# 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/Mus_musculus.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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 1.9e-108 362.1 0.5 4.4e-107 357.6 0.5 2.0 1 sp|Q80XC2|TRM61_MOUSE tRNA (adenine(58)-N(1))-methyltransfer 0.00021 21.4 0.0 0.00031 20.8 0.0 1.2 1 sp|P35550|FBRL_MOUSE rRNA 2'-O-methyltransferase fibrillari 0.0024 17.9 0.0 0.0036 17.3 0.0 1.2 1 sp|Q80WS3|FBLL1_MOUSE rRNA/tRNA 2'-O-methyltransferase fibri 0.0059 16.6 0.0 0.019 14.9 0.0 1.7 2 sp|P59913|PCMD1_MOUSE Protein-L-isoaspartate O-methyltransfe 0.0067 16.4 0.0 0.0089 16.0 0.0 1.2 1 sp|P23506|PIMT_MOUSE Protein-L-isoaspartate(D-aspartate) O- ------ inclusion threshold ------ 0.019 15.0 0.0 0.035 14.1 0.0 1.4 1 sp|Q8BHD8|PCMD2_MOUSE Protein-L-isoaspartate O-methyltransfe 0.02 14.9 0.0 0.032 14.2 0.0 1.2 1 sp|Q921L7|HEMK1_MOUSE HemK methyltransferase family member 1 0.96 9.4 4.4 12 5.7 4.7 1.9 2 sp|Q9R0C0|BL1S6_MOUSE Biogenesis of lysosome-related organel Domain annotation for each sequence (and alignments): >> sp|Q80XC2|TRM61_MOUSE tRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A OS=Mus musculus OX=10090 G # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 357.6 0.5 1.6e-110 4.4e-107 1 247 [] 64 287 .. 64 287 .. 0.98 Alignments for each domain: == domain 1 score: 357.6 bits; conditional E-value: 1.6e-110 GCD14 1 gfvyvlaptPeLWtlaLphrtqilytaDisliimkLelkpGsvvvesGtGsgslshaiartvaPtGhlftfefheqraekareefreh 88 g+vyvl+ptPeLWt++Lphrtqily++Di+li+m+Lel+pGsvv+esGtGsgs+shai+r+vaPtGhl+t+efh+qra+kareef+eh sp|Q80XC2|TRM61_MOUSE 64 GWVYVLHPTPELWTVNLPHRTQILYSTDIALITMMLELRPGSVVCESGTGSGSVSHAIIRSVAPTGHLHTVEFHQQRADKAREEFQEH 151 8*************************************************************************************** PP GCD14 89 elsqlvtvthrDvckeGfdeevsgkvDavfLDlPaPweaiphaakalkkeggrlCsfsPCieqvqrtceaLrelgfteietlevllrt 176 +lsq+vtv+++Dvc++Gf +v +++DavfLD+P+Pwea++ha++alk eggr+CsfsPCieqvqrtc+aL+++gfte++tlevl ++ sp|Q80XC2|TRM61_MOUSE 152 RLSQWVTVHTQDVCCSGF--GVVHVADAVFLDIPSPWEAVGHAWDALKVEGGRFCSFSPCIEQVQRTCQALAAHGFTELSTLEVLPQV 237 ******************..999***************************************************************** PP GCD14 177 yevrkskleeidlaekrleenerkriekakrrkaskdakvedkssksstevllkPvselkghtgyLtfatk 247 y+vr+++l+ dl++++le+n + ++++ ++s++ P++e++ghtgyLtfatk sp|Q80XC2|TRM61_MOUSE 238 YNVRTVSLPLPDLGANNLETN-------------MGSDASPFRSGT--------PMKETVGHTGYLTFATK 287 ******************999.............5668899****9........***************86 PP >> sp|P35550|FBRL_MOUSE rRNA 2'-O-methyltransferase fibrillarin OS=Mus musculus OX=10090 GN=Fbl PE=1 SV=2 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 20.8 0.0 1.1e-07 0.00031 35 150 .. 160 276 .. 152 301 .. 0.69 Alignments for each domain: == domain 1 score: 20.8 bits; conditional E-value: 1.1e-07 GCD14 35 kLelkpGsvvvesGtGsgslshaiartvaPtGhlftfefheqraekareefrehelsqlvtvthrDvckeGfdeevsgkvDavfLDlPa 123 ++++kpG++v+ G+ sg+ + ++ v+P G ++++ef + r + + ++ +++ ++++ v + + ++ + vD +f D+ + sp|P35550|FBRL_MOUSE 160 QIHIKPGAKVLYLGAASGTTVSHVSDIVGPDGLVYAVEFSH-RSGRDLINLAKKR-TNIIPVIEDARHPHKYR-MLIAMVDVIFADVAQ 245 789************************************65.4444455555444.34455544334456664.55599********** PP GCD14 124 Pwea.ip..haakalkkeggrlCsf.sPCie 150 P++ i +a + l++ g + s + Ci+ sp|P35550|FBRL_MOUSE 246 PDQTrIValNAHTFLRNGGHFVISIkANCID 276 *986332013333344443333343245665 PP >> sp|Q80WS3|FBLL1_MOUSE rRNA/tRNA 2'-O-methyltransferase fibrillarin-like protein 1 OS=Mus musculus OX=10090 GN=Fbll1 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 17.3 0.0 1.3e-06 0.0036 35 150 .. 148 264 .. 139 289 .. 0.71 Alignments for each domain: == domain 1 score: 17.3 bits; conditional E-value: 1.3e-06 GCD14 35 kLelkpGsvvvesGtGsgslshaiartvaPtGhlftfefheqraekareefrehelsqlvtvthrDvc.keGfdeevsgkvDavfLDl 121 ++++kp s+v+ G+ sg+ + ++ ++P G ++++ef +ra + + + +++ +++ v D+ + + + g vD +f D+ sp|Q80WS3|FBLL1_MOUSE 148 QIHIKPKSKVLYLGAASGTTVSHVSDIIGPDGLVYAVEFS-HRAGRDLVNVAKKRT-NIIPVL-EDARhPLKY-RMLIGMVDVIFADV 231 7899****************99*****************6.466666666665553.344444.444414445.5566********** PP GCD14 122 PaPwea.ip..haakalkkeggrlCsf.sPCie 150 +P+++ i +a + l++ g l s + Ci+ sp|Q80WS3|FBLL1_MOUSE 232 AQPDQSrIValNAHTFLRNGGHFLISIkANCID 264 ***986332113334455555555554245665 PP >> sp|P59913|PCMD1_MOUSE Protein-L-isoaspartate O-methyltransferase domain-containing protein 1 OS=Mus musculus OX=1009 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 14.9 0.0 6.9e-06 0.019 30 86 .. 70 126 .. 60 141 .. 0.92 2 ? -1.7 0.0 0.8 2.2e+03 209 226 .. 307 324 .. 286 354 .. 0.48 Alignments for each domain: == domain 1 score: 14.9 bits; conditional E-value: 6.9e-06 GCD14 30 sliimkLelkpGsvvvesGtGsgslshaiartvaPtGhlftfefheqraekareefr 86 s ++ L+l+pG ++ G G+g ls+ + ++P G + +e h + +e a+e+++ sp|P59913|PCMD1_MOUSE 70 SEVMEALKLQPGLSFLNLGSGTGYLSTMVGLILGPFGINHGIELHSDVVEYAKEKLE 126 568899******************************************999998765 PP == domain 2 score: -1.7 bits; conditional E-value: 0.8 GCD14 209 kaskdakvedkssksste 226 k+++d+k e+++++ ++ sp|P59913|PCMD1_MOUSE 307 KMEEDSKEEEEKEHIEAM 324 222222222222222111 PP >> sp|P23506|PIMT_MOUSE Protein-L-isoaspartate(D-aspartate) O-methyltransferase OS=Mus musculus OX=10090 GN=Pcmt1 PE=1 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 16.0 0.0 3.2e-06 0.0089 37 90 .. 75 128 .. 63 180 .. 0.80 Alignments for each domain: == domain 1 score: 16.0 bits; conditional E-value: 3.2e-06 GCD14 37 elkpGsvvvesGtGsgslshaiartvaPtGhlftfefheqraekareefrehel 90 +l++G+++++ G Gsg l+ +ar v+ G++ +++ ++ ++ ++ + ++++ sp|P23506|PIMT_MOUSE 75 QLHEGAKALDVGSGSGILTACFARMVGNSGKVIGIDHIKELVDDSITNVKKDDP 128 5789*********************************99999999999888764 PP >> sp|Q8BHD8|PCMD2_MOUSE Protein-L-isoaspartate O-methyltransferase domain-containing protein 2 OS=Mus musculus OX=1009 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 14.1 0.0 1.3e-05 0.035 30 84 .. 70 124 .. 56 148 .. 0.91 Alignments for each domain: == domain 1 score: 14.1 bits; conditional E-value: 1.3e-05 GCD14 30 sliimkLelkpGsvvvesGtGsgslshaiartvaPtGhlftfefheqraekaree 84 s ++ L+l+pG ++ G G+g ls+ + ++P G + +e h + +e a+++ sp|Q8BHD8|PCMD2_MOUSE 70 SEVMEALDLQPGLSFLNLGSGTGYLSSMVGLILGPFGVNHGVELHSDVTEYAKQK 124 568899****************************************999999876 PP >> sp|Q921L7|HEMK1_MOUSE HemK methyltransferase family member 1 OS=Mus musculus OX=10090 GN=Hemk1 PE=2 SV=2 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 14.2 0.0 1.1e-05 0.032 35 107 .. 155 226 .. 147 236 .. 0.91 Alignments for each domain: == domain 1 score: 14.2 bits; conditional E-value: 1.1e-05 GCD14 35 kLelkpGsvvvesGtGsgslshaiartvaPtGhlftfefheqraekareefrehelsqlvtvthrDvckeGfd 107 ++ + G ++e G Gsg+++ +++ + P+ ++ +++ e+ ++ e+ ++ +l++ + + h D+ +eG sp|Q921L7|HEMK1_MOUSE 155 AVRAQDGPLILEVGCGSGAITLSLLSQL-PKSRVVAVDKEEAAVSLTHENAQRLQLQDRIRIIHLDITSEGCC 226 56788999***************99776.****************************************9974 PP >> sp|Q9R0C0|BL1S6_MOUSE Biogenesis of lysosome-related organelles complex 1 subunit 6 OS=Mus musculus OX=10090 GN=Bloc # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 2.0 0.0 0.063 1.8e+02 125 177 .. 46 92 .. 36 97 .. 0.70 2 ? 5.7 4.7 0.0044 12 162 233 .. 96 170 .. 86 172 .] 0.66 Alignments for each domain: == domain 1 score: 2.0 bits; conditional E-value: 0.063 GCD14 125 weaiphaakalkkeggrlCsfsPCieqvqrtceaLrelgfteietlevllrty 177 + a++h+ gg l + P +++ +r+ ++L++ + + ++tle + ++ sp|Q9R0C0|BL1S6_MOUSE 46 DRAVEHL------VGGLLSHYLPDLQRSKRALQELTQNQVVLLDTLEQEISKF 92 5555544......3566888888888888888888888888888888766665 PP == domain 2 score: 5.7 bits; conditional E-value: 0.0044 GCD14 162 lgfteietlevllrtyevrkskleeidlaekrleenerkriekakrrkaskdakvedkssks...stevllkPvs 233 + +i++l ++y+++ +++++ l +++ ++ +kr+ k ++++++++ + e++++k ++++ +kP + sp|Q9R0C0|BL1S6_MOUSE 96 HSMLDINALFTEAKHYHAKLVTIRKEMLLLHEKTSKLKKRALKLQQKRQREELEREQQREKEferEKQLTAKPAK 170 67889******************9988755555555555555555555555444444444433446788889876 PP Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (247 nodes) Target sequences: 22289 (11757923 residues searched) Passed MSV filter: 1115 (0.0500247); expected 445.8 (0.02) Passed bias filter: 757 (0.0339629); expected 445.8 (0.02) Passed Vit filter: 79 (0.00354435); expected 22.3 (0.001) Passed Fwd filter: 20 (0.000897304); expected 0.2 (1e-05) Initial search space (Z): 22289 [actual number of targets] Domain search space (domZ): 8 [number of targets reported over threshold] # CPU time: 0.40u 0.01s 00:00:00.41 Elapsed: 00:00:00.12 # Mc/sec: 24201.72 // [ok]