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/E04A4.4
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Query:  E04A4.4  CE29748    status:Partially_confirmed TR:O44476 protein_id:AAB92042.3

Scores for sequence family classification (score includes all domains):
Model       Description                                 Score    E-value  N
--------    -----------                                 -----    ------- ---
lactamase_B Metallo-beta-lactamase superfamily           46.5    1.7e-12   1
B56         Protein phosphatase 2A regulatory B subun     3.5        2.9   1

Parsed for domains:
Model       Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------    ------- ----- -----    ----- -----      -----  -------
lactamase_B   1/1     509   724 ..     1   143 []    46.5  1.7e-12
B56           1/1     795   814 ..     1    20 [.     3.5      2.9

Alignments of top-scoring domains:
lactamase_B: domain 1 of 1, from 509 to 724: score 46.5, E = 1.7e-12
                   *->gvnsyLvedptgggavLiDtGlgg.a.llllallkllldpddiddnl
                      +v+ yLve  ++++a+LiD G +g+++++++   +++ +   +  n
     E04A4.4   509    NVTGYLVEA-SENSAILIDVG-EGtYgQMRAVFGEDGCKQLLVNLN- 552

                   pelealirldkddddkdeedIaillTHaHlDHiGG...............
                                         +l+THaH DH+ G ++      +  +
     E04A4.4   553 ---------------------CVLITHAHQDHMNGlytiiarrkeafesl 581

                   ..................................................
                   + ++ + + +    +  +  ++    +  ++  + ++   ++ ++++ ++
     E04A4.4   582 gapyrplvlvcnrnvlkpmktysicfeniehlleivdisrypltppgspg 631

                   ..................................................
                   ++++  +  + ++ ++  ++  +     +      ++   + ++++
     E04A4.4   632 gppgkrprlpsphlppsrdvlqdmsssfdkkawkldelkavqvhhtrman 681

                   ..........vlftGDllfs.gtgr.dl....liaestyslrklpggdae
                   + +  + +  ++f+GD+++ +    ++ + + l++est  +
     E04A4.4   682 gfvmrvagkrIVFSGDTKPCdLLVEeGKdadvLVHESTFED--------- 722

                   dlypslaelllesllklaalpdtvvpPgH<-*
                                              gH
     E04A4.4   723 ---------------------------GH    724

B56: domain 1 of 1, from 795 to 814: score 3.5, E = 2.9
                   *->pLPlfkDvpvsEreeLfiqK<-*
                       LP f++v v E  eL i+K
     E04A4.4   795    LLPIFREVFVAELFELTIKK    814



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