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/mpg/mpg00643/w3open/interpro/cnk_1/seq.in
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Query:  mFLJ00098  ( 1091 res)   mpg00643

Scores for sequence family classification (score includes all domains):
Model       Description                                 Score    E-value  N 
--------    -----------                                 -----    ------- ---
AA_permease Amino acid permease                          81.5    1.7e-20   1
Herpes_LMP2 Gammaherpesvirus latent membrane protein   -397.7       0.85   1

Parsed for domains:
Model       Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------    ------- ----- -----    ----- -----      -----  -------
Herpes_LMP2   1/1      16   369 ..     1   503 []  -397.7     0.85
AA_permease   1/1     131   704 ..     1   528 []    81.5  1.7e-20

Alignments of top-scoring domains:
Herpes_LMP2: domain 1 of 1, from 16 to 369: score -397.7, E = 0.85
                   *->MsSLEMePLgvAGaPssgggpDGdegdsnesYP.SafgsSgdspgpq
                            +P           +  Gde   +   P+S  +    sp+p 
   mFLJ00098    16    ------VPVE------ARADGAGDEAAERTEEPeSPESVDQTSPTP- 49   

                   GPddedrdadeerPPpYddeYWGdGddggdYqpLgtQdpn..sLYagLgq
                   G   +   ++  +    + e + +G     +       p  +sL   L  
   mFLJ00098    50 GDGNPRENSPFINNVEVERESYFEGKNMALFEEEMDSNPMvsSLLNKLAN 99   

                   dggdGtLPPPPYSPrdesSeHvYEEarPdasMapvWLPVivAPYLFWLAG
                     +           +    eH   E   ++   ++ +      YL  L  
   mFLJ00098   100 YTNLS---------Q-GVVEHEEDEDSRRREVKAPRMGTFIGVYLPCLQN 139  

                   IAASCFsAsVsAvVvatGLALsLLLLAalvnSyAAqrRKlltklTvLvAV
                   I         + +V+a+G   s L+ A                 T L+A+
   mFLJ00098   140 ILGVILFLRLTWIVGAAGVMESFLIVAMCCTC------------TMLTAI 177  

                   vTFFAILLTwlVepkprnaivfALLvAAegLQaIYvLVMLllLLlAYRRr
                                     ai     v A+g  + Y               
   mFLJ00098   178 ---------------SMSAIATNGVVPAGG--SYYMIS------------ 198  

                   WRrLsvCvgLLFLaCvllLivDAilQlSPLLGAmTVVALTLLLLAFvLWL
                    R L   +g    +C+ l    A        GAm +       L ++   
   mFLJ00098   199 -RSLGPEFGGAVGLCFYLGTTFA--------GAMYILGTIEIFLTYI--- 236  

                   SSPhGlGALGAALL.TLAA...ALALLASL.iLGeLNLATMFLLmLLWTL
                    SP       AA  +   A+++A ALL   ++ G   LA M         
   mFLJ00098   237 -SPS------AAIFqAETAdgeAAALLNNMrVYGSCALALM--------A 271  

                   ViiLiCssCsafplskiLLaRwLLYALALLLlASALLAGGSILqtnFkss
                   V++ +         +k+         LAL  lA   L   SIL   + + 
   mFLJ00098   272 VVVFV--------GVKY------VNKLALVFLACVVL---SILAI-YAGV 303  

                   dsTeFfPdLFCMLLLIvAGILFILAiLtEWGsGskTYGpVFlCLSGLLTm
                     T F P                                + +CL G  T 
   mFLJ00098   304 IKTAFAPP------------------------------DIPVCLLGNRTL 323  

                   vAGlVWltlMskvLLSAWiLTAGcLiFfiGfiLFGVirfCRlcCFcCLrL
                   +           v     + TA                  Rl+C      
   mFLJ00098   324 ANRNFDTCAKMQVVSNGTVTTA----------------LWRLFC----NG 353  

                   esedrpvtrY..dNvv<-*
                    s +     Y  +N+v   
   mFLJ00098   354 SSLGATCDEYfaQNNV    369  

AA_permease: domain 1 of 1, from 131 to 704: score 81.5, E = 1.7e-20
                   *->hvqmialGgviGtGLfvgsgsvlaqaGpaglsllgyllagvviflvm
                      +v + +l ++ G+ Lf+++ +++++aG+    +l+++++++++ l++
   mFLJ00098   131    GVYLPCLQNILGVILFLRLTWIVGAAGVMES-FLIVAMCCTCTMLTA 176  

                   lslgEmstngpvvsGsfyayasrflgpslGfatGwnylltvYwlswvavl
                   +s+++++tng v +G+ y+++sr+lgp++G+a+G+      Y+ + +a++
   mFLJ00098   177 ISMSAIATNGVVPAGGSYYMISRSLGPEFGGAVGLC----FYLGTTFAGA 222  

                   aleltaagiliqfwetfpdipylwvtgslvdSg....pndiRvIgavflv
                   ++ l++  i++++ ++  +i+ +  t   +d++    +n  Rv g+  l+
   mFLJ00098   223 MYILGTIEIFLTYISPSAAIF-QAET---ADGEaaalLNNMRVYGSCALA 268  

                   llliinlfgvKvygefEfwfaliKviaiigfiIvgavviilifgggpnng
                   l+  + ++gvK+  +   +f+++ v++i++ + +      + + ++p++ 
   mFLJ00098   269 LMAVVVFVGVKYVNKLALVFLACVVLSILAIYAGV-----IKTAFAPPDI 313  

                   ..................................................
                   +    ++++  +++ ++  + +  ++++ ++   +   ++++ + + ++ 
   mFLJ00098   314 pvcllgnrtlanrnfdtcakmqvvsngtvttalwrlfcngsslgatcdey 363  

                   ...............................ll.fhaigfryl.....gd
                     +++ ++ ++ ++  ++   ++  ++ ++++   ++ g+++++ +++  
   mFLJ00098   364 faqnnvteiqgipgvasgvfldnlwstysdkGAfVEKKGVSSVpvseeSR 413  

                   ngatfkdnfpggfapspgtgsFlgflsvfviaaFaFtGielvgiaAgEsk
                   +g+       ++ + ++ t+    f +   i++++ tGi+++ + +g++k
   mFLJ00098   414 PGG------LPYVLTDIMTY----FTMLVGIYFPSVTGIMAGSNRSGDLK 453  

                   nPrKaiPkAilqviwritifYilsllaigllv..pwndpgllaasasaFF
                   + +K+iP +++++i+ + ++Y+  +++ g+++++++  +++ +a + +  
   mFLJ00098   454 DAQKSIPTGTILAIVTTSFIYLSCIVLFGACIegVVLRDKFGEALQ-G-- 500  

                   dCkpdcsaSpfviafkelgikglahlinaviLtaaLSaansslyagsRml
                              ++++ +l ++  + +i+++ + ++ +a++ sl+ ++R l
   mFLJ00098   501 -----------NLVIGMLAWPS-PWVIVIGSFFSTCGAGLQSLTGAPRLL 538  

                   yslAqdglaPikkflkkvdksgvPlrAillstlisllavavlGsLiilia
                   ++ A+dg++P+  +++  + +g+P  A+ll++li   ++        lia
   mFLJ00098   539 QAIARDGIIPFLQVFGHGKANGEPTWALLLTALICETGI--------LIA 580  

                   slnpaapivfnfllaisgliglivwllislshlrfRkafkyqgrsidelp
                   sl + api + f+l  +++ +l++  + +l  +++R+ fk + + ++ l+
   mFLJ00098   581 SLDSVAPILSMFFLMCYMFVNLACAVQTLLRTPNWRPRFKFYHWTLSFLG 630  

                   fkaplgplgpilvlaaliiilliqayyaflpvpkgpktwgaadfaalylt
                     ++l+ ++ + +  al ++l++  +y +  +++++k wg++ + ++   
   mFLJ00098   631 MSLCLALMFICSWYYALFAMLIAGCIYKYIEYRGAEKEWGDGIRGLSLNA 680  

                   vplfliiligyklhvknkkpkvlk<-*
                   +   l++   +  h+kn++p+vl+   
   mFLJ00098   681 ARYALLRVEHGPPHTKNWRPQVLV    704  

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