# 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/FtsJ.hmm.txt # target sequence database: proteomes/Saccharomyces_cerevisiae.fasta # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: FtsJ [M=177] Accession: PF01728.18 Description: FtsJ-like 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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 5.9e-67 223.7 0.0 7.5e-67 223.3 0.0 1.1 1 sp|P38238|TRM7_YEAST tRNA (cytidine(32)/guanosine(34)-2'-O)- 2.8e-55 185.6 0.1 6.4e-55 184.5 0.1 1.7 1 sp|P25582|SPB1_YEAST 27S pre-rRNA (guanosine(2922)-2'-O)-met 3e-50 169.3 0.0 4.5e-50 168.7 0.0 1.3 1 sp|P53123|MRM2_YEAST rRNA methyltransferase 2, mitochondrial 0.00077 18.1 0.0 0.0016 17.1 0.0 1.5 1 sp|P38205|NCL1_YEAST Multisite-specific tRNA:(cytosine-C(5)) 0.0018 16.9 0.0 0.0045 15.6 0.0 1.6 2 sp|P38074|HMT1_YEAST Protein arginine N-methyltransferase 1 0.0036 15.9 0.0 0.0046 15.5 0.0 1.2 1 sp|P15646|FBRL_YEAST rRNA 2'-O-methyltransferase fibrillarin 0.0072 14.9 0.0 0.019 13.5 0.0 1.7 1 sp|P40991|NOP2_YEAST 25S rRNA (cytosine(2870)-C(5))-methyltr Domain annotation for each sequence (and alignments): >> sp|P38238|TRM7_YEAST tRNA (cytidine(32)/guanosine(34)-2'-O)-methyltransferase OS=Saccharomyces cerevisiae (strain AT # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 223.3 0.0 8.7e-70 7.5e-67 1 177 [] 21 207 .. 21 207 .. 0.96 Alignments for each domain: == domain 1 score: 223.3 bits; conditional E-value: 8.7e-70 TTSHHHHHHHHHHHHH--S-..TT-EEEEES-TT-HHHHHHTTT...........-SEEEEEESS-----TT-EEEE--TTSSSHHHHH CS FtsJ 1 yrsRsayKLleidekfklfk..pgktvvDlgaaPGgwsqvllqrl........gakgkvvavDlqpmaplpgvttiqgditdpetieki 79 yr+Rsa+KLl+++++f++++ + k+vvDl+aaPG+wsqvl+++l +++ k+v+vDlqpm+p+p+vtt+q+dit+p+t +i sp|P38238|TRM7_YEAST 21 YRARSAFKLLQLNDQFHFLDdpNLKRVVDLCAAPGSWSQVLSRKLfdespssdKEDRKIVSVDLQPMSPIPHVTTLQADITHPKTLARI 109 9****************997778899*******************888777653359******************************** PP HHHHHHSSEEEEEE-------S-HHHHHHHHHHHHHHHHHHHHHHEEEEEEEEEEEE-STTHHHHHHHHGGGEEEEEEE---------- CS FtsJ 80 kealserkvdlvvsDgapdvsgvhdldeylqsqLllaalelalkllkpggtfvlkifrgeeteallkqlkkfFekvsvvkPkssrsess 168 +++++++k+d+v+sDgapdv+g hdldey+q qL+++al+l+ +lk+ggtfv+kifrg++++ l++ql +F+k+ ++kP+ssr +s sp|P38238|TRM7_YEAST 110 LKLFGNEKADFVCSDGAPDVTGLHDLDEYVQQQLIMSALQLTACILKKGGTFVAKIFRGRDIDMLYSQLGYLFDKIVCAKPRSSRGTSL 198 ***************************************************************************************** PP EEEEEEEEE CS FtsJ 169 eeflvcrgf 177 e+f+vc+g+ sp|P38238|TRM7_YEAST 199 EAFIVCLGY 207 ******986 PP >> sp|P25582|SPB1_YEAST 27S pre-rRNA (guanosine(2922)-2'-O)-methyltransferase OS=Saccharomyces cerevisiae (strain ATCC # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 184.5 0.1 7.4e-58 6.4e-55 1 177 [] 25 202 .. 25 202 .. 0.98 Alignments for each domain: == domain 1 score: 184.5 bits; conditional E-value: 7.4e-58 TTSHHHHHHHHHHHHH--S.-TT-EEEEES-TT-HHHHHHTTT...-SEEEEEESS-----TT-EEEE--TTSSSHHHHHHHHHHHSSE CS FtsJ 1 yrsRsayKLleidekfklf.kpgktvvDlgaaPGgwsqvllqrlgakgkvvavDlqpmaplpgvttiqgditdpetiekikealserkv 88 yr+Rs++K+++i+ek++ f ++ k v+Dl+aaPG+w+qv+++ + ++ +++vD+ pm+p+p+v t+q dit+++ + k++ +++ k+ sp|P25582|SPB1_YEAST 25 YRARSSFKIIQINEKYGHFlEKSKVVIDLCAAPGSWCQVASKLCPVNSLIIGVDIVPMKPMPNVITFQSDITTEDCRSKLRGYMKTWKA 113 9***************97736999*******************9889****************************************** PP EEEEE-------S-HHHHHHHHHHHHHHHHHHHHHHEEEEEEEEEEEE-STTHHHHHHHHGGGEEEEEEE----------EEEEEEEEE CS FtsJ 89 dlvvsDgapdvsgvhdldeylqsqLllaalelalkllkpggtfvlkifrgeeteallkqlkkfFekvsvvkPkssrsesseeflvcrgf 177 d v++Dgap+v + +++d+++qsqL l+al+la++ l +gtfv+kifr+++ ++l+ ++++Fekv+ +kP++sr+ s+e+f+vc+gf sp|P25582|SPB1_YEAST 114 DTVLHDGAPNVGLGWVQDAFTQSQLTLQALKLAVENLVVNGTFVTKIFRSKDYNKLIWVFQQLFEKVEATKPPASRNVSAEIFVVCKGF 202 ***************************************************************************************98 PP >> sp|P53123|MRM2_YEAST rRNA methyltransferase 2, mitochondrial OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 168.7 0.0 5.2e-53 4.5e-50 2 176 .. 50 306 .. 49 307 .. 0.97 Alignments for each domain: == domain 1 score: 168.7 bits; conditional E-value: 5.2e-53 TSHHHHHHHHHHHHH--S-TT-E...EEEES-TT-HHHHHHTTT...-SEEEEEESS-----TT-EEEE--TTSSSHHHHHHHHHHH.. CS FtsJ 2 rsRsayKLleidekfklfkpgkt...vvDlgaaPGgwsqvllqrlgakgkvvavDlqpmaplpgvttiqgditdpetiekikealse.. 85 rsR+a+KL++id+k++lf++++t ++Dlg+aPG+wsqv+ qr +++++++vD+ p++p+ gv++iq++i+ ++t+++i+ ++s+ sp|P53123|MRM2_YEAST 50 RSRAAFKLMQIDDKYRLFSKNRTdqrILDLGYAPGAWSQVARQRSSPNSMILGVDILPCEPPHGVNSIQANILAKRTHDLIRLFFSKhf 138 9*****************85544444******************9889**********************************9999999 PP ........................................................SSEEEEEE----..................... CS FtsJ 86 ........................................................rkvdlvvsDgap..................... 97 +vd+++sD+ + sp|P53123|MRM2_YEAST 139 qlnrhddlhkdhgyfqnmleeelthvkdtelyreiftsddiyetpntnstlierekFPVDVIISDMYEpwpqttgfwnnitnqayfrma 227 9****************************************************99999*********88******************** PP ---S-HHHHHHHHHHHHHHHHHHHHHHEEEEEEEEEEEE-STTHHHHHHHHGGGEEEEEEE----------EEEEEEEE CS FtsJ 98 dvsgvhdldeylqsqLllaalelalkllkpggtfvlkifrgeeteallkqlkkfFekvsvvkPkssrsesseeflvcrg 176 ++sgv+ d+y++++L++aal +a++ll+p g+fv+k+++gee + + k+++++F +v+ +kP +sr es+e++++ ++ sp|P53123|MRM2_YEAST 228 NTSGVSIRDHYQSIDLCDAALVTAIDLLRPLGSFVCKLYTGEEENLFKKRMQAVFTNVHKFKPDASRDESKETYYIGLK 306 ***************************************************************************9876 PP >> sp|P38205|NCL1_YEAST Multisite-specific tRNA:(cytosine-C(5))-methyltransferase OS=Saccharomyces cerevisiae (strain A # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 17.1 0.0 1.8e-06 0.0016 19 137 .. 163 311 .. 146 338 .. 0.61 Alignments for each domain: == domain 1 score: 17.1 bits; conditional E-value: 1.8e-06 S-TT-EEEEES-TT-HHHHHHTTT........-SEEEEEESS--.........---..TT-EEEE--TTSSSHHHHHHHHHHH...... CS FtsJ 19 fkpgktvvDlgaaPGgwsqvllqrlga.....kgkvvavDlqpm.........apl..pgvttiqgditdpetiekikealse...... 85 +kp +tv+D +aaPG+ + l + l++ +g vva D + l ++ +++ d + i++ + sp|P38205|NCL1_YEAST 163 VKPHHTVLDMCAAPGSKTAQLIEALHKdtdepSGFVVANDADARrshmlvhqlKRLnsANLMVVNHDAQFFPRIRLH-----Gnsnnkn 246 4689*********************6655544699*****9887444444332222222333334444444444333.....1334446 PP ..SSEEEEEE----..........---S-HHHHHHHH...........H.HHHHHHHHHHHHHEEEEEEEEEEEE- CS FtsJ 86 ..rkvdlvvsDgap..........dvsgvhdldeylq...........s.qLllaalelalkllkpggtfvlkifr 137 k+d +++D+ + + l+ l+ +l+llk++g +v ++ sp|P38205|NCL1_YEAST 247 dvLKFDRILCDVPCsgdgtmrknvN-----------VwkdwntqaglgLhAVQLNILNRGLHLLKNNGRLVYSTCS 311 6678999999986334443333222...........1223444433222244444445577778888877766655 PP >> sp|P38074|HMT1_YEAST Protein arginine N-methyltransferase 1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 15.6 0.0 5.2e-06 0.0045 14 60 .. 52 95 .. 31 132 .. 0.82 2 ? -2.2 0.0 1.5 1.3e+03 47 75 .. 187 219 .. 176 246 .. 0.63 Alignments for each domain: == domain 1 score: 15.6 bits; conditional E-value: 5.2e-06 HHH--S-TT-EEEEES-TT-HHHHHHTTT...-SEEEEEESS----- CS FtsJ 14 ekfklfkpgktvvDlgaaPGgwsqvllqrlgakgkvvavDlqpmapl 60 + +lf ++k v+D+g+++G s +++++ ga ++v++vD+ ++ + sp|P38074|HMT1_YEAST 52 QNKDLF-KDKIVLDVGCGTGILSMFAAKH-GA-KHVIGVDMSSIIEM 95 444556.6789******************.88.99******998444 PP == domain 2 score: -2.2 bits; conditional E-value: 1.5 SEEEEEESS-----....TT-EEE.E--TTSSSH CS FtsJ 47 gkvvavDlqpmapl....pgvtti.qgditdpet 75 + v+++D p pl p v t+ + ++++ sp|P38074|HMT1_YEAST 187 QDVYGFDYSPFVPLvlhePIVDTVeRNNVNTT-S 219 56888888888666566677777743333332.2 PP >> sp|P15646|FBRL_YEAST rRNA 2'-O-methyltransferase fibrillarin OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 15.5 0.0 5.3e-06 0.0046 16 97 .. 162 246 .. 147 286 .. 0.86 Alignments for each domain: == domain 1 score: 15.5 bits; conditional E-value: 5.3e-06 H--S-TT-EEEEES-TT-HHHHHHTTT...-SEEEEEESS--.........---TT-EEEE--TTSSSHHHHHHHHHHHSSEEEEEE-- CS FtsJ 16 fklfkpgktvvDlgaaPGgwsqvllqrlgakgkvvavDlqpm.........aplpgvttiqgditdpetiekikealserkvdlvvsDg 95 + pgk+v+ lgaa G ++ +g++g+v+av + +++p++ i d ++p++ +++ vd+v +D+ sp|P15646|FBRL_YEAST 162 LF-IAPGKKVLYLGAASGTSVSHVSDVVGPEGVVYAVEFSHRpgrelismaKKRPNIIPIIEDARHPQKYRMLIG-----MVDCVFADV 244 33.579*********************************888889998886677999999***********9996.....59******9 PP -- CS FtsJ 96 ap 97 a sp|P15646|FBRL_YEAST 245 AQ 246 93 PP >> sp|P40991|NOP2_YEAST 25S rRNA (cytosine(2870)-C(5))-methyltransferase OS=Saccharomyces cerevisiae (strain ATCC 20450 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 13.5 0.0 2.2e-05 0.019 21 137 .. 345 479 .. 325 496 .. 0.59 Alignments for each domain: == domain 1 score: 13.5 bits; conditional E-value: 2.2e-05 TT-EEEEES-TT-HHHHHHTTT...-SEEEEEESS--...---TT-EEE...E--TTSSSHHHHHHHHHHHSSEEEEEE-------S-H CS FtsJ 21 pgktvvDlgaaPGgwsqvllqrlgakgkvvavDlqpm...aplpgvtti...qgditdpetiekikealserkvdlvvsDgapdvsgvh 103 ++++++D +aaPGg + +++ ++++g v+a D ++ +++ +++ + ++ + + +++ ++ + +++ +d ++ D + +gv sp|P40991|NOP2_YEAST 345 ENERILDMAAAPGGKTTYISAMMKNTGCVFANDANKSrtkSLIANIHRLgctNTIVCNYDAR-EFPKVIGG--FDRILLDAPCSGTGVI 430 6788*******************99999******9985542334444444212222222222.23333333..5555555443333333 PP HHHHHHH...............HHHHHHHHHHHHHHEEEEEEEEEEEE- CS FtsJ 104 dldeylq...............sqLllaalelalkllkpggtfvlkifr 137 +d+ ++ qLll+a+ k+gg++v ++ sp|P40991|NOP2_YEAST 431 GKDQSVKvsrtekdfiqiphlqKQLLLSAIDSVDCNSKHGGVIVYSTCS 479 3333333333333333344454577777777766777777777765555 PP Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (177 nodes) Target sequences: 6049 (2936363 residues searched) Passed MSV filter: 198 (0.0327327); expected 121.0 (0.02) Passed bias filter: 169 (0.0279385); expected 121.0 (0.02) Passed Vit filter: 20 (0.00330633); expected 6.0 (0.001) Passed Fwd filter: 7 (0.00115722); expected 0.1 (1e-05) Initial search space (Z): 6049 [actual number of targets] Domain search space (domZ): 7 [number of targets reported over threshold] # CPU time: 0.05u 0.00s 00:00:00.05 Elapsed: 00:00:00.02 # Mc/sec: 25986.81 // [ok]