# 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/Fibrillarin.hmm.txt # target sequence database: proteomes/Thermococcus_kodakarensis.fasta # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: Fibrillarin [M=226] Accession: PF01269.17 Description: Fibrillarin 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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 2.3e-101 334.7 0.0 2.7e-101 334.5 0.0 1.0 1 sp|Q5JFN1|FLPA_THEKO Fibrillarin-like rRNA/tRNA 2'-O-methy 0.00019 17.7 0.0 0.00025 17.3 0.0 1.1 1 tr|Q5JEE1|Q5JEE1_THEKO Protein-L-isoaspartate O-methyltransf 0.0018 14.5 0.0 0.0031 13.8 0.0 1.3 1 tr|Q5JDP5|Q5JDP5_THEKO tRNA/rRNA cytosine-C5-methylase, NOL1 0.0044 13.3 0.0 0.0085 12.3 0.0 1.4 1 tr|Q5JEW7|Q5JEW7_THEKO tRNA/rRNA cytosine-C5-methylase, NOL1 Domain annotation for each sequence (and alignments): >> sp|Q5JFN1|FLPA_THEKO Fibrillarin-like rRNA/tRNA 2'-O-methyltransferase OS=Thermococcus kodakarensis (strain ATCC BAA # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 334.5 0.0 4.7e-104 2.7e-101 2 223 .. 4 224 .. 3 226 .] 0.97 Alignments for each domain: == domain 1 score: 334.5 bits; conditional E-value: 4.7e-104 EEECSSTTEEEEE.TTSSEEEEEE-SSTT--SSSSEEEEETTEEEEEE-TTTSHHHHHHHTT-S--S--TTSEEEEESTTTSHHHHHHH CS Fibrillarin 2 eeheklegvyivk.ekgdarlatknlvpgekvYgEklikveeeEyRvWnpfrsKlaaailkglkelpikkgskvLYlGaasGttvsHvs 89 ++h ++ gvyiv ++g++++atknlvpg++vYgE+++k e+eEyR+Wnp rsKl+aail+glk++pik+gs vLYlG+asGtt+sHvs sp|Q5JFN1|FLPA_THEKO 4 KKH-RFPGVYIVIdDDGSEKIATKNLVPGQRVYGERVVKFEGEEYRIWNPTRSKLGAAILNGLKNFPIKPGSTVLYLGVASGTTASHVS 91 566.*******99899999********************************************************************** PP HHHTTTSEEEEEESSHHHHHHHHHHHTTSTTEEEEES-TTSGGGGTTTS--EEEEEEESSSTTHHHHHHHHHHHHEEEEEEEEEEEEHH CS Fibrillarin 90 DivgeegvvyavefsprvlrelievakkRknivPileDArkPekYralvekvDvifaDvaqpdqarilaknaklflkeggyllisikar 178 Divg eg+v++vefsprvlrel+ ++++R+nivPil+DA+kPe Yralv+kvDvif+Dvaqp+qa+il++nak++lk+ggy +is+k+r sp|Q5JFN1|FLPA_THEKO 92 DIVGWEGKVFGVEFSPRVLRELVPLVEERRNIVPILGDATKPEGYRALVPKVDVIFEDVAQPTQAKILIDNAKVYLKSGGYGMISVKSR 180 ***************************************************************************************** PP HHHSSSSHHHHHHHHHHHHHHTTEEEEEEEE-TTTSTTEEEEEEE CS Fibrillarin 179 sidvtkepeevfkeeveklkeeglkvleqvklepyekdhalvvgk 223 sidvtkepe+vfke +++l++ ++v+e ++lepyekdhal+v++ sp|Q5JFN1|FLPA_THEKO 181 SIDVTKEPEQVFKEVEKELST-YFEVVERLSLEPYEKDHALFVVR 224 **************9999986.5******************9986 PP >> tr|Q5JEE1|Q5JEE1_THEKO Protein-L-isoaspartate O-methyltransferase OS=Thermococcus kodakarensis (strain ATCC BAA-918 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 17.3 0.0 4.3e-07 0.00025 62 129 .. 69 136 .. 61 151 .. 0.78 Alignments for each domain: == domain 1 score: 17.3 bits; conditional E-value: 4.3e-07 T-S--S--TTSEEEEESTTTSHHHHHHHHHHTTTSEEEEEESSHHHHHHHHHHHTTS...TTEEEEES-TT CS Fibrillarin 62 glkelpikkgskvLYlGaasGttvsHvsDivgeegvvyavefsprvlrelievakkR...knivPileDAr 129 l+ +k+g +vL +G++sG ++ +s++v+ vy++e p + e+ + +R kn+ il+D + tr|Q5JEE1|Q5JEE1_THEKO 69 MLELADLKPGMNVLEIGTGSGWNAALISELVK--TDVYTIERIPELV-EFARRNLERagvKNVHVILGDGT 136 4666789************************9..78*****999865.44444444423368888888876 PP >> tr|Q5JDP5|Q5JDP5_THEKO tRNA/rRNA cytosine-C5-methylase, NOL1/NOP2/Sun family OS=Thermococcus kodakarensis (strain AT # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 13.8 0.0 5.3e-06 0.0031 69 115 .. 249 295 .. 234 311 .. 0.86 Alignments for each domain: == domain 1 score: 13.8 bits; conditional E-value: 5.3e-06 -TTSEEEEESTTTSHHHHHHHHHHTTTSEEEEEESSHHHHHHHHHHH CS Fibrillarin 69 kkgskvLYlGaasGttvsHvsDivgeegvvyavefsprvlrelieva 115 k+g+ v+ l aa G +H++++++++g++ya ++ + ++ + ev tr|Q5JDP5|Q5JDP5_THEKO 249 KPGETVVDLAAAPGGKTAHMAELMENRGKIYAFDVDSARIKRMKEVL 295 89******************************999877777766665 PP >> tr|Q5JEW7|Q5JEW7_THEKO tRNA/rRNA cytosine-C5-methylase, NOL1/NOP2/Sun family, containing RNA-binding PUA domain OS=T # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 12.3 0.0 1.5e-05 0.0085 72 130 .. 200 260 .. 182 265 .. 0.80 Alignments for each domain: == domain 1 score: 12.3 bits; conditional E-value: 1.5e-05 SEEEEESTTTSHHHHHHHHHHTTTSEEEEEESSHHHHHHHHHHHTT..STTEEEEES-TTS CS Fibrillarin 72 skvLYlGaasGttvsHvsDivgeegvvyavefsprvlrelievakk..RknivPileDArk 130 + ++ + aa G sH++ +++++g + a++ s lr++ e k+ kn+ i DArk tr|Q5JEW7|Q5JEW7_THEKO 200 DLIIDMAAAPGGKTSHIAQLMQNRGEIIAIDKSRNRLRKMEEELKRlgVKNVRLIHMDARK 260 4567788999****************************99876654224777777777775 PP Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (226 nodes) Target sequences: 2301 (637680 residues searched) Passed MSV filter: 90 (0.0391134); expected 46.0 (0.02) Passed bias filter: 74 (0.0321599); 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: 00:00:00.02 # Mc/sec: 7205.78 // [ok]