# 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/MafB19-deam.hmm.txt # target sequence database: proteomes/Danio_rerio.fasta # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: MafB19-deam [M=138] Accession: PF14437.5 Description: MafB19-like deaminase 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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 3e-19 69.7 0.2 4.1e-19 69.2 0.2 1.2 1 sp|Q5RIV4|ADAT2_DANRE tRNA-specific adenosine deaminas 7.6e-15 55.4 0.0 9.8e-15 55.0 0.0 1.3 1 tr|Q568L4|Q568L4_DANRE dCMP deaminase OS=Danio rerio OX 1.6e-12 47.8 0.6 1e-05 25.8 0.1 2.5 2 sp|Q5U3U4|CDAC1_DANRE Cytidine and dCMP deaminase doma 8.5e-11 42.3 0.8 6.3e-08 33.0 0.2 2.2 2 sp|Q8JFW4|ADAT3_DANRE Probable inactive tRNA-specific ------ inclusion threshold ------ 0.011 15.9 1.5 0.017 15.3 0.1 2.0 3 tr|A0A2R8Q022|A0A2R8Q022_DANRE Apolipoprotein B mRNA-editing en Domain annotation for each sequence (and alignments): >> sp|Q5RIV4|ADAT2_DANRE tRNA-specific adenosine deaminase 2 OS=Danio rerio OX=7955 GN=adat2 PE=2 SV=2 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 69.2 0.2 8e-23 4.1e-19 4 107 .. 22 137 .. 19 173 .. 0.79 Alignments for each domain: == domain 1 score: 69.2 bits; conditional E-value: 8e-23 MafB19-deam 4 ekafrkalaevekatkikedkigavivkdkkviargsnekelnakataHaEiaalqqAa......kklkskrlddatlyvtlepCdmC 85 + +++ka ++ +a++ +e+++g++ v ++++i++g ne + ++at HaE+ al q +k + ++++lyvt+epC mC sp|Q5RIV4|ADAT2_DANRE 22 QTWMAKAFDMAVEALENGEVPVGCLMVYNNEIIGKGRNEVNETKNATRHAEMVALDQVLdwcrlrEKDCKEVCEQTVLYVTVEPCIMC 109 89**************************************************99999862222224666777899************* PP MafB19-deam 86 agaivqaglkklvygagnpks......l 107 a a+ +++ +vyg++n+ + l sp|Q5RIV4|ADAT2_DANRE 110 AAALRLLRIPFVVYGCKNERFggcgsvL 137 *****************99987775542 PP >> tr|Q568L4|Q568L4_DANRE dCMP deaminase OS=Danio rerio OX=7955 GN=dctd PE=1 SV=1 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 55.0 0.0 1.9e-18 9.8e-15 3 103 .. 30 146 .. 28 184 .. 0.86 Alignments for each domain: == domain 1 score: 55.0 bits; conditional E-value: 1.9e-18 MafB19-deam 3 kekafrkalaevekatkikedkigaviv.kdkkviargsn...................ekelnakataHaEiaalqqAakklkskr 69 + ++f+ +++ +++k + ++ga iv +++k++++g+n + +++ HaE +a++ +++ tr|Q568L4|Q568L4_DANRE 30 WPEYFMAVAFLSAQRSKDPNSQVGACIVnQENKIVGIGYNgmpngcdddllpwsrsadnKLDTKYPYVCHAELNAIMNK---NSA-D 112 678999999999999999999999966659*************************99765566666789*******974...444.4 PP MafB19-deam 70 lddatlyvtlepCdmCagaivqaglkklvygagn 103 +++ +yv l pC+ Ca++i+qag+k+++y +++ tr|Q568L4|Q568L4_DANRE 113 VKGCSIYVALFPCNECAKLIIQAGIKDVIYLSDK 146 79****************************9884 PP >> sp|Q5U3U4|CDAC1_DANRE Cytidine and dCMP deaminase domain-containing protein 1 OS=Danio rerio OX=7955 GN=cdadc1 PE=2 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 20.1 0.0 1.2e-07 0.0006 67 103 .. 109 145 .. 61 172 .. 0.84 2 ! 25.8 0.1 2e-09 1e-05 41 118 .. 362 461 .. 324 469 .. 0.77 Alignments for each domain: == domain 1 score: 20.1 bits; conditional E-value: 1.2e-07 MafB19-deam 67 skrlddatlyvtlepCdmCagaivqaglkklvygagn 103 + rl+ + ly ++pC+ C++++++ag+ ++ y g+ sp|Q5U3U4|CDAC1_DANRE 109 GPRLKSCELYFSRKPCSTCLKMLINAGVSRISYWPGD 145 34699*************************9987774 PP == domain 2 score: 25.8 bits; conditional E-value: 2e-09 MafB19-deam 41 n....................ekelnakataHaEiaalqqAakklkskrlddatlyvtlepCdmCagaivqaglkklvygagnpks.. 106 n +++ + HaE +al + +k+ d+++++vt+ pCd C +i ag+k++ + s sp|Q5U3U4|CDAC1_DANRE 362 NaypvgsqyaeypqmdhkqeeRQNRKYRYILHAEQNALTFRSAEIKAE--DNTMMFVTKCPCDECVPLIGCAGIKQIYTTDLD--Snk 445 2444444466666666666657777778889******99776677777..9*************************9765443..333 PP MafB19-deam 107 ....lnkLkvkekngr 118 ++ L +++ ng sp|Q5U3U4|CDAC1_DANRE 446 vkhdISYLRFNKLNGV 461 6889999999888875 PP >> sp|Q8JFW4|ADAT3_DANRE Probable inactive tRNA-specific adenosine deaminase-like protein 3 OS=Danio rerio OX=7955 GN=a # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 7.8 0.0 0.00074 3.8 4 53 .. 170 220 .. 167 233 .. 0.83 2 ! 33.0 0.2 1.2e-11 6.3e-08 75 127 .. 270 331 .. 262 336 .] 0.78 Alignments for each domain: == domain 1 score: 7.8 bits; conditional E-value: 0.00074 MafB19-deam 4 ekafrkalaevekatkikedkigaviv..kdkkviargsnekelnakataHa 53 +++ a++ ++ + +++ d +gaviv k +++ia+++ k +++ Ha sp|Q8JFW4|ADAT3_DANRE 170 REYMCVAVKAAKSGRELGMDAVGAVIVdpKTEQIIAVAHDCKR-GSHPLHHA 220 5788889999999***********99977889******99555.55667776 PP == domain 2 score: 33.0 bits; conditional E-value: 1.2e-11 MafB19-deam 75 lyvtlepCdmCagaivqaglkklvygagnpks.....lnkLkvkekngrvelv....eddck 127 lyvt+epC mCa a+v +++ ++ yga+ ++ + k n+r+e++ ++c+ sp|Q8JFW4|ADAT3_DANRE 270 LYVTREPCVMCAMALVHSRISRVFYGASTADGafgsrYKIHCQKDLNHRFEVFkgvmVNACE 331 8***************************9999997744444445679999999666634443 PP >> tr|A0A2R8Q022|A0A2R8Q022_DANRE Apolipoprotein B mRNA-editing enzyme, catalytic polypeptide-like 2b OS=Danio rerio OX # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? -2.5 0.3 1.1 5.6e+03 19 44 .. 17 42 .. 8 50 .. 0.65 2 ? 15.3 0.1 3.4e-06 0.017 46 90 .. 144 188 .. 113 204 .. 0.86 3 ? -2.5 0.0 1.1 5.8e+03 90 112 .. 214 236 .. 213 251 .. 0.66 Alignments for each domain: == domain 1 score: -2.5 bits; conditional E-value: 1.1 MafB19-deam 19 kikedkigavivkdkkviargsneke 44 k+ke+k+ +v++k++k + +n++e tr|A0A2R8Q022|A0A2R8Q022_DANRE 17 KKKEKKVEKVESKPEKEKEKSKNKDE 42 56677777777776665555555444 PP == domain 2 score: 15.3 bits; conditional E-value: 3.4e-06 MafB19-deam 46 nakataHaEiaalqqAakklkskrlddatlyvtlepCdmCagaiv 90 ++++++HaE a +qq ++ +t y+ pC Ca +v tr|A0A2R8Q022|A0A2R8Q022_DANRE 144 DEHSGSHAEEAFFQQVLAYYDKSLRYTVTWYTSSSPCVACAAKLV 188 56899***********************************86555 PP == domain 3 score: -2.5 bits; conditional E-value: 1.1 MafB19-deam 90 vqaglkklvygagnpkslnkLkv 112 +qagl+ lv+++ ++ + +++ tr|A0A2R8Q022|A0A2R8Q022_DANRE 214 IQAGLQALVRAGCKLRMMRPVDF 236 78889888888776666666654 PP Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (138 nodes) Target sequences: 25687 (13798380 residues searched) Passed MSV filter: 845 (0.032896); expected 513.7 (0.02) Passed bias filter: 525 (0.0204384); expected 513.7 (0.02) Passed Vit filter: 37 (0.00144042); expected 25.7 (0.001) Passed Fwd filter: 5 (0.000194651); expected 0.3 (1e-05) Initial search space (Z): 25687 [actual number of targets] Domain search space (domZ): 5 [number of targets reported over threshold] # CPU time: 0.17u 0.01s 00:00:00.18 Elapsed: 00:00:00.09 # Mc/sec: 21157.52 // [ok]