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:            hmm2/seq/F01F1.9
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Query:  F01F1.9  CE01235    status:Partially_confirmed SW:Q19087 protein_id:AAC46643.1

Scores for sequence family classification (score includes all domains):
Model         Description                               Score    E-value  N
--------      -----------                               -----    ------- ---
Peptidase_M18 Aminopeptidase I zinc metalloprotease (   955.8   1.1e-283   1
sigma54_CBD   Sigma-54 factor, core binding domain        4.0        6.6   1
Ribosomal_S6e Ribosomal protein S6e                       3.3        8.3   1

Parsed for domains:
Model         Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------      ------- ----- -----    ----- -----      -----  -------
Ribosomal_S6e   1/1     129   153 ..   116   140 .]     3.3      8.3
sigma54_CBD     1/1     371   379 ..   196   204 .]     4.0      6.6
Peptidase_M18   1/1      22   459 ..     1   469 []   955.8 1.1e-283

Alignments of top-scoring domains:
Ribosomal_S6e: domain 1 of 1, from 129 to 153: score 3.3, E = 8.3
                   *->daDlsvlnlkivkkGekdIpgLtdd<-*
                      d Dlsv  l+ivk Gek    L d+
     F01F1.9   129    DRDLSVAGLVIVKNGEKLQHKLIDV    153

sigma54_CBD: domain 1 of 1, from 371 to 379: score 4.0, E = 6.6
                   *->RvlVNqrYf<-*
                      +v+VNqrY+
     F01F1.9   371    KVNVNQRYA    379

Peptidase_M18: domain 1 of 1, from 22 to 459: score 955.8, E = 1.1e-283
                   *->FinkspTPyHvVaeiaerLlNkaGFkeLsEkenWqdkIGePggkYFv
                      ++nk++TP+H+++e+++rLl +aGF+eL+E+++W+  I +P++kYFv
     F01F1.9    22    YLNKAVTPFHATQEVKDRLL-QAGFTELPESGHWD--I-QPTSKYFV 64

                   trngsSiiAFaiggkwkpgnGfsiigAHTDSPrLrlKPkskkeTaegylq
                   t+n+s+i+AFa+gg++kpg+Gfsi+++HTDSP+Lr+KP+s+++ ++++lq
     F01F1.9    65 TKNRSAILAFAVGGSYKPGSGFSIVVGHTDSPCLRVKPISHQK-SDKFLQ 113

                   vgvetYGGgIwkstWfDRDLsiaGrVfvKkaGkeekiiarlvniedPvlr
                   vgv+tYGGgIw +tWfDRDLs+aG+V+vK++   ek++++l+++++Pvl+
     F01F1.9   114 VGVSTYGGGIW-RTWFDRDLSVAGLVIVKNG---EKLQHKLIDVKKPVLF 159

                   IPdLAIHLdrdiNesfkfneetelepiiglagddeeektpptsgeekftd
                   IP+LAIHL++d+ ++fk+n+etel+pi++++++++++ +p+++++++f+d
     F01F1.9   160 IPNLAIHLETDR-TTFKPNTETELRPILETFAAAGIN-APQKPESTGFAD 207

                   fktIvnkHhpalLsliaeelGalieveDPkivsmeLilvDaqpakivGid
                   +++I+n+Hhp++L+lia+e+G  +++eD  iv+++L+l+D+++a+ivG++
     F01F1.9   208 PRNITNNHHPQFLGLIAKEAG--CQPED--IVDLDLYLYDTNKAAIVGME 253

                   keFifApRLDNliccFtameaLldseedvnSldpedkvrivalfDnEEIG
                   +eFi+++RLDN+++++ta+++Ll+s+++ +S+++++++ri+a+fDnEE+G
     F01F1.9   254 DEFISGARLDNQVGTYTAISGLLESLTG-ESFKNDPQIRIAACFDNEEVG 302

                   SlsaqGAdSnfLeeVLeRislaikkgrDqtkedfhlailkalaKSfliSA
                   S+sa+GA+S+f+e+VL+R+s+++ +++     +f++ai    +KS+liSA
     F01F1.9   303 SDSAMGASSSFTEFVLRRLSAGG-STT-----AFEEAI----GKSMLISA 342

                   DvaHAvHPNYsskHeenhaPelgkGvVikvnaNqRGKYATnsagaalvke
                   D+aHA+HPNYs+kHeenh+P++++GvV+kvn+NqR  YAT+s+++a++k+
     F01F1.9   343 DQAHATHPNYSAKHEENHRPAFHGGVVVKVNVNQR--YATTSTTHAALKQ 390

                   vAqqankrNVplQvfvvrndspcGsTIGPilaArtGirTiDlGppqLaMH
                   vA++a+   VplQv+vvrndspcGsT+GPila+++G++T+D+G+pqLaMH
     F01F1.9   391 VAFEAQ---VPLQVVVVRNDSPCGSTVGPILATKLGLQTVDVGCPQLAMH 437

                   SiREttgsaDlyeavklfkaFF<-*
                   SiRE+++++++y+a++l+++F+
     F01F1.9   438 SIREFADTSSIYQATTLYSTFY    459



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