# 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_44.faa # target HMM database: Pfam-A.hmm # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: 23726_FusoPortal_Gene_44 [L=397] Description: # 56735 # 57925 # -1 # ID=1_44;partial=00;start_type=ATG;rbs_motif=AGGAG;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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 4.9e-79 265.7 0.7 6.1e-79 265.3 0.7 1.1 1 ArsA_ATPase Anion-transporting ATPase 4.8e-11 42.8 0.1 1.3e-10 41.4 0.1 1.7 1 AAA_31 AAA domain 1.3e-07 31.6 0.0 2.8e-07 30.6 0.0 1.8 1 CbiA CobQ/CobB/MinD/ParA nucleotide binding domain 5.9e-06 25.8 0.3 1.1e-05 24.9 0.3 1.5 1 ParA NUBPL iron-transfer P-loop NTPase 0.0031 16.9 0.1 0.0067 15.8 0.1 1.6 1 Fer4_NifH 4Fe-4S iron sulfur cluster binding proteins, N 0.0045 16.5 0.1 0.012 15.2 0.1 1.7 2 SRP54 SRP54-type protein, GTPase domain 0.0067 15.7 1.2 0.012 14.8 0.1 2.0 2 ATPase KaiC ------ inclusion threshold ------ 0.022 14.4 0.0 0.1 12.2 0.1 1.9 2 IstB_IS21 IstB-like ATP binding protein 0.036 13.9 3.0 2.3 8.0 0.7 3.1 3 RsgA_GTPase RsgA GTPase 0.15 11.5 0.1 0.3 10.4 0.1 1.7 1 CBP_BcsQ Cellulose biosynthesis protein BcsQ 0.17 11.6 0.1 0.33 10.7 0.1 1.5 1 Helicase_RecD Helicase 0.3 10.5 0.5 0.48 9.9 0.5 1.3 1 AAA_25 AAA domain Domain annotation for each model (and alignments): >> ArsA_ATPase Anion-transporting ATPase # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 265.3 0.7 4.4e-82 6.1e-79 1 304 [. 2 302 .. 2 304 .. 0.95 Alignments for each domain: == domain 1 score: 265.3 bits; conditional E-value: 4.4e-82 -EEEEEEESTTSSHHHHHHHHHHHHHHTTS-EEEEE-STTTHHHHHHTS--BSS-EEETT-SSEEEEE--HHHHHHHHHCCHHGG CS ArsA_ATPase 1 lkviffgGKGGVGKttvsaatavklseqgkkvllvstDPAhslsdsfdqklgkeptkvkgvenLsavEidpqeeleearqevvke 85 +++i+f+GKGGVGK++v+aa a++ +++gkk+llvs D Ah+l+d+f+ ++g ++tk++ enL a+E+d+++ +e ev+++ 23726_FusoPortal_Gene_44 2 TRIIIFTGKGGVGKSSVAAAHALSSAKSGKKTLLVSADTAHNLGDIFKIQIGSKITKIS--ENLDALELDSDVVKREIFPEVKNT 84 589********************************************************..************999999****** PP GSCCHHHHHHHHHHHHHHTSSTTHHHHHHHHHHHHHHHCSSSSEEEEESBSCCHTCGGGGHHHHHHHHHHHHHHHHHHHHHHHHH CS ArsA_ATPase 86 eeallgleeledvlaeelaslpgideiasfdellklvkeeeydvvifDtAPTGhtlrlLslpevleklleklvklknklsplakp 170 + +l+g ++ + +e slpg ++++s+ ++++ +++++y+++ +D APTG+tl lL+lpe l +++ek++ + +k+ +++p 23726_FusoPortal_Gene_44 85 MLDLMGKSGIGITNLNENFSLPGFENLFSLLKIKEIYESNQYEHILVDCAPTGETLALLKLPELLAWYMEKFFPVGKKIVRILSP 169 **9999776666666777899**************************************************************** PP HCCSHCHHHHHH..HHHHHHHHHHHHHHHHHHHHTSTTTEEEEEEEESSHHHHHHHHHHHHHHHHTT-EEEEEEEEEE-TTCSSS CS ArsA_ATPase 171 lvklglgavsle..ealeeleetkeqikkveeilsdpertsfvlVvipeklslkEteRaikeLakygikvdavivNkvlpeeeqe 253 ++kl + +v l+ ++++ +e +++ +++e l+++e+ s++l++ipek+ ++Et+R + +L+ y+ +vd v +N+++ +e ++ 23726_FusoPortal_Gene_44 170 ISKL-AYKVILPsvKTMDTIELIHQKLLELQELLKNNEICSIRLICIPEKMIVEETKRNFMYLNLYKYQVDIVFINRIITDEIEN 253 *996.5566666679********************************************************************97 PP TSHHHHHHHHHHHHHHHHHHHHTTTSEEEEEE--SS-S-SHHHHHHHHHHH CS ArsA_ATPase 254 nceflearkkiqkkylkeieelfedlpvvklplleeevvGlealeklsell 304 +f++++kkiq+ky+ke+ee f ++pvvk+p +++e+vG + l+ l +++ 23726_FusoPortal_Gene_44 254 --PFMQKWKKIQSKYIKELEEVFFNIPVVKVPWYPKEIVGKSGLKLLCNTI 302 ..9***************************************999887765 PP >> AAA_31 AAA domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 41.4 0.1 9.2e-14 1.3e-10 4 132 .. 4 140 .. 1 147 [. 0.73 Alignments for each domain: == domain 1 score: 41.4 bits; conditional E-value: 9.2e-14 AAA_31 4 IaianqKGGvGKTTtsvnlaaalaklgkkvLlvDlDpQanattglgiekne....iektlyevlieekeikeaii.ktkvenldl 83 I i KGGvGK+ + + a + ak+gkk+Llv +D+ n+ ++i+ + i+++l + +++ +k i + k+++ldl 23726_FusoPortal_Gene_44 4 IIIFTGKGGVGKSSVAAAHALSSAKSGKKTLLVSADTAHNLGDIFKIQIGSkitkISENLDALELDSDVVKREIFpEVKNTMLDL 88 677889************************************9888865552222555555555655555555551444666688 PP AAA_31 84 i.pssidLaeaeielvelekkeeilkellekv..kdeYDyiiiDcpPsLgll 132 + s i + +++ ++ ++ +++++ +++Y i++Dc P+ ++l 23726_FusoPortal_Gene_44 89 MgKSGIGITNLNENFSLPGFENLFSLLKIKEIyeSNQYEHILVDCAPTGETL 140 8469999**9999997766665554555666622467**********86655 PP >> CbiA CobQ/CobB/MinD/ParA nucleotide binding domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 30.6 0.0 2e-10 2.8e-07 1 55 [. 4 144 .. 4 311 .. 0.71 Alignments for each domain: == domain 1 score: 30.6 bits; conditional E-value: 2e-10 EEEEESSTTSSHHHHHHHHHHHHHHTT--EEEEEEEESSCCCCHHTTEB-HHHH............................... CS xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx............................... RF CbiA 1 iaiastkGGvGKTtlaanLaralarrglrVllvDaDpqannlaileglendiep............................... 54 i+i +kGGvGK+++aa+ a + a+ g+++llv aD+ n+ i ++ ++ + 23726_FusoPortal_Gene_44 4 IIIFTGKGGVGKSSVAAAHALSSAKSGKKTLLVSADTAHNLGDI-FKIQIGSKItkisenldaleldsdvvkreifpevkntmld 87 7899**********************************999884.3333333334566667777777777777777777777777 PP ........................................................C CS ........................................................x RF CbiA 55 ........................................................d 55 23726_FusoPortal_Gene_44 88 lmgksgigitnlnenfslpgfenlfsllkikeiyesnqyehilvdcaptgetlallK 144 777777766666666666666666666666666666666666665555555555550 PP >> ParA NUBPL iron-transfer P-loop NTPase # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 24.9 0.3 7.8e-09 1.1e-05 5 42 .. 3 40 .. 1 78 [. 0.86 Alignments for each domain: == domain 1 score: 24.9 bits; conditional E-value: 7.8e-09 ParA 5 viavlSgKGGVGKStvavnlAlaLakkglkvgllDaDi 42 i++ gKGGVGKS+va+ Al+ ak+g+k+ l+ aD 23726_FusoPortal_Gene_44 3 RIIIFTGKGGVGKSSVAAAHALSSAKSGKKTLLVSADT 40 5899******************************9995 PP >> Fer4_NifH 4Fe-4S iron sulfur cluster binding proteins, NifH/frxC family # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 15.8 0.1 4.8e-06 0.0067 2 41 .. 4 43 .. 3 83 .. 0.79 Alignments for each domain: == domain 1 score: 15.8 bits; conditional E-value: 4.8e-06 Fer4_NifH 2 kiaiyGkGGiGksttsqnlsaalaemgkkvlivGCDPkaD 41 i + GkGG+Gks ++ + + a+ gkk l+v D ++ 23726_FusoPortal_Gene_44 4 IIIFTGKGGVGKSSVAAAHALSSAKSGKKTLLVSADTAHN 43 67889*****************************998775 PP >> SRP54 SRP54-type protein, GTPase domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 15.2 0.1 8.4e-06 0.012 2 39 .. 3 40 .. 2 78 .. 0.94 2 ? -2.9 0.0 3 4.2e+03 79 92 .. 121 134 .. 116 137 .. 0.80 Alignments for each domain: == domain 1 score: 15.2 bits; conditional E-value: 8.4e-06 EEEEEEESTTSSHHHHHHHHHHHHHHTTS-EEEEEEST CS SRP54 2 nvillvGlqGaGKTttlaKLaallkkegkkvllvaaDt 39 ++i++ G G+GK + +a a k+gkk+llv+aDt 23726_FusoPortal_Gene_44 3 RIIIFTGKGGVGKSSVAAAHALSSAKSGKKTLLVSADT 40 5899*********************************9 PP == domain 2 score: -2.9 bits; conditional E-value: 3 HHHTTSSEEEEEE- CS SRP54 79 akeekidvvlvDTa 92 ++++++++lvD a 23726_FusoPortal_Gene_44 121 YESNQYEHILVDCA 134 56788999***987 PP >> ATPase KaiC # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 14.8 0.1 8.9e-06 0.012 20 83 .. 3 63 .. 1 109 [. 0.76 2 ? -1.1 0.1 0.67 9.4e+02 128 178 .. 182 235 .. 165 271 .. 0.60 Alignments for each domain: == domain 1 score: 14.8 bits; conditional E-value: 8.9e-06 ATPase 20 rvvlitGepGtGKtifalqFlikgaekygepgvfvtveepaedlrenak.slGwdlekleeegkl 83 r++ tG+ G GK+ +a+ ++++a++ g+++++v+ + +l +k ++G ++k+ e+ l 23726_FusoPortal_Gene_44 3 RIIIFTGKGGVGKSSVAAAHALSSAKS-GKKTLLVSADTAH-NLGDIFKiQIGSKITKISEN--L 63 78999********************99.********99755.45555554666666666665..3 PP == domain 2 score: -1.1 bits; conditional E-value: 0.67 ATPase 128 itglayeekeavaReilrqlvrvlkklgvTailvsekss......seeaaggygvee 178 ++++ ++ +++ + l +l + lk++++ +i +++ +++++ ++ + 23726_FusoPortal_Gene_44 182 VKTM---DTIELIHQKLLELQELLKNNEICSIRLICIPEkmiveeTKRNFMYLNLYK 235 4444...55566677777777777777777763333333233422333333333333 PP >> IstB_IS21 IstB-like ATP binding protein # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 12.2 0.1 7.4e-05 0.1 50 84 .. 5 39 .. 2 69 .. 0.86 2 ? -1.0 0.0 0.83 1.2e+03 50 68 .. 86 104 .. 78 115 .. 0.78 Alignments for each domain: == domain 1 score: 12.2 bits; conditional E-value: 7.4e-05 IstB_IS21 50 ivllGpsGvGKshlaialgveavraglsvlfvrve 84 i+++G GvGKs +a+a + + +++g+++l v+++ 23726_FusoPortal_Gene_44 5 IIFTGKGGVGKSSVAAAHALSSAKSGKKTLLVSAD 39 899*************************9998765 PP == domain 2 score: -1.0 bits; conditional E-value: 0.83 IstB_IS21 50 ivllGpsGvGKshlaialg 68 + l+G sG+G + l ++ 23726_FusoPortal_Gene_44 86 LDLMGKSGIGITNLNENFS 104 5689******999987776 PP >> RsgA_GTPase RsgA GTPase # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 8.0 0.7 0.0016 2.3 100 117 .. 3 20 .. 1 42 [. 0.81 2 ? 4.3 0.0 0.022 31 88 115 .. 72 99 .. 49 125 .. 0.80 3 ? -1.3 0.0 1.2 1.7e+03 68 97 .. 166 195 .. 158 202 .. 0.81 Alignments for each domain: == domain 1 score: 8.0 bits; conditional E-value: 0.0016 SEEEEECSTTSSHHHHHH CS RsgA_GTPase 100 ktsvlvGqSGvGKStLin 117 +++++ G+ GvGKS++ 23726_FusoPortal_Gene_44 3 RIIIFTGKGGVGKSSVAA 20 689************864 PP == domain 2 score: 4.3 bits; conditional E-value: 0.022 TTHHHHHHHCTTSEEEEECSTTSSHHHH CS RsgA_GTPase 88 egleelkellkdktsvlvGqSGvGKStL 115 +e+ +++k+ + l+G+SG+G + L 23726_FusoPortal_Gene_44 72 VVKREIFPEVKNTMLDLMGKSGIGITNL 99 45578999999*************8776 PP == domain 3 score: -1.3 bits; conditional E-value: 1.2 HHHHHHHTTSEEEE--TTTHTTHHHHHHHC CS RsgA_GTPase 68 lkeelealgyevllvsaktkegleelkell 97 + + +++l y+v+l s+kt +++e ++++l 23726_FusoPortal_Gene_44 166 ILSPISKLAYKVILPSVKTMDTIELIHQKL 195 5667789999********999999998877 PP >> CBP_BcsQ Cellulose biosynthesis protein BcsQ # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 10.4 0.1 0.00022 0.3 4 65 .. 5 65 .. 1 142 [. 0.84 Alignments for each domain: == domain 1 score: 10.4 bits; conditional E-value: 0.00022 CBP_BcsQ 4 lalqGvRGGvGttsltaaLawalqelgesvlviDlspdnlLrlhFnvdleqaegwaraeldg 65 + ++G +GGvG++s++aa a + + g++ l++ + ++ L F++++ ++ + + +ld+ 23726_FusoPortal_Gene_44 5 IIFTG-KGGVGKSSVAAAHALSSAKSGKKTLLVSADTAHNLGDIFKIQIGSKITKISENLDA 65 44444.8***************************9999999999999887776666665555 PP >> Helicase_RecD Helicase # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 10.7 0.1 0.00024 0.33 3 46 .. 8 51 .. 6 85 .. 0.85 Alignments for each domain: == domain 1 score: 10.7 bits; conditional E-value: 0.00024 Helicase_RecD 3 tAdRGRGKSaalGlalaaliaegksnilvtapskenvktlfefl 46 t++ G GKS++++ + + +++gk+++lv+a + +n+ +f+ 23726_FusoPortal_Gene_44 8 TGKGGVGKSSVAAAHALSSAKSGKKTLLVSADTAHNLGDIFKIQ 51 78889*********************************999865 PP >> AAA_25 AAA domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 9.9 0.5 0.00034 0.48 35 63 .. 4 33 .. 1 44 [. 0.86 Alignments for each domain: == domain 1 score: 9.9 bits; conditional E-value: 0.00034 AAA_25 35 lallaGapgtGKttlaldlalava.tGkpw 63 +++++G +g+GK+ +a al+ a +Gk+ 23726_FusoPortal_Gene_44 4 IIIFTGKGGVGKSSVAAAHALSSAkSGKKT 33 6899*******************9888865 PP Internal pipeline statistics summary: ------------------------------------- Query sequence(s): 1 (397 residues searched) Target model(s): 16712 (2907032 nodes) Passed MSV filter: 748 (0.0447583); expected 334.2 (0.02) Passed bias filter: 446 (0.0266874); expected 334.2 (0.02) Passed Vit filter: 62 (0.00370991); expected 16.7 (0.001) Passed Fwd filter: 12 (0.000718047); expected 0.2 (1e-05) Initial search space (Z): 16712 [actual number of targets] Domain search space (domZ): 12 [number of targets reported over threshold] # CPU time: 0.30u 0.24s 00:00:00.54 Elapsed: 00:00:00.33 # Mc/sec: 3497.25 // [ok]