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:            hmm3/seq/F54C9.9
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Query:  F54C9.9  CE20865    status:Partially_confirmed TR:Q20760 protein_id:CAA90257.1

Scores for sequence family classification (score includes all domains):
Model         Description                               Score    E-value  N
--------      -----------                               -----    ------- ---
Krr1          Krr1 family                               422.5   3.8e-123   2
L51_S25_CI-B8 Mitochondrial ribosomal protein L51 / S     4.7        6.5   1
Orbi_VP6      Orbivirus helicase VP6                      3.7        4.4   1
DUF354        Protein of unknown function (DUF354)        3.6        4.8   1
NAD_kinase    ATP-NAD kinase                              1.8        9.2   1
DNA_topoisoIV DNA gyrase/topoisomerase IV, subunit A      1.5        6.5   1

Parsed for domains:
Model         Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------      ------- ----- -----    ----- -----      -----  -------
DNA_topoisoIV   1/1      41    51 ..   482   492 .]     1.5      6.5
Orbi_VP6        1/1     202   220 ..     1    19 [.     3.7      4.4
Krr1            1/2     318   346 ..   228   256 .]   -10.9  4.1e+04
L51_S25_CI-B8   1/1     339   359 ..    72    92 .]     4.7      6.5
NAD_kinase      1/1     371   391 ..    93   113 ..     1.8      9.2
Krr1            2/2     364   598 ..     1   256 []   432.7 3.3e-126
DUF354          1/1     640   668 ..   332   363 .]     3.6      4.8

Alignments of top-scoring domains:
DNA_topoisoIV: domain 1 of 1, from 41 to 51: score 1.5, E = 6.5
                   *->eELeeikkkfg<-*
                      eE+++ik+k+g
     F54C9.9    41    EEMQKIKDKYG    51

Orbi_VP6: domain 1 of 1, from 202 to 220: score 3.7, E = 4.4
                   *->lvDWaEsEsgKedKaEpKE<-*
                      +  W+ sE gK dK   KE
     F54C9.9   202    FYQWMKSEDGKADKKKAKE    220

Krr1: domain 1 of 2, from 318 to 346: score -10.9, E = 4.1e+04
                   *->RskdeearDkrkyekKrrlrelkkqvfks<-*
                      R + ee + + k ekK++l elkk + ++
     F54C9.9   318    RHEREERKKREKAEKKKELAELKKMKRSE    346

L51_S25_CI-B8: domain 1 of 1, from 339 to 359: score 4.7, E = 6.5
                   *->lenmsaeeIekklekLldskG<-*
                      l++m+++eIe+kl kL +  G
     F54C9.9   339    LKKMKRSEIEQKLGKLQKAAG    359

NAD_kinase: domain 1 of 1, from 371 to 391: score 1.8, E = 9.2
                   *->Tefdpeelkkvleavlegeyk<-*
                      ++fdp+e++k+ + ++++ey+
     F54C9.9   371    ADFDPKEFDKKMQSIFNDEYY    391

Krr1: domain 2 of 2, from 364 to 598: score 432.7, E = 3.3e-126
                   *->lsdkdLddDFDPeefDkkMqelFddeYYgeeesd...Edekpefddd
                      l+ ++L++DFDP+efDkkMq++F+deYYg+ee+++++Edekp+f+ d
     F54C9.9   364    LTLDELNADFDPKEFDKKMQSIFNDEYYGVEENIqenEDEKPIFS-D 409

                   idkedyedwDnldgvirSGeaPeqfAatdgeevekhcededlnedenkkk
                   ++++dyed+Dnld++++  +++eq+A++d+ee+e++++ded++e++++kk
     F54C9.9   410 MEDSDYEDYDNLDVDEL--KREEQEADDDDEEDEESVDDEDEQEVPKSKK 457

                   SdeeefkdnfgeksekeaedakydegkkekreeleaalqreKplfnpede
                   S+++++k++++++++k+++++k+d+++k+kr++l++al+r+Kplfnp++
     F54C9.9   458 SAMKNGKFDMVAAAQKAMSKDKNDSRRKSKRNALKDALARKKPLFNPKE- 506

                   KTETDAELmERLQASfeeyvEEYYrldyediigdlpGAGAGVStrFkYre
                   KT             feey++EYY+ldyediigd+p       trFkYr+
     F54C9.9   507 KT-------------FEEYFNEYYALDYEDIIGDTP-------TRFKYRD 536

                   VePedFGLsteEILaADDreLNqwasLKKmapYRskdeearDkrkyekKr
                   Ve++dFGLst+EIL+AD+r+LN+wasLKK+++YR+++ee++D+++y++K+
     F54C9.9   537 VESNDFGLSTDEILEADERQLNAWASLKKVTAYRTSQEEFFDRKAYQRKA 586

                   rlrelkkqvfks<-*
                   +++++kk+++++
     F54C9.9   587 EDVNKKKRILSI    598

DUF354: domain 1 of 1, from 640 to 668: score 3.6, E = 4.8
                   *->sNlkkRkkvrtlegsmedpvelIielVenlie<-*
                      ++++k+k v+  e   e+p e + e +en +e
     F54C9.9   640    KKRGKKK-VKLTET--ENPEENMTEAIENEVE    668



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