# 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/Trm112p.hmm.txt # target sequence database: proteomes/Ciona_intestinalis.fasta # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: Trm112p [M=68] Accession: PF03966.15 Description: Trm112p-like protein 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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 2.7e-15 56.6 0.0 3.3e-15 56.3 0.0 1.1 1 tr|H2Y026|H2Y026_CIOIN multifunctional methyltransferase sub ------ inclusion threshold ------ 0.16 12.5 8.6 7.5 7.1 0.1 4.3 4 tr|F6S5T2|F6S5T2_CIOIN Uncharacterized protein OS=Ciona inte 0.36 11.3 4.7 0.93 10.0 4.7 1.7 1 tr|F6UW73|F6UW73_CIOIN Uncharacterized protein OS=Ciona inte 0.41 11.2 4.3 2.3 8.7 0.3 3.1 3 tr|F6RLZ7|F6RLZ7_CIOIN Uncharacterized protein OS=Ciona inte Domain annotation for each sequence (and alignments): >> tr|H2Y026|H2Y026_CIOIN multifunctional methyltransferase subunit TRM112-like protein OS=Ciona intestinalis OX=7719 G # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 56.3 0.0 7.9e-19 3.3e-15 2 68 .] 11 120 .. 10 120 .. 0.98 Alignments for each domain: == domain 1 score: 56.3 bits; conditional E-value: 7.9e-19 TGGCCC-B-TTTHH.....C-..........................-HHHHHHHHH.TT---.S-SS----S...........CHH CS Trm112p 2 llllniLaCpackg.....pL..........................dwealvevaa.lglne.lpkekpedy...........ell 44 l ++n+L+++ +kg pL +w+al ++++ g ++ lp+e p+dy ++l tr|H2Y026|H2Y026_CIOIN 11 LITHNMLTSH-VKGvkngyPLvikaedikeqetdfnpdfisrmitriEWPALTKAMEmIGHTDqLPEEVPKDYetnndflkqahHAL 96 689*******.**************************************************************************** PP TTEECCCCEEEETTTTEEEEEETT CS Trm112p 45 leldieegeLvCpncgraYpIkdG 68 +e+++++g+L+Cp+ gr +pI +G tr|H2Y026|H2Y026_CIOIN 97 MEIEVITGSLTCPESGREFPIANG 120 *********************998 PP >> tr|F6S5T2|F6S5T2_CIOIN Uncharacterized protein OS=Ciona intestinalis OX=7719 GN=zf(c2h2)-116 PE=4 SV=2 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 6.2 0.3 0.0035 15 26 63 .. 92 134 .. 71 136 .. 0.87 2 ? 1.2 0.1 0.12 5.2e+02 47 60 .. 348 361 .. 308 363 .. 0.75 3 ? 7.1 0.1 0.0018 7.5 41 67 .. 423 457 .. 391 458 .. 0.70 4 ? -1.9 0.1 1.2 4.9e+03 15 40 .. 508 535 .. 498 566 .. 0.56 Alignments for each domain: == domain 1 score: 6.2 bits; conditional E-value: 0.0035 HH.TT---S-SS----SCHHTTEECCC....CEEEETTTTEEE CS Trm112p 26 aa.lglnelpkekpedyellleldiee....geLvCpncgraY 63 + +++++l k+++++ + + el ++ +++C c+r + tr|F6S5T2|F6S5T2_CIOIN 92 NTnAEITSLEKQQCSKTDSCTELASDNlkfsDSMQCQVCKRKF 134 455789999********88888888888889**********98 PP == domain 2 score: 1.2 bits; conditional E-value: 0.12 EECCCCEEEETTTT CS Trm112p 47 ldieegeLvCpncg 60 +++ g LvC++c tr|F6S5T2|F6S5T2_CIOIN 348 KHKKPGDLVCRSCS 361 366679******95 PP == domain 3 score: 7.1 bits; conditional E-value: 0.0018 S........CHHTTEECCCCEEEETTTTEEEEEET CS Trm112p 41 y........ellleldieegeLvCpncgraYpIkd 67 + + l ++++++ + Cp c+ ++ I+d tr|F6S5T2|F6S5T2_CIOIN 423 ItnlkenlqKHSLTHQEKDQPFMCPICRKTFEIRD 457 0455555552346679999***************9 PP == domain 4 score: -1.9 bits; conditional E-value: 1.2 H.....C--HHHHHHHHH.TT---S-SS---- CS Trm112p 15 g.....pLdwealvevaa.lglnelpkekped 40 +L l ++ +++n +pk+ ++ tr|F6S5T2|F6S5T2_CIOIN 508 YkgrtkQL----LQSHMKcRHNNHVPKNESTS 535 44455555....55566666677755554443 PP >> tr|F6UW73|F6UW73_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 ? 10.0 4.7 0.00022 0.93 6 60 .. 8 53 .. 4 55 .. 0.86 Alignments for each domain: == domain 1 score: 10.0 bits; conditional E-value: 0.00022 CC-B-TTTHHC--HHHHHHHHHTT---.S-SS----SCHHTTEECCCCEEEETTTT CS Trm112p 6 niLaCpackgpLdwealvevaalglne.lpkekpedyellleldieegeLvCpncg 60 ++L C++c +pL ++n+ lp + + + + l+ +++ + eL Cp+c+ tr|F6UW73|F6UW73_CIOIN 8 DLLECSVCLKPL----------DQQNKvLPCQHTFCKSCLFSIVRSHKELRCPECR 53 79**********..........46677788887777799****************8 PP >> tr|F6RLZ7|F6RLZ7_CIOIN Uncharacterized protein OS=Ciona intestinalis OX=7719 GN=zf(c2h2)-41 PE=4 SV=2 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? -3.1 0.0 2.8 1.2e+04 10 37 .. 123 149 .. 122 165 .. 0.51 2 ? 8.7 0.3 0.00056 2.3 10 66 .. 242 306 .. 241 308 .. 0.76 3 ? 2.6 0.1 0.044 1.9e+02 46 64 .. 407 425 .. 372 425 .. 0.60 Alignments for each domain: == domain 1 score: -3.1 bits; conditional E-value: 2.8 -TTTHHC--HHHHHHHHHTT---.S-SS- CS Trm112p 10 CpackgpLdwealvevaalglne.lpkek 37 C +g L + l ++ ++++ l+k++ tr|F6RLZ7|F6RLZ7_CIOIN 123 CTRERGDL-MNLLMHQS-ANNAAnLQKQN 149 55556655.22222222.33433355544 PP == domain 2 score: 8.7 bits; conditional E-value: 0.00056 -TTTHH....C--HHHHHHHHHTT---S-SS----S.......CHHTTEECCC.CEEEETTTTEEEEEE CS Trm112p 10 Cpackg....pLdwealvevaalglnelpkekpedy.......ellleldiee.geLvCpncgraYpIk 66 C++c pLd+++ + a e ++++e + l+++++++ eL+C+ cg+ + + tr|F6RLZ7|F6RLZ7_CIOIN 242 CSVCGAvllnPLDLQSHMQSHA----EASMYRCEICglhfkfqTNLFKHKKLHnSELICHICGLEFKVV 306 8888888888886666666665....55666666668889999778999998879**********9986 PP == domain 3 score: 2.6 bits; conditional E-value: 0.044 TEECCCCEEEETTTTEEEE CS Trm112p 46 eldieegeLvCpncgraYp 64 + +eg + Cp cg a++ tr|F6RLZ7|F6RLZ7_CIOIN 407 DMRYIEGGFDCPVCGKAFR 425 456689999******9995 PP Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (68 nodes) Target sequences: 16678 (5370518 residues searched) Passed MSV filter: 586 (0.0351361); expected 333.6 (0.02) Passed bias filter: 437 (0.0262022); expected 333.6 (0.02) Passed Vit filter: 45 (0.00269817); expected 16.7 (0.001) Passed Fwd filter: 5 (0.000299796); expected 0.2 (1e-05) Initial search space (Z): 16678 [actual number of targets] Domain search space (domZ): 4 [number of targets reported over threshold] # CPU time: 0.06u 0.00s 00:00:00.06 Elapsed: 00:00:00.03 # Mc/sec: 12173.17 // [ok]