# 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/GCD14.hmm.txt # target sequence database: proteomes/Ciona_intestinalis.fasta # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: GCD14 [M=247] Accession: PF08704.9 Description: tRNA methyltransferase complex GCD14 subunit 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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 2e-92 309.3 0.0 2.5e-92 308.9 0.0 1.1 1 tr|H2XSX6|H2XSX6_CIOIN tRNA (adenine(58)-N(1))-methyltransfe 1.3e-05 24.9 0.1 2e-05 24.3 0.1 1.2 1 tr|F7A5J2|F7A5J2_CIOIN rRNA 2'-O-methyltransferase fibrillar ------ inclusion threshold ------ 0.031 13.8 1.4 0.037 13.6 1.4 1.2 1 tr|H2XKE1|H2XKE1_CIOIN Uncharacterized protein OS=Ciona inte 0.081 12.5 0.0 0.09 12.3 0.0 1.2 1 tr|F6SVN8|F6SVN8_CIOIN Uncharacterized protein OS=Ciona inte 1 8.9 5.4 2.4 7.7 5.4 1.6 1 tr|H2XS20|H2XS20_CIOIN RNA helicase OS=Ciona intestinalis OX Domain annotation for each sequence (and alignments): >> tr|H2XSX6|H2XSX6_CIOIN tRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A OS=Ciona intestinalis OX= # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 308.9 0.0 7.6e-96 2.5e-92 1 247 [] 62 300 .. 62 300 .. 0.91 Alignments for each domain: == domain 1 score: 308.9 bits; conditional E-value: 7.6e-96 GCD14 1 gfvyvlaptPeLWtlaLphrtqilytaDisliimkLelkpGsvvvesGtGsgslshaiartvaPtGhlftfefheqraekareefre 87 g+vyvl+ptPeLWt++LphrtqilytaDis+i ++L+lkpGsvv+esGtGsgslshai+rt+aPtG l+t+efhe+ra+ka ef++ tr|H2XSX6|H2XSX6_CIOIN 62 GWVYVLHPTPELWTITLPHRTQILYTADISMILFQLDLKPGSVVCESGTGSGSLSHAIIRTIAPTGFLHTVEFHEDRANKASLEFKK 148 8************************************************************************************** PP GCD14 88 helsqlvtvthrDvckeGfdeevsgkvDavfLDlPaPweaiphaakalkkeggrlCsfsPCieqvqrtceaLre..lgfteietlev 172 h+l+++vtv++rDv k Gf v++++DavfLD+P+P++ai aa+alk++ggrlCsfsPCieqvqrtc +Lr+ +gf++++++e+ tr|H2XSX6|H2XSX6_CIOIN 149 HGLADYVTVYNRDVIKLGF--PVTSVADAVFLDIPSPDDAISAAANALKQSGGRLCSFSPCIEQVQRTCTNLRQqgSGFKDVQVFEL 233 *******************..88999**********************************************983357********* PP GCD14 173 llrtyevrkskleeidlaekrleenerkriekakrrkaskdakvedkssksstevllkPvselkghtgyLtfatk 247 r +v+++ ++++dl+ ++ e ++ s+ + +++ + ++ + P +e+ ghtg+L+fat+ tr|H2XSX6|H2XSX6_CIOIN 234 IRRSCNVKRVFVPMADLGLDNDEVRSKV-------VGESNVLPSVTQKHAFCCRTCVLP-KETYGHTGFLVFATY 300 *****************99876655433.......222333334444555567778889.9************85 PP >> tr|F7A5J2|F7A5J2_CIOIN rRNA 2'-O-methyltransferase fibrillarin isoform X1 OS=Ciona intestinalis OX=7719 GN=LOC100186 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 24.3 0.1 5.9e-09 2e-05 35 150 .. 141 257 .. 135 274 .. 0.70 Alignments for each domain: == domain 1 score: 24.3 bits; conditional E-value: 5.9e-09 GCD14 35 kLelkpGsvvvesGtGsgslshaiartvaPtGhlftfefheqraekareefrehelsqlvtvthrDvc.keGfdeevsgkvDavfLD 120 +++kpGs+v+ G+ sg+ + ++ v+P G ++++ef ++ + + + +++ +++ + D+ + + + + g vD++f D tr|F7A5J2|F7A5J2_CIOIN 141 AIHIKPGSKVLYLGAASGTTVSHVSDIVGPEGLVYAVEFSHRSGRD-LINVAKKRT-NIIPI-IEDARhPHKY-RMLVGMVDTIFAD 223 6789***********************************7544433.333333332.33333.4455524555.5677********* PP GCD14 121 lPaPwea..ip.haakalkkeggrlCsf.sPCie 150 + +P++ + +a + lk+ g + s + Ci+ tr|F7A5J2|F7A5J2_CIOIN 224 VAQPDQTriVAlNAHHFLKNTGHFVISIkASCID 257 ****986322214444556666666555246776 PP >> tr|H2XKE1|H2XKE1_CIOIN Uncharacterized protein OS=Ciona intestinalis OX=7719 PE=4 SV=1 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 13.6 1.4 1.1e-05 0.037 174 226 .. 39 91 .. 13 108 .. 0.80 Alignments for each domain: == domain 1 score: 13.6 bits; conditional E-value: 1.1e-05 GCD14 174 lrtyevrkskleeidlaekrleenerkriekakrrkaskdakvedkssksste 226 r y r+s+ +e++ a kr+ n++++i+++kr+++ ++++++d ss+ss+ tr|H2XKE1|H2XKE1_CIOIN 39 PRAYVHRTSRTQELNKALKRKAANQENTIKRRKRSSSVSSDSSSDSSSSSSSS 91 689************************9***9999998888887777776544 PP >> tr|F6SVN8|F6SVN8_CIOIN Uncharacterized protein OS=Ciona intestinalis OX=7719 PE=4 SV=2 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 12.3 0.0 2.7e-05 0.09 35 100 .. 96 165 .. 84 239 .. 0.81 Alignments for each domain: == domain 1 score: 12.3 bits; conditional E-value: 2.7e-05 GCD14 35 kLelkpGsvvvesGtGsgslshaiartvaPtGhlftfefheqraekareefrehel....sqlvtvthrD 100 +L + +++ G Gsg l+ +ar ++ G+ + +e+ + ++k++e+ ++++ s+ vt+++ D tr|F6SVN8|F6SVN8_CIOIN 96 QLTRSENPTALDVGSGSGYLTACFARMMGDNGRAYGIEHIPELVNKSIENVNRDDStlitSGRVTLKKGD 165 5555666678999********************************9999987765323444466666665 PP >> tr|H2XS20|H2XS20_CIOIN RNA helicase OS=Ciona intestinalis OX=7719 GN=LOC100175182 PE=3 SV=1 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 7.7 5.4 0.00073 2.4 169 239 .. 60 130 .. 48 146 .. 0.84 Alignments for each domain: == domain 1 score: 7.7 bits; conditional E-value: 0.00073 GCD14 169 tlevllrtyevrkskleeidlaekrleenerkriekakrrkaskdakvedkssksstevllkPvselkght 239 ++ev+ ++ + ++k ++ + +k+++++e+k+ e+ k +++++++++++++ ks+ v + P selk t tr|H2XS20|H2XS20_CIOIN 60 VMEVQEQEMGAPEIKTDKKSKKIKNEKKSENKKSENEKSENKESENEKSENDKKSDLIVTTAPGSELKVKT 130 7899999999999***9999999999999999999999988888888888888886677777777776655 PP Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (247 nodes) Target sequences: 16678 (5370518 residues searched) Passed MSV filter: 1028 (0.0616381); expected 333.6 (0.02) Passed bias filter: 590 (0.0353759); expected 333.6 (0.02) Passed Vit filter: 59 (0.00353759); expected 16.7 (0.001) Passed Fwd filter: 11 (0.000659552); expected 0.2 (1e-05) Initial search space (Z): 16678 [actual number of targets] Domain search space (domZ): 5 [number of targets reported over threshold] # CPU time: 0.20u 0.01s 00:00:00.21 Elapsed: 00:00:00.07 # Mc/sec: 18950.26 // [ok]