Motif confirmation by HMMer


hmmpfam - search a single seq against HMM database
HMMER 2.1.1 (Dec 1998)
Copyright (C) 1992-1998 Washington University School of Medicine
HMMER is freely distributed under the GNU General Public License (GPL).
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HMM file:                 /home/niguts/usr02/tshini/ykclst/db/Pfam_fs
Sequence file:            hmm1/seq/C26H9A.1
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Query:  C26H9A.1  CE30882  locus:vha-7  status:Confirmed TN:CAB16306 protein_id:CAB16306.2

Scores for sequence family classification (score includes all domains):
Model          Description                              Score    E-value  N
--------       -----------                              -----    ------- ---
V_ATPase_sub_a V-type ATPase 116kDa subunit family      990.3   4.6e-294   1
Flagellar_rod  Paraflagellar rod protein                 10.1      0.077   1
Viral_Beta_CD  Viral Beta C/D like family                 3.4        5.9   1

Parsed for domains:
Model          Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------       ------- ----- -----    ----- -----      -----  -------
Flagellar_rod    1/1      96   152 ..   191   247 ..    10.1    0.077
Viral_Beta_CD    1/1     586   594 ..   125   133 .]     3.4      5.9
V_ATPase_sub_a   1/1      70   939 ..     1   876 []   990.3 4.6e-294

Alignments of top-scoring domains:
Flagellar_rod: domain 1 of 1, from 96 to 152: score 10.1, E = 0.077
                   *->yKKekrlEeieRnirtthiqlEfAmEtlDPnakkhsdekkdlyelra
                      +K ++r Ee+eR+ r ++ q   +   lDP+   + d      + +
    C26H9A.1    96    VKQMRRCEEMERKLRFLEKQVITCKPGLDPKSIDYTDLSAPTQAEMI 142

                   gVeeeidmLk<-*
                   + e ++d+L+
    C26H9A.1   143 QLEHKLDQLE    152

Viral_Beta_CD: domain 1 of 1, from 586 to 594: score 3.4, E = 5.9
                   *->yPFGrspse<-*
                      yPFG++p +
    C26H9A.1   586    YPFGVDPIW    594

V_ATPase_sub_a: domain 1 of 1, from 70 to 939: score 990.3, E = 4.6e-294
                   *->vsaLgelGlVqfrDlnedvsnaFqRkfvnevrRcdeverkLrylese
                      v+++g+ G Vqf Dln + s   +R+fv++ rRc+e+erkLr+le++
    C26H9A.1    70    VAEIGKHGNVQFVDLNAKMS-LYSRTFVKQMRRCEEMERKLRFLEKQ 115

                   ikklgiplksveldtgaqpdvpppkinyPpssselldleekleelEeeik
                   +  +  +++   ld+++   ++ +     p+ +e+++le kl+ lE+e
    C26H9A.1   116 V--ITCKPG---LDPKSIDYTDLSA----PTQAEMIQLEHKLDQLEREFL 156

                   eveenlesLekelneLeewrnvLdetksffeenaddsGveeleasgdn..
                   +++ n  +L+k+ln+ +e+++v +  ++ff+            ++ +  +
    C26H9A.1   157 DLNNNDYALRKNLNSSKEFLQVMRLVDEFFQV-----------HKEEEak 195

                   ..selsnlddefkalr....................ageylrlgsgasve
                    + e+s   d+ +++ ++ + ++ +++++ + ++  +++++
    C26H9A.1   196 arFERSATTDDIEMFSksfgfgglpssnempltpllGSDDNAW------- 238

                   slstmeqlkakLdfvaGvinreklealeriLwralrgNlyirqaeieepl
                                fvaGv + +k e++er+Lwra+r ++++r+++ +  +
    C26H9A.1   239 -------------FVAGVLPLDKKESFERVLWRACRRTAFVRTSDASFTV 275

                   eDpkTGEpvhktvfiiffvgkeildkvkkIlesfgfelydvpetegerse
                   +Dp+T Ep  k+vfi+ff+g+ ++  v+k++++f+++ y++p+ ++ r+
    C26H9A.1   276 NDPVTLEPLQKCVFIVFFKGESLRLIVEKVCDGFNATQYPCPKSSKDRKM 325

                   llskvnkriedlqtvLeqteshlekvlakiadellawdeqvskeKavyet
                   + s+ + r  dl+ v+++t+ h++++l   + e++ w + + ++K+v+ +
    C26H9A.1   326 KMSETEGRMNDLTVVIDTTQTHRYTILKDMSFEIPIWLKNIQIQKSVFAV 375

                   lnlfnydvtrkcliaeGWvPakdleklqsaLenategsgslvpsilndie
                   +n+f +d++  +l  e+W+Pa++ ++++ aL ++  +sg +v  iln++
    C26H9A.1   376 MNMFTVDTN-GFLAGECWIPAAEEDDVRQALHDGFKASGTEVEPILNELW 424

                   tnetPPTylktnkFtapFQmIvdaYGipkYrEvnPapftiiTFPFlFGvM
                   tn  PPT+++tnkFt+ FQ+Ivd+YG+ +Y EvnPap+tiiTFPFlF+vM
    C26H9A.1   425 TNAPPPTFHRTNKFTNVFQSIVDSYGVSQYCEVNPAPYTIITFPFLFAVM 474

                   fGDiGyGllmfliALlLvllekklgakkikdEIfqMfFkgryIlllmGvF
                   fGD+++G++++l+AL+++++e+k++ kki+dEIf++f +gryI++lmG+F
    C26H9A.1   475 FGDAAHGAILLLAALFFIRNERKIESKKIRDEIFNTFYGGRYIMMLMGIF 524

                   SIytGfiYNdcFgkslniFgsgwkwpamasvie.Wsd.tiksge..tltl
                   SIytGf+YNd F ks+n Fgsgw++++++ + + W+ +  +++++ +l+l
    C26H9A.1   525 SIYTGFLYNDAFAKSFNVFGSGWSNSYNETQLDwWIArSYRKHReySLEL 574

                   apsvggvf.gGpYPfgidpiwngaeNkLlFlNSykmklSiilGviHmtfG
                   +p  + ++   +YPfg+dpiwn+a+N+L+FlNS+kmk S+i+G+ +mtfG
    C26H9A.1   575 VPEKS-FDiEKTYPFGVDPIWNIADNRLSFLNSMKMKASVIIGITQMTFG 623

                   lflgffNhvkfkskidikgafipqlifllsIfGYLvilIiYKWlvdwakt
                   +fl++ Nh++fks idi+ +fipq ifl +If YL+i+Ii KW ++++
    C26H9A.1   624 VFLSVLNHIHFKSYIDIISNFIPQVIFLSCIFIYLCIQIIVKWIFFSVNA 673

                   gtvlGy.YPGskpaPslLigLInMFLfpgRNAGFTlDdGk....CYLsqL
                   + v+G++YPGs++aPslLigLInMF+f+ RN G+  + G+  ++C L  +
    C26H9A.1   674 ENVFGFeYPGSHCAPSLLIGLINMFMFKKRNEGYLNENGEvysnCHLGYW 723

                   YPGQavvQviLvvlalacvPvlLlgkplflmregkkrkkgGhrhGyirvg
                   YP Q  v++iL+ + lac+P++L+gkpl +++  +kr
    C26H9A.1   724 YPNQRLVETILISISLACIPIMLFGKPLWVRFVTSKR------------H 761

                   .v..................................ereresaqqeeese
                   + +++++ ++ ++++++ + ++++  + ++++ ++ e +   +++
    C26H9A.1   762 kLqenkslkslrrngttvsaptspvvdagpprfedaELLLADELD----- 806

                   dlgnqdeesvasaldaeeeevGggehEefefGevmihQvIhtIefcLGcv
                     ++ d+ +  s                    ++++hQ+IhtIef+LGcv
    C26H9A.1   807 --IGEDIHHSLS--------------------DIFVHQAIHTIEFVLGCV 834

                   ShTaSYlRLwALsLAhaqLSsVlwtMvirigf........esigsagvgv
                   ShTaSYlRLwALsLAhaqLS+V w+Mv+  g ++ ++ ++e i+   + +
    C26H9A.1   835 SHTASYLRLWALSLAHAQLSEVMWHMVLIQGIhtvdhienETIA-MCLKP 883

                   ialvvvfaivfvlghailliMegLSAfLHaLRLHwVEFfsKFYeGgGrkF
                   +++ v+f+i++ l+  il++MegLSAfLHaLRLHwVEF+sKFY G+G +F
    C26H9A.1   884 VVACVAFFIFASLSLSILIMMEGLSAFLHALRLHWVEFQSKFYLGTGHPF 933

                   ePFsfk<-*
                     F  k
    C26H9A.1   934 HAFYLK    939



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