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).
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
HMM file:                 /data11/genetics/InterProScan/iprscan/data/Pfam
Sequence file:            /cdna4/rodent/full/goal/mfj/mfj11041/w3open/interpro/cnk_1/seq.in
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query:  mKIAA0613  ( 730 res)   mfj11041

Scores for sequence family classification (score includes all domains):
Model      Description                                  Score    E-value  N 
--------   -----------                                  -----    ------- ---
LIM        LIM domain                                   146.4    5.2e-40   3
PDZ        PDZ domain (Also known as DHR or GLGF)        71.8    1.4e-17   1
Extensin_2 Extensin-like region                        -132.5       0.26   1

Parsed for domains:
Model      Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------   ------- ----- -----    ----- -----      -----  -------
PDZ          1/1      50   127 ..     1    82 []    71.8  1.4e-17
Extensin_2   1/1     204   495 ..     1   385 []  -132.5     0.26
LIM          1/3     554   610 ..     1    62 []    51.0  2.5e-11
LIM          2/3     613   669 ..     1    62 []    60.9  2.8e-14
LIM          3/3     672   729 ..     1    62 []    51.5  1.9e-11

Alignments of top-scoring domains:
PDZ: domain 1 of 1, from 50 to 127: score 71.8, E = 1.4e-17
                   *->evtlekevkrgglGfsikggsdk..givvsevlpGsgaAeagGrLke
                      +vtl    ++g++Gf+++gg+d + ++ +s++ pGs aA+ +  L  
   mKIAA0613    50    SVTLT---GPGPWGFRLQGGKDFnmPLTISRITPGSKAAQSQ--LSQ 91   

                   GDqIlsvNGqdvenlsheravlalkgsggsevtLtil<-*
                   GD +++++G+++  ++h++a+  +k+++   ++Lt++   
   mKIAA0613    92 GDLVVAIDGVNTDTMTHLEAQNKIKSASY-NLSLTLQ    127  

Extensin_2: domain 1 of 1, from 204 to 495: score -132.5, E = 0.26
                   *->lltlvvalvslslpseasakYsYsSPPPpekpYvYkSPPpPspkyvy
                      + +     ++  ++ +a+a+ s  S   p          +P+    +
   mKIAA0613   204    ISMYSQDAIMDAIAGQAQAQGSDFSGASPLAS-------LPVKDLAV 243  

                   kSPPPpkkpY..vYsSPPPPs.....yvykSPPPPkpyvYkSPPpPkyvY
                    S  P    Y+ v +    P ++ ++   +S    ++            Y
   mKIAA0613   244 DSASPV---YqaVIKTQSKPEdeadeWARRSSNLQSRSFRILAQMTGTEY 290  

                   kSPPpPvykYkSPPPPthsppPpyvykSPPPPpkkyvykSpPpptPvYkY
                      P      +S  P  h+p       SP  P      +Sp   +P  + 
   mKIAA0613   291 MQDPDEEALRRSSTPIEHAPVCTSQATSPLLPA---SAQSPAAASP--IA 335  

                   kSPPPPpyvYkspPpPvkkripyvYkSPPPPpPYvYkSpPppvkkyiyks
                    SP        ++ + +           P  +P v +  P  +  y   s
   mKIAA0613   336 ASPTLATAAATHAAAASAA--------GPAASP-VENPRPQAS-AY---S 372  

                   ppppephkYvYkSPPPPpPYvyesvpeqkikYvYkSPPPPkksYkspspp
                   p +         SP P     y + p           P Pk        p
   mKIAA0613   373 PAAA-------ASPAPSAHTSYSEGP---------AAPAPK--------P 398  

                   kyVYkSpPpPvipykYkSPPPPkkkyspaPrkpyvYkSPPPPtyvYkSpP
                   + V     +P    +Y+  P P  +ysp+P   y       Pt++  Sp 
   mKIAA0613   399 RVVTTASIRPS---VYQ--PVPASSYSPSPGANYS------PTPYTPSPA 437  

                   pPykpptppkiyksPPPPtPvyvYkspPpippiksssppPvyvYkSpPpp
                   p y              P+P + Y   P   p   +sp P++ Y   P p
   mKIAA0613   438 PAYT-------------PSPAPTYTPSPA--P--TYSPSPAPAYTPSPAP 470  

                   vysPPPPyvYssPPPPvyvynsaPvykksPPkhhYiYsSPPPphh<-*
                    y P P   Ys  P                       +S PP +    
   mKIAA0613   471 NYTPTPSAAYSGGPSES--------------------ASRPPWVT    495  

LIM: domain 1 of 3, from 554 to 610: score 51.0, E = 2.5e-11
                   *->CagCgkpIydrevvmrAlnkvwHpeCFrCavCgkpLtegdefyekdg
                      C++C+  I++ ++v  A++++wHpe F Ca C++ L++   ++  + 
   mKIAA0613   554    CGHCNNVIRGPFLV--AMGRSWHPEEFNCAYCKTSLADV--CFVEEQ 596  

                   skelYCkkDYyklfg<-*
                   +   YC+++Y++ f+   
   mKIAA0613   597 NN-VYCERCYEQFFA    610  

LIM: domain 2 of 3, from 613 to 669: score 60.9, E = 2.8e-14
                   *->CagCgkpIydrevvmrAlnkvwHpeCFrCavCgkpLtegdefyekdg
                      Ca+C+ +I + ++   Al  +wH  CF+Ca C+kp++++ +f++ dg
   mKIAA0613   613    CAKCNTKIMGEVMH--ALRQTWHTTCFVCAACKKPFGNS-LFHMEDG 656  

                   skelYCkkDYyklfg<-*
                    + +YC+kDY +lf+   
   mKIAA0613   657 -E-PYCEKDYINLFS    669  

LIM: domain 3 of 3, from 672 to 729: score 51.5, E = 1.9e-11
                   *->CagCgkpIydrevvmrAlnkvwHpeCFrCavCgkpLtegdefyekdg
                      C+gC+ p+++ ++++ Al+++wH  CF CavC+ +L+    fy+k++
   mKIAA0613   672    CHGCDFPVEAGDKFIEALGHTWHDTCFICAVCHVNLEGQ-PFYSKKD 717  

                   skelYCkkDYyklfg<-*
                    k ++Ckk +  +     
   mKIAA0613   718 -K-PLCKK-HAHAIN    729  

//