0.83
3 ! 5.5 0.1 0.004 13 353 372 .. 51 70 .. 44 82 .. 0.56
4 ! 5.2 0.1 0.0049 16 352 372 .. 77 97 .. 72 107 .] 0.59
Alignments for each domain:
== domain 1 score: 4.3 bits; conditional E-value: 0.0094
T-EE-TTSTTEEE-SS-HHHHH CS
TRM 351 evsrtHakpkaikTnapleavv 372
e++rtH+ +a++T +p+eav
tr|C3Z0G4|C3Z0G4_BRAFL 4 EAVRTHLPAEAVRTHLPAEAVR 25
6899999999999999999885 PP
== domain 2 score: 4.2 bits; conditional E-value: 0.0098
T-EE-TTSTTEEE-SS-HHHHH CS
TRM 351 evsrtHakpkaikTnapleavv 372
e++rtH +a++T +p+eav
tr|C3Z0G4|C3Z0G4_BRAFL 31 EAVRTHSPAEAVRTHLPAEAVR 52
7899999999999999999885 PP
== domain 3 score: 5.5 bits; conditional E-value: 0.004
EE-TTSTTEEE-SS-HHHHH CS
TRM 353 srtHakpkaikTnapleavv 372
+rtH+ +a++T p+eav
tr|C3Z0G4|C3Z0G4_BRAFL 51 VRTHLPAEAVRTHSPAEAVR 70
55555555555555555543 PP
== domain 4 score: 5.2 bits; conditional E-value: 0.0049
-EE-TTSTTEEE-SS-HHHHH CS
TRM 352 vsrtHakpkaikTnapleavv 372
++rtH+ +a++T p+eav
tr|C3Z0G4|C3Z0G4_BRAFL 77 AVRTHLPAEAVRTHSPAEAVR 97
556666666666666655553 PP
>> tr|C3Z9A5|C3Z9A5_BRAFL Uncharacterized protein OS=Branchiostoma floridae OX=7739 GN=BRAFLDRAFT_239031 PE=4 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 17.4 0.0 9.5e-07 0.003 47 101 .. 96 149 .. 59 165 .. 0.86
Alignments for each domain:
== domain 1 score: 17.4 bits; conditional E-value: 9.5e-07
H-S-EEEEESS-TTSHHHHHHHHH-S-EEEEEEE-S-HHHHHHHHHHHHHTT--.G CS
TRM 47 lgekikvldaLsasGlRaiRfalEvpgvkevlaNDisekAvelikeNvklneve.e 101
++++ +vld s+ G ai a+ g+++vlaNDi + A +k N+kln v+ e
tr|C3Z9A5|C3Z9A5_BRAFL 96 VVKDKSVLDVGSGCGASAIAAAMR--GARRVLANDIDPVAATAVKMNAKLNCVNlE 149
455568999999999999988876..*************************99844 PP
>> tr|C3ZJ94|C3ZJ94_BRAFL Uncharacterized protein (Fragment) OS=Branchiostoma floridae OX=7739 GN=BRAFLDRAFT_205296 PE=
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ? 12.1 0.3 4.1e-05 0.13 297 347 .. 63 113 .. 7 118 .. 0.87
Alignments for each domain:
== domain 1 score: 12.1 bits; conditional E-value: 4.1e-05
-TTS-HHHHHHHHHHHHHHS--SS-EEHHHHHHHHT-SS---HHHHHHH.. CS
TRM 297 eeelkkrvkklLklikeElldaplyydlsqlasvlklsvpplkkvvsalke 347
+++++++++k+ k++ E ++++ + s+l +v +++ p l+++ + l++
tr|C3ZJ94|C3ZJ94_BRAFL 63 KNATQREIRKVVKMVATEPIKQVRSFIASHLRNVRSTEEPTLQELKQTLEK 113
56779****************************************999987 PP
>> tr|C3Z1J4|C3Z1J4_BRAFL Uncharacterized protein OS=Branchiostoma floridae OX=7739 GN=BRAFLDRAFT_123123 PE=4 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ? 11.3 0.0 7e-05 0.22 38 124 .. 67 158 .. 59 162 .. 0.85
Alignments for each domain:
== domain 1 score: 11.3 bits; conditional E-value: 7e-05
..HHHHHHHH-S-EEEEESS-TTSHHHHHHHHH-S-EEEEEEE-S-HHHHHHHHHH.....HHHTT--GGEEEE-S-HHHHHC--SS CS
TRM 38 rqlellkkklgekikvldaLsasGlRaiRfalEvpgvkevlaNDisekAvelikeN.....vklneveeivvineddAnvllaekkk 119
q + +++l++ +vl+ ++ Gl ++ a ++ + v++ D e Av+l+ N + n+ + ++ dd +l+e++
tr|C3Z1J4|C3Z1J4_BRAFL 67 SQHLVSHRELVRAGRVLEVGAGVGLPGLVAAALSENPSGVVMTDYVEDAVDLMDMNiaetfGEDNNRPQAAIMDWDDDPSVLQEHHG 153
477788889999999*************9998889*********************7665545566667888888999999****** PP
-EEEE CS
TRM 120 rfdvi 124
+fdvi
tr|C3Z1J4|C3Z1J4_BRAFL 154 TFDVI 158
***98 PP
>> tr|C3Y673|C3Y673_BRAFL Uncharacterized protein OS=Branchiostoma floridae OX=7739 GN=BRAFLDRAFT_96596 PE=4 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ? 10.1 0.0 0.00016 0.52 238 295 .. 58 116 .. 47 130 .. 0.77
2 ? -4.1 0.2 3.3 1.1e+04 296 315 .. 241 260 .. 234 262 .. 0.69
Alignments for each domain:
== domain 1 score: 10.1 bits; conditional E-value: 0.00016
EEEEETTT--EEEE--GGG--SB-TTT-SB.EEEEEEEE-S-S--HHHHHHHHHHHCT. CS
TRM 238 lvlhCsgClseekvkglakfkaecehcgak.lhlaGPlwlgplkdkefveevleeaeke 295
+v+ + C +++++k + ++++ ++++ + l+GPl+ + l +++ ee + e+ ++
tr|C3Y673|C3Y673_BRAFL 58 TVTLVIVCYNHRQNKKISALRNNLSFVNDQlARLYGPLYGNRLASHKSFEEAVGELVDR 116
4555567999999999999999999987662689*********9988887777766654 PP
== domain 2 score: -4.1 bits; conditional E-value: 3.3
.-TTS-HHHHHHHHHHHHHH CS
TRM 296 keeelkkrvkklLklikeEl 315
+ e+l kr ++l++likeE+
tr|C3Y673|C3Y673_BRAFL 241 SYEKLVKRKRRLMRLIKEET 260
45666788899999999995 PP
>> tr|C3XPE3|C3XPE3_BRAFL Uncharacterized protein OS=Branchiostoma floridae OX=7739 GN=BRAFLDRAFT_124175 PE=3 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ? 10.3 0.0 0.00014 0.44 53 112 .. 236 294 .. 195 302 .. 0.85
Alignments for each domain:
== domain 1 score: 10.3 bits; conditional E-value: 0.00014
EEESS-TTSHHHHHHHHH-S-EEEEEEE-S-HHHHHHHHHHHHHTT--GGEEEE-S-HHH CS
TRM 53 vldaLsasGlRaiRfalEvpgvkevlaNDisekAvelikeNvklneveeivvineddAnv 112
v+d ++ G ++ f++ ++ ev a + ++ Ave +++N ++n+v+++ +++++d +
tr|C3XPE3|C3XPE3_BRAFL 236 VVDLYAGIGYFTLPFLVH-GKAAEVHACEWNPAAVEALQKNLQINKVQDRCTVHHGDNRQ 294
666666667777777766.678899************************99999988765 PP
Internal pipeline statistics summary:
-------------------------------------
Query model(s): 1 (376 nodes)
Target sequences: 28542 (13248087 residues searched)
Passed MSV filter: 942 (0.033004); expected 570.8 (0.02)
Passed bias filter: 688 (0.0241048); expected 570.8 (0.02)
Passed Vit filter: 57 (0.00199706); expected 28.5 (0.001)
Passed Fwd filter: 9 (0.000315325); expected 0.3 (1e-05)
Initial search space (Z): 28542 [actual number of targets]
Domain search space (domZ): 9 [number of targets reported over threshold]
# CPU time: 0.40u 0.01s 00:00:00.41 Elapsed: 00:00:00.12
# Mc/sec: 41510.67
//
[ok]