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/mbg/mbg03146/w3open/interpro/cnk_1/seq.in
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Query:  mKIAA0300  ( 1352 res)   mbg03146

Scores for sequence family classification (score includes all domains):
Model      Description                                  Score    E-value  N 
--------   -----------                                  -----    ------- ---
PDZ        PDZ domain (Also known as DHR or GLGF)        92.5    8.6e-24   2
Extensin_2 Extensin-like region                        -140.4       0.54   1

Parsed for domains:
Model      Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------   ------- ----- -----    ----- -----      -----  -------
Extensin_2   1/1     665  1038 ..     1   385 []  -140.4     0.54
PDZ          1/2    1136  1215 ..     1    82 []    30.0  5.6e-05
PDZ          2/2    1264  1347 ..     1    82 []    66.1  7.6e-16

Alignments of top-scoring domains:
Extensin_2: domain 1 of 1, from 665 to 1038: score -140.4, E = 0.54
                   *->lltlvvalvslslpseasakYsYsSPPPpekpYvYkSPPpPspkyvy
                        +  +a ++ s+ps ++    +s  P  ++    kS   P+   v 
   mKIAA0300   665    RWSYSMARLASSSPSAPQ---LPSKMPDYSQG---KSSQMPASVGVP 705  

                   kSPPPpkkpYvYsSPPPPsyvykSPPPPkpyvYkSPPpPkyvYkSPPpPv
                   k   P           PP   y  P P            +  Y+ P   +
   mKIAA0300   706 KNGVPV----GLAGEEPP---YFTPRPA-----------TRTYSMPAQFS 737  

                   ....ykYkSPPPPthspp.PpyvykSPPPPpk........kyvykSpPpp
                   ++ +    SPP P+hsp +P+    S    +k+ ++ ++++ vy+  P  
   mKIAA0300   738 shfgREGLSPPSPSHSPQdPQVTAMSGSLSEKsakgvtneQGVYSVKPLL 787  

                   tPvYkYkSPPPPpyvYkspPpPvkk.ripyvYkSPPPPpPYvYkSpPppv
                         + PPP   v   +  P   + ip + k       Y  +S P  +
   mKIAA0300   788 E---TLRNPPPV-DVGDVSAVPEASgLIPDKLKVTRRHY-YCEQSWPHES 832  

                   kkyiyksppppephkYvYkSPPPPpPYvyesvpeqkikYvYkSPPPPkks
                     + ++     +  +   +S  P      +s+     ++   S  PP   
   mKIAA0300   833 TSF-FSVKQRIKSFENLANSDRPAA----KSAT---SPFLSVSSKPPVNR 874  

                   Ykspsp.........pkyVYkSpPpPvipykYkSPPPPkkkyspaPrkpy
                     s s +++++++++ +   +S           S   P+   sp+ +   
   mKIAA0300   875 RSSGSItsgrpsdgtARSLRRSLSSCSENQSEASSLLPQMTKSPSSVTLT 924  

                   vYkSPPPPtyvYkSpPpPyk.pptppkiyksPPPPtPvyvYkspPpippi
                   v +  PP t      P P+k+  +++ + +   P +P+   ks  +    
   mKIAA0300   925 VSRQNPPETNNKGHSPDPKKsLVPVGIPISTGSPASPIKRNKSSVR---- 970  

                   ksssppPvyvYkSpPppvysPPPP.yv.....YssPPPPvy...vynsaP
                       p Pv   k       s P  + + ++++Ys+ P  v  ++  + +P
   mKIAA0300   971 -HAQPSPVSRSKLQELRALSMPDLdKLcsgedYSASPGAVLfrtQLEITP 1019 

                   vykksPPkhhYiYsSPPPphh<-*
                     ++s   +  + +S P   h   
   mKIAA0300  1020 --RRSQGSPATSPASSPARGH    1038 

PDZ: domain 1 of 2, from 1136 to 1215: score 30.0, E = 5.6e-05
                   *->evtlekevkrgglGfsikggsdk...givvsevlpGsgaAeagGrLk
                       ++l k  +++glGfs++gg d +++++ v +v    g A + G   
   mKIAA0300  1136    FIVLNKK-EGSGLGFSVAGGADVepeSVLVHRVFSQ-GVASQEGTVS 1180 

                   eGDqIlsvNGqdvenlsheravlalkgsggsevtLtil<-*
                    GD +lsvNG+++++lsh ++ ++l ++   e++  +l   
   mKIAA0300  1181 QGDFLLSVNGTSLAGLSHSEVTKVLHQA---ELHKHVL    1215 

PDZ: domain 2 of 2, from 1264 to 1347: score 66.1, E = 7.6e-16
                   *->evtlekevkrgglGfsikggsdk.....givvsevlpGsgaAeagGr
                       v + k  +  glG+s+ gg++   +++++v+++v +G gaAe++G 
   mKIAA0300  1264    CVEVLK--TSAGLGLSLDGGKSSiagdgPLVIKRVYQG-GAAEQAGT 1307 

                   LkeGDqIlsvNGqdvenlsheravlalkgsggsevtLtil<-*
                   +++GD Il++NG+++++l h +a  ++k+ ++++v+L+i+   
   mKIAA0300  1308 IEAGDEILAINGKPLVGLVHFDAWNIMKSVPEGPVQLVIR    1347 

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