# 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/RrnaAD.hmm.txt # target sequence database: proteomes/Natronomonas_moolapensis.fasta # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: RrnaAD [M=265] Accession: PF00398.19 Description: Ribosomal RNA adenine dimethylase 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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 1.8e-45 152.4 0.0 2.2e-45 152.2 0.0 1.1 1 tr|M1XRN3|M1XRN3_NATM8 Probable ribosomal RNA small subunit 0.00019 17.9 0.0 0.00027 17.4 0.0 1.2 1 tr|M1XNA3|M1XNA3_NATM8 Probable demethylmenaquinone methyltr 0.00067 16.1 0.0 0.00079 15.9 0.0 1.1 1 tr|M1Y4D2|M1Y4D2_NATM8 Probable S-adenosylmethionine-depende 0.0032 13.9 0.0 0.0046 13.4 0.0 1.1 1 tr|M1XTN7|M1XTN7_NATM8 Probable S-adenosylmethionine-depende 0.0042 13.5 0.0 0.0057 13.1 0.0 1.1 1 tr|M1XTL7|M1XTL7_NATM8 tRNA (Adenine-N(1))-methyltransferase ------ inclusion threshold ------ 0.03 10.7 0.0 0.042 10.2 0.0 1.2 1 tr|M1XZU1|M1XZU1_NATM8 Protein-L-isoaspartate O-methyltransf Domain annotation for each sequence (and alignments): >> tr|M1XRN3|M1XRN3_NATM8 Probable ribosomal RNA small subunit methyltransferase A OS=Natronomonas moolapensis (strain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 152.2 0.0 4.7e-48 2.2e-45 9 230 .. 20 231 .. 13 267 .. 0.93 Alignments for each domain: == domain 1 score: 152.2 bits; conditional E-value: 4.7e-48 G--EE--HHHHHHHHHHH-GG.TTSEEEEES-TTTCCHHHHHCC-SEEEEE-S-HHHHHHHHCHTT...TCCCEEEE-S-CCGHHHH CS RrnaAD 9 gqnflknkkvineIldklnle.ekltvleigpGkGilTeeLakrakqvvvlElderLakllqkkls...kdeklkvvhqDflkfetp 91 q+fl++ v+++ l ++ v+eig G+G lT +L+ a+ v+v+E d++La++l++++ ++ l+vv D+l+ ++p tr|M1XRN3|M1XRN3_NATM8 20 DQHFLVDDRVLDRLPGYLPDGaDTSHVVEIGGGTGGLTDRLLSVADRVTVVERDPDLAAFLREEFAaeiAGGTLTVVAGDALEVDLP 106 58999999999987666533359999***************************************99999***************** PP HHHCTTTCCCCEEEEEEE--TTTHHHHHHHHHHGGGGCEEEEEEEEEHHHHHHHH--TTSTT-SHHHHHHHHHEEEEEEEEC-GGCE CS RrnaAD 92 eevtekdsihqeflvvanlPyeistqlvkqlleesrfglvkmllwlqkefarrllarpgskkrsrlsvlreaftdvklvakveksif 178 + + v+nlPy++s+++ ++ll ++r+ +l++q efa+r++a+pgs++++rlsv + ++d+++v++v+k++f tr|M1XRN3|M1XRN3_NATM8 107 AFT----------ASVSNLPYGVSSEIAFRLLPAGRP----LVLMFQAEFAERMAAAPGSSEYGRLSVTAGHYADIEVVEAVPKEAF 179 *55..........89*****************98888....9********************************************* PP CS--SSSEEEEEEEE-SS-S--S-HHHHHHHHHHHHCTTTSBCCCHCCCTST CS RrnaAD 179 sPppkvdsalvelerkdedlpqkdlkkyesvvrkllnrkrktlstslksllp 230 sPpp v+s++v+ +++ ++ ++ d + + ++vr++++++rkt+++++ ++++ tr|M1XRN3|M1XRN3_NATM8 180 SPPPAVESSVVRATPRVPEYDVPDDESFMALVRAVFTQRRKTMRNAIRNTTH 231 ******************99****************************9987 PP >> tr|M1XNA3|M1XNA3_NATM8 Probable demethylmenaquinone methyltransferase OS=Natronomonas moolapensis (strain DSM 18674 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 17.4 0.0 5.9e-07 0.00027 12 55 .. 27 70 .. 22 100 .. 0.91 Alignments for each domain: == domain 1 score: 17.4 bits; conditional E-value: 5.9e-07 EE--HHHHHHHHHHH-GGTTSEEEEES-TTTCCHHHHHCC-SEE CS RrnaAD 12 flknkkvineIldklnleekltvleigpGkGilTeeLakrakqv 55 f++n+ + +e+l+ +e + vl++g G+G+ Te L++ + v tr|M1XNA3|M1XNA3_NATM8 27 FIWNEEMRDEALEWFGIEAGDRVLDVGCGTGFATEGLLEHTDDV 70 9************************************9988766 PP >> tr|M1Y4D2|M1Y4D2_NATM8 Probable S-adenosylmethionine-dependent methyltransferase OS=Natronomonas moolapensis (strain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 15.9 0.0 1.7e-06 0.00079 20 93 .. 34 110 .. 18 154 .. 0.87 Alignments for each domain: == domain 1 score: 15.9 bits; conditional E-value: 1.7e-06 HHHHHHH-GGTTSEEEEES-TTTCCHHHHHCC-SEEEEE-S-HHHHHHHHCHTT...TCCCEEEE-S-CCGHHHHHH CS RrnaAD 20 neIldklnleekltvleigpGkGilTeeLakrakqvvvlElderLakllqkkls...kdeklkvvhqDflkfetpee 93 + +ld+l + e++ +le++ G+G +T+ La+r v + + e++++ + k + de l ++ D+ +p + tr|M1Y4D2|M1Y4D2_NATM8 34 EAVLDALGPIEDKRILEVACGTGRFTVMLADRGADIVGMDISEAMLEQGRRKARsagVDESLSFIQGDAGRLPFPDD 110 5678899999**************************************99999888999999999999887777765 PP >> tr|M1XTN7|M1XTN7_NATM8 Probable S-adenosylmethionine-dependent methyltransferase OS=Natronomonas moolapensis (strain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 13.4 0.0 1e-05 0.0046 21 69 .. 22 71 .. 20 79 .. 0.90 Alignments for each domain: == domain 1 score: 13.4 bits; conditional E-value: 1e-05 HHHHHH-GGTTSEEEEES-TTTCCHHHHHCC-.SEEEEE-S-HHHHHHHH CS RrnaAD 21 eIldklnleekltvleigpGkGilTeeLakra.kqvvvlElderLakllq 69 e+l l + + v+++g G+G+lT+ L + + +vv d rL+++l+ tr|M1XTN7|M1XTN7_NATM8 22 EALADLSIDDCERVVDVGCGEGALTRVLREECpGEVVGCDRDARLLAELE 71 5677788889999*******************9************99886 PP >> tr|M1XTL7|M1XTL7_NATM8 tRNA (Adenine-N(1))-methyltransferase TrmI OS=Natronomonas moolapensis (strain DSM 18674 / JC # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 13.1 0.0 1.3e-05 0.0057 31 79 .. 83 134 .. 71 142 .. 0.82 Alignments for each domain: == domain 1 score: 13.1 bits; conditional E-value: 1.3e-05 TSEEEEES-TTTCCHHHHHCC-SEEEEE-S-HHHHHHHHCHTT...TCCCEE CS RrnaAD 31 kltvleigpGkGilTeeLakrakqvvvlElderLakllqkkls...kdeklk 79 + l+ g+G+G+l + L +v+ +E d ++a++ ++++ +e++ tr|M1XTL7|M1XTL7_NATM8 83 GDRALDAGTGTGVLAAYLGRLGVEVTTYERDAEFAAVARENMAtagVAEQID 134 67789**********************************9877555555555 PP >> tr|M1XZU1|M1XZU1_NATM8 Protein-L-isoaspartate O-methyltransferase OS=Natronomonas moolapensis (strain DSM 18674 / JC # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 10.2 0.0 9.3e-05 0.042 19 65 .. 65 113 .. 59 130 .. 0.77 Alignments for each domain: == domain 1 score: 10.2 bits; conditional E-value: 9.3e-05 HHHHHHHH-GGTTSEEEEES-TTTCCHHHHHCC-..SEEEEE-S-HHHH CS RrnaAD 19 ineIldklnleekltvleigpGkGilTeeLakra..kqvvvlElderLa 65 + + +++l++++++tvl +g G+G + + La+ +v + + +rL+ tr|M1XZU1|M1XZU1_NATM8 65 AGRLFEALDIRPDDTVLVVGVGVGYTAAVLAELTdeASVHGIDIARRLV 113 5678999*************************99444444455556665 PP Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (265 nodes) Target sequences: 2723 (809592 residues searched) Passed MSV filter: 57 (0.0209328); expected 54.5 (0.02) Passed bias filter: 55 (0.0201983); expected 54.5 (0.02) Passed Vit filter: 23 (0.00844657); expected 2.7 (0.001) Passed Fwd filter: 6 (0.00220345); expected 0.0 (1e-05) Initial search space (Z): 2723 [actual number of targets] Domain search space (domZ): 6 [number of targets reported over threshold] # CPU time: 0.02u 0.00s 00:00:00.02 Elapsed: 00:00:00.01 # Mc/sec: 21454.19 // [ok]