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:                 /data11/genetics/InterProScan/iprscan/data/smart.HMMs
Sequence file:            /cdna4/rodent/full/goal/msh/msh04044/w3open/interpro/cnk_1/seq.in
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Query:  mFLJ00407  ( 1081 res)   msh04044

Scores for sequence family classification (score includes all domains):
Model    Description                                    Score    E-value  N 
-------- -----------                                    -----    ------- ---
CH       Calponin homology domain                        58.2      1e-12   1
LIM      Zinc-binding domain present in Lin-11, Isl-1    21.5     0.0035   1

Parsed for domains:
Model    Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
-------- ------- ----- -----    ----- -----      -----  -------
CH         1/1     542   639 ..     1   100 []    58.2    1e-12
LIM        1/1     715   769 ..     1    52 []    21.5   0.0035

Alignments of top-scoring domains:
CH: domain 1 of 1, from 542 to 639: score 58.2, E = 1e-12
                   *->eeeallrWinsll......kvtnfssdlkDGvvLckLlnslsPagsv
                        e+ll W+++++ + ++ +vt+fss++ DG++Lc+L+++l+P g+ 
   mFLJ00407   542    GTEELLHWCQEQTagfpgvHVTDFSSSWADGLALCALVHHLQP-GLL 587  

                   dkkk..rfkkleNinlalsfaeklgafLGvgkvvlfdpeDlvegnenkkl
                   +    + + +le    al +ae +     +g+++ + ++ ++ g     +
   mFLJ00407   588 EPSElqGMGALEATTWALRVAEHE-----LGITPVLSAQAVMAG----SD 628  

                   ilgviwtLirl<-*
                   +lg+i++L+ +   
   mFLJ00407   629 PLGLIAYLSHF    639  

LIM: domain 1 of 1, from 715 to 769: score 21.5, E = 0.0035
                   *->kCagCgkpItgdevlralgkvwHpeCFkCskCkkpLgg...tffekd
                       C  Cgk+++  e+  ++g+ +H +CF+C +C+ +L +++ + ++ d
   mFLJ00407   715    LCELCGKHLYILERFCVDGHFFHRSCFCCHTCEATLWPggyGQHPGD 761  

                   gklyCkdc<-*
                   g++yC  +   
   mFLJ00407   762 GHFYCLQH    769  

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