# hmmscan :: search sequence(s) against a profile 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 sequence file: AA/23726_FusoPortal_Gene_1965.faa # target HMM database: Pfam-A.hmm # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: 23726_FusoPortal_Gene_1965 [L=355] Description: # 2111666 # 2112730 # 1 # ID=1_1965;partial=00;start_type=ATG;rbs_motif=AGGAGG;rbs_spacer=5-10bp;gc_cont=0.267 Scores for complete sequence (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Model Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 1.1e-55 188.6 0.0 1.3e-55 188.3 0.0 1.1 1 Ala_racemase_N Alanine racemase, N-terminal domain 1.5e-32 111.9 0.0 3.6e-32 110.7 0.0 1.7 1 Ala_racemase_C Alanine racemase, C-terminal domain Domain annotation for each model (and alignments): >> Ala_racemase_N Alanine racemase, N-terminal domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 188.3 0.0 1.6e-59 1.3e-55 1 216 [. 7 217 .. 7 220 .. 0.92 Alignments for each domain: == domain 1 score: 188.3 bits; conditional E-value: 1.6e-59 EEHHHHHHHHHHHHHHHCTTSEEEEE-HHHHHTTHHHHHHHHHHHTTESEEEESSHHHHHHHHHTT-ESEEEEESCSSGGGHH CS Ala_racemase_N 1 idldalrhNlrrlrelagpgaklmavvKanayghgavevaralaeggadgfgvatleEalelreagitapilvlegfspeela 83 id ++l++N+ +l+e a ++++++ vvKanayg+g +e+a+ l+e +++ fgva+leEa+el+eagi+ +il+l++ ++el 23726_FusoPortal_Gene_1965 7 IDKENLKYNVLKLKEIA-NNKEVLGVVKANAYGLGSIEIAKILKEVEVKLFGVANLEEAIELQEAGIKDKILILGASFEDELV 88 89***************.7788******************************************************5566777 PP HHHHTTEEEEESSHHHHHHHHHHHHHTTS-EEEEEEBESSSSSSSBSSHHHHHHHHHHHTTTTEEEEEEE-S-SSTTSTS... CS Ala_racemase_N 84 alaeydltvtvdsleqlealaaaareagkplrvhlkidtgmgRlGftpeeleellealaalpgleleglmtHfasadepd... 163 ++ +++++v+++s+eql+ l + + + ++hlk+dtgm RlGf+ +++e+++e +++ ++l+l+g+++H++++d ++ 23726_FusoPortal_Gene_1965 89 EATKRGVHVAISSMEQLQFLVSKNL----NPNIHLKFDTGMTRLGFEVDDAEKVIEYCKN-NNLNLVGIFSHLSDSDGNTiet 166 77899*************9999986....9****************************98.68*************9887888 PP .HHHHHHHHHHHHHHHHHHHTTGGGSEEEEESHHHHHHSG..GGTTEEEESGGGGT CS Ala_racemase_N 164 .eeteaqlarfeealeelekaglrppvvslanSaaillaa..ahfdmvRpGialyG 216 ++t +q+++f+++++ l ++++++nSa+i++++ ++vR Gi +y 23726_FusoPortal_Gene_1965 167 kNFTLEQIEKFKKIANSLN-----LEYIHISNSAGITNFHndILGNLVRLGIGMYS 217 778888************5.....78*************63355***********6 PP >> Ala_racemase_C Alanine racemase, C-terminal domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 110.7 0.0 4.3e-36 3.6e-32 2 123 .. 231 352 .. 230 353 .. 0.93 Alignments for each domain: == domain 1 score: 110.7 bits; conditional E-value: 4.3e-36 EEEEEEEEEEEEESTTSEESGGGSEE-SSSEEEEEES--GGGTCGGGGT..CEEEETTEEEEEESEE-SSEEEEEETTSTT.. CS Ala_racemase_C 2 mtlkarviqvkevkagegvgYgatyvaerdtriavvpiGYaDGlprals..gevlingkrvpvvGrvcMDqlmvdltevee.. 80 +t+k++++ +k+vk+++ v+Yg++y+++ d++ av+piGYaDGl++ ls g+vlin++r++++G++cMD++m+++ + e 23726_FusoPortal_Gene_1965 231 FTIKSKILFIKKVKKDSFVSYGRHYTLPADSTYAVLPIGYADGLKKYLSkgGYVLINNHRCEIIGNICMDMTMIRVPKEIEns 313 799*********************************************9867************************8543357 PP --TT-EEEEEEETEEEEHHHHHHHHTSEHHHHHHCSHTTSEEE CS Ala_racemase_C 81 vkvgdevvllgegeeitveelaeaagtisyeiltrlskrvprv 123 +k+gdev+++++ ++ + + + + +e++t++++rv+r+ 23726_FusoPortal_Gene_1965 314 IKIGDEVTVINA----DILDNLNIPELCVWEFMTGIGRRVKRI 352 **********86....79999999999***************8 PP Internal pipeline statistics summary: ------------------------------------- Query sequence(s): 1 (355 residues searched) Target model(s): 16712 (2907032 nodes) Passed MSV filter: 612 (0.0366204); expected 334.2 (0.02) Passed bias filter: 396 (0.0236955); expected 334.2 (0.02) Passed Vit filter: 26 (0.00155577); expected 16.7 (0.001) Passed Fwd filter: 2 (0.000119674); expected 0.2 (1e-05) Initial search space (Z): 16712 [actual number of targets] Domain search space (domZ): 2 [number of targets reported over threshold] # CPU time: 0.27u 0.24s 00:00:00.51 Elapsed: 00:00:00.33 # Mc/sec: 3127.26 // [ok]