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/Pfam
Sequence file:            /cdna4/rodent/full/goal/msp/msp04321/w3open/interpro/cnk_1/seq.in
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Query:  mFLJ00359  ( 1108 res)   msp04321

Scores for sequence family classification (score includes all domains):
Model    Description                                    Score    E-value  N 
-------- -----------                                    -----    ------- ---
LRR_1    Leucine Rich Repeat                             30.5    3.9e-05   9
NACHT    NACHT domain                                   -20.4     0.0075   1

Parsed for domains:
Model    Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
-------- ------- ----- -----    ----- -----      -----  -------
NACHT      1/1       1   102 [.     1   210 []   -20.4   0.0075
LRR_1      1/9     434   458 ..     1    25 []     6.8  1.5e+02
LRR_1      2/9     462   485 ..     1    25 []     8.5       78
LRR_1      3/9     490   513 ..     1    25 []    11.6       19
LRR_1      4/9     589   616 ..     1    25 []     8.9       66
LRR_1      5/9     724   751 ..     1    25 []     9.4       55
LRR_1      6/9     752   776 ..     1    25 []     4.6  3.5e+02
LRR_1      7/9     879   906 ..     1    25 []     2.5  7.7e+02
LRR_1      8/9     958   982 ..     1    25 []     6.2  1.9e+02
LRR_1      9/9    1066  1089 ..     1    25 []     2.9  6.6e+02

Alignments of top-scoring domains:
NACHT: domain 1 of 1, from 1 to 102: score -20.4, E = 0.0075
                   *->rtvilqGeAGsGKTtLlqklallWaqgklpqgarfdfvFflscrels
                                                                     
   mFLJ00359     -    ----------------------------------------------- -    

                   rsgeaaalLrsLadlLfsqwpepaapvreKlfeskvwavllelperlLkS
                                         p++ ++       v+++l e+++ +L  
   mFLJ00359     1 ----------------------PESEPDA------VFQYLKENAQEVL-- 20   

                   aldppgqttvlilDGlDElvsdlgqpdgelctdwkepqpvrtLLssLlrk
                             li+DGlDE+  +++   g+     + +++++tL+s+L+ +
   mFLJ00359    21 ----------LIFDGLDEALHADSV--GT-----DNAGSALTLFSELCHG 53   

                   kLlpgaslLlTsRPdalrkwllrrgLespakRLLELqearylevrgFsee
                   +Llpg+ ++ TsRP+      l+ ++ ++         a+ +++ gF   
   mFLJ00359    54 NLLPGCWVMTTSRPGK-----LPSCVPTE---------AATVHMWGFDGL 89   

                   drkeyvrkyfsde<-*
                   ++  yv ++fsd    
   mFLJ00359    90 RVEKYVTCFFSDL    102  

LRR_1: domain 1 of 9, from 434 to 458: score 6.8, E = 1.5e+02
                   *->nLeeLdLsgCNpslsgs..lppsl.glp<-*
                      +L++L L g + +++   +++  ++ lp   
   mFLJ00359   434    SLKTLGLTG-S-RIT-AqgISHLIqTLP    458  

LRR_1: domain 2 of 9, from 462 to 485: score 8.5, E = 78
                   *->nLeeLdLsgCNpslsgslpps.l.glp<-*
                      +Lee++L++ N +l ++ +  +l  l    
   mFLJ00359   462    QLEEVSLHD-N-QL-KDPEVLsLvELL    485  

LRR_1: domain 3 of 9, from 490 to 513: score 11.6, E = 19
                   *->nLeeLdLsgCNpslsgslppsl.glp<-*
                      +L++LdLs+ N s+s+s+  sl +     
   mFLJ00359   490    KLQKLDLSR-N-SFSRSILLSLvKVA    513  

LRR_1: domain 4 of 9, from 589 to 616: score 8.9, E = 66
                   *->nLeeLdLsgCNpslsgs...lpps.l.glp<-*
                      +Lee++Lsg N +l++++  l +++ + l    
   mFLJ00359   589    QLEEVNLSG-N-HLEDDgcrLVAEaTsQLH    616  

LRR_1: domain 5 of 9, from 724 to 751: score 9.4, E = 55
                   *->nLeeLdLsgCNpslsgs.....lppsl.glp<-*
                      nL +LdLs+ N sl g ++   l + l+gl    
   mFLJ00359   724    NLDHLDLSD-N-SL-GGkgvilLTELLpGLG    751  

LRR_1: domain 6 of 9, from 752 to 776: score 4.6, E = 3.5e+02
                   *->nLeeLdLsgCNpslsgs...lppsl.glp<-*
                       L++L+Ls+ N  ls  ++ ++   + l+   
   mFLJ00359   752    PLKSLNLSR-N-GLS-MdavFSL-VqCLS    776  

LRR_1: domain 7 of 9, from 879 to 906: score 2.5, E = 7.7e+02
                   *->nLeeLdLsgCNpslsgs.....lppsl.glp<-*
                      +L  L L++ +  ls s ++  l++ ++ +p   
   mFLJ00359   879    QLSLLQLRH-T-VLS-SrspflLADIFnLCP    906  

LRR_1: domain 8 of 9, from 958 to 982: score 6.2, E = 1.9e+02
                   *->nLeeLdLsgCNpslsgs..lppsl.glp<-*
                       L  LdL + N  l g+ +l   l+ lp   
   mFLJ00359   958    ALSQLDLTD-N-LL-GDigLRCLLeCLP    982  

LRR_1: domain 9 of 9, from 1066 to 1089: score 2.9, E = 6.6e+02
                   *->nLeeLdLsgCNpslsgslpps.l.glp<-*
                      +L+eL L  C  +l +  +   l +l    
   mFLJ00359  1066    QLTELWLTKC--HL-DLPQLTmLlNLV    1089 

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