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/C28H8.3
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Query:  C28H8.3  CE29195    status:Partially_confirmed SW:Q09475 protein_id:AAA62291.2

Scores for sequence family classification (score includes all domains):
Model          Description                              Score    E-value  N
--------       -----------                              -----    ------- ---
DEAD           DEAD/DEAH box helicase                    47.4    1.3e-13   1
helicase_C     Helicase conserved C-terminal domain      47.3      6e-12   1
invertase_neut Plant neutral invertase                    7.4       0.15   1
Phenol_Hydrox  Methane/Phenol/Toluene Hydroxylase         4.4        2.8   1
Arv1           Arv1-like family                           3.6        5.1   1

Parsed for domains:
Model          Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------       ------- ----- -----    ----- -----      -----  -------
Arv1             1/1     644   662 ..   295   313 .]     3.6      5.1
DEAD             1/1     775   948 ..     1   178 [.    47.4  1.3e-13
invertase_neut   1/1    1019  1040 ..   486   505 .]     7.4     0.15
Phenol_Hydrox    1/1    1025  1051 ..   217   243 .]     4.4      2.8
helicase_C       1/1    1279  1351 ..     1    72 []    47.3    6e-12

Alignments of top-scoring domains:
Arv1: domain 1 of 1, from 644 to 662: score 3.6, E = 5.1
                   *->gqistsvifdlaigslldf<-*
                      +q+ +svif+  ++s+ld+
     C28H8.3   644    QQGKESVIFLNNLYSSLDL    662

DEAD: domain 1 of 1, from 775 to 948: score 47.4, E = 1.3e-13
                   *->kalkklgfekptpiQaeaipailegrDvlvqApTGSGKTlAfllPil
                      k+  +   + p   Q++ ++ + +g   l++ApT +GKT +     +
     C28H8.3   775    KKDDRVSGFAPDGWQRKMLDSVDRGNSALIIAPTSAGKTFV-SYYCI 820

                   eallkg...pqalvlaPTRELAnQiyeelkklgkgl.lrvalltggskke
                   e++l+++++  ++++aP ++L+nQ+   + +++ +++++ +    g+  +
     C28H8.3   821 EKVLRSsdnDVVVYVAPSKALINQVCGSVYARFRNKsMKRGISLFGTLTQ 870

                   qrrklrkgpdilvaTPgrlldhlengkllekrlslknlkllVlDEADrml
                   +  +   ++++l++ P+ l  ++++++ + + + ++++k++V+DE++ +
     C28H8.3   871 EYSQNAMQCQVLITVPECLQELMLSRTPAVQ-KFVSHIKYVVFDEVHSIG 919

                   dmgkahgFgpdleeilsrlpknrqtllfSATlpne<-*
                         +   ++e++l  l  ++++l++SAT+ n+
     C28H8.3   920 AS----EESHIWEQLL--LLIQCPFLALSATIGNA    948

invertase_neut: domain 1 of 1, from 1019 to 1040: score 7.4, E = 0.15
                   *->PedAslldlEedkqL..kqalk<-*
                      Pe++ +++ +ed+qL+ +q+l+
     C28H8.3  1019    PEKLRMFSIPEDQQLtaRQVLH    1040

Phenol_Hydrox: domain 1 of 1, from 1025 to 1051: score 4.4, E = 2.8
                   *->ssiqtDeaRHarwgdalvktalendea<-*
                      +si++D + +ar++  l+ +++e d+a
     C28H8.3  1025    FSIPEDQQLTARQVLHLYNMMAEVDDA    1051

helicase_C: domain 1 of 1, from 1279 to 1351: score 47.3, E = 6e-12
                   *->gikvarlhGglsqeeReeilekFrngkskvLvaTdvaarGiDipdvn
                      +  ++++h+gl++ eR +++  Fr+g+  vL++T+ +++G++ p+ +
     C28H8.3  1279    ERGIGYHHAGLNTVERGAVEVLFRSGNLAVLFSTSTLSLGVNMPCKT 1325

                   lVInydl.pwnpesyiQRiGRaGRaG<-*
                   +++  d    +p  y Q++GRaGR G
     C28H8.3  1326 VMFGVDTlQLTPLLYRQMSGRAGRRG    1351



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