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/B0272.1
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Query:  B0272.1  CE00850  locus:tbb-4 tubulin beta chain status:Partially_confirmed SW:P41937 protein_id:CAA86310.1

Scores for sequence family classification (score includes all domains):
Model     Description                                   Score    E-value  N
--------  -----------                                   -----    ------- ---
tubulin   Tubulin/FtsZ family, GTPase domain            376.5   4.3e-110   1
tubulin_C Tubulin/FtsZ family, C-terminal domain        271.4    1.2e-77   1
Cucumo_2B Cucumovirus protein 2B                          3.4        9.1   1

Parsed for domains:
Model     Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------  ------- ----- -----    ----- -----      -----  -------
Cucumo_2B   1/1      97   106 ..    98   107 .]     3.4      9.1
tubulin     1/1      45   244 ..     1   224 []   376.5 4.3e-110
tubulin_C   1/1     246   383 ..     1   151 []   271.4  1.2e-77

Alignments of top-scoring domains:
Cucumo_2B: domain 1 of 1, from 97 to 106: score 3.4, E = 9.1
                   *->AGNEWaEGSF<-*
                      AGN Wa G +
     B0272.1    97    AGNNWAKGHY    106

tubulin: domain 1 of 1, from 45 to 244: score 376.5, E = 4.3e-110
                   *->arIkVfgvgggggkhYvpRAVnrdlEpgveQegleGVefiainTdaq
                      +rI+V++++++g ++YvpRA ++dlEpg        +++ +++ +++
     B0272.1    45    ERINVYYNEASG-GKYVPRACLVDLEPG--------TMD-SVRAGPF 81

                   alksksLfapeniqiGkelgGtgnngAgGhpeiGeeaaeesldeIrkele
                   ++    Lf+p+n+++G++  G+gnn+A+Gh+++G+e+++ +ld++rke+e
     B0272.1    82 GQ----LFRPDNFVFGQS--GAGNNWAKGHYTEGAELVDNVLDVVRKEAE 125

                   gcdsLdgffithsmGGGTGsGagpvlaeiakeegpptKkilaltvgVvps
                    cd+L+gf++ths+GGGTGsG+g++l+++++ee+p  ++i+ +++ Vvps
     B0272.1   126 SCDCLQGFQMTHSLGGGTGSGMGTLLISKIREEYP--DRIMMTFS-VVPS 172

                   PfvessEgvvrpyNAelglheLlehsDtlividNeaLldicdknlkikda
                   P+v  s++vv+pyNA+l++h+L+e+ D++++idNeaL+dic ++lk++ +
     B0272.1   173 PKV--SDTVVEPYNATLSVHQLVENTDETFCIDNEALYDICFRTLKLTTP 220

                   frvasdlmNdllaqvvsgITdslrfPG<-*
                   +  ++dl N+l+++++sg+T++lrfPG
     B0272.1   221 T--YGDL-NHLVSMTMSGVTTCLRFPG    244

tubulin_C: domain 1 of 1, from 246 to 383: score 271.4, E = 1.2e-77
                   *->lNvDladvrtnLvPfPRlHFammGyaPlsg.....hralsVleltrq
                      lN+Dl+++++n+vPfPRlHF+m G+aPl++++++++r+l+V+elt+q
     B0272.1   246    LNADLRKLAVNMVPFPRLHFFMPGFAPLTSrgsqqYRSLTVPELTQQ 292

                   afdspnlmvavdprhkkGaygalanitgrgdvtlkEvneaierireknsd
                   +fd +n+m+a+dprh  G+y+++a+ ++rg++++kEv+e++ ++++kns
     B0272.1   293 MFDAKNMMAACDPRH--GRYLTVAA-MFRGRMSMKEVDEQMLNVQNKNS- 338

                   aqFVeWapiifktaiddeppygvrvsvdLAkvvsgvmtGNtTaksasgeI
                   ++FVeW+p+++kta++d+pp+gv++         ++++GN+Ta      I
     B0272.1   339 SYFVEWIPNNVKTAVCDIPPRGVKMA--------ATFVGNSTA------I 374

                   qelfkrile<-*
                   qelfkri+e
     B0272.1   375 QELFKRISE    383



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