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/shimazu/full/sh/sh06537/interpro/cnk_1/seq.in
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Query:  sh06537  1651

Scores for sequence family classification (score includes all domains):
Model      Description                                  Score    E-value  N 
--------   -----------                                  -----    ------- ---
RhoGEF     RhoGEF domain                                 70.4    3.8e-17   1
PH         PH domain                                     41.0    2.7e-08   1
SH3_1      SH3 domain                                    40.2    4.7e-08   1
SH3_2      Variant SH3 domain                            40.2    4.8e-08   1
Extensin_2 Extensin-like region                        -131.2       0.23   1

Parsed for domains:
Model      Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------   ------- ----- -----    ----- -----      -----  -------
Extensin_2   1/1     548   996 ..     1   385 []  -131.2     0.23
RhoGEF       1/1    1232  1411 ..     1   207 []    70.4  3.8e-17
PH           1/1    1445  1556 ..     1    92 []    41.0  2.7e-08
SH3_1        1/1    1567  1623 ..     1    58 []    40.2  4.7e-08
SH3_2        1/1    1568  1623 ..     1    69 []    40.2  4.8e-08

Alignments of top-scoring domains:
Extensin_2: domain 1 of 1, from 548 to 996: score -131.2, E = 0.23
                   *->lltlvvalvslslpseasakYsYsSPPPpekpY..............
                      +++   + v+  ++s + +    s PP p + Y+ ++ + + +++  
     sh06537   548    TVSSQGTEVVFASASVTPPRTPDSAPPSPAEAYpitpasvsarppva 594  

                   ........vYkSPPpPspkyvykSPPPpkkpY.....vYsSPPPPsyvyk
                    ++++++   + P   s +  +  P P       +  +Y  P        
     sh06537   595 fprretscAARAPETASAPLSMDDPSPCGTSEmcqaaLYGFPSTG----T 640  

                   SPPPPkp......yvYkSPPpP.kyvYkSPPpPv...ykYkSPPPPthsp
                   SPP P+ +++++  + +S   P++   +  P  v+    Y+    P   p
     sh06537   641 SPPRPPAnstgtvQHLRSDSFPgSHRTEQTPDLVgmlLSYSHSELPQ-RP 689  

                   pPpyvykSPPPPpk..............................kyvykS
                   p p +y+S  P   ++++++ ++ + +++  ++ +++++++ ++    +S
     sh06537   690 PKPAIYSSVTPRRDrrsgrdystvsasptalstlkqdsqesisnLERPSS 739  

                   pPpptPvYkYkSPPPPp.....yvYkspPpPvkkripyvYkSPPPPpPYv
                   pP + P   + SP  P   ++++ Y s+P  v  +   +    PPPpP  
     sh06537   740 PPSIQP---WVSPHNPAfatesPAYGSSPSFVSMEDVRIHEPLPPPPPQR 786  

                   YkSpPppvkkyiyksppppephkYvYkSPPPPpPYvyesvpeqkikYvYk
                       P +v+   +     p     +  S PPP       + ++k +    
     sh06537   787 RDTHPSVVETDGHARVVVP---TLKQHSHPPPLALGSGLHAPHKGPLPQA 833  

                   SPPPPkksYk.spsppkyVYkSpPpPvipykYkSPPPPkkkyspaPrkpy
                   S P   + +++ ps p   +     P   + Y  P PP  +  p P+ p+
     sh06537   834 SDPAVARQHRpLPSTPDSSHHAQATPR--WRYNKPLPP-TPDLPQPHLPP 880  

                   vYkSPPPPtyvYkSpPpPykpptppkiyksPP.PPtPvyvYkspPpippi
                   +  S P  + +Y+  Pp    p + ++ + PP PP      +s      +
     sh06537   881 I--SAPGSSRIYRPLPP---LPIIDPPTEPPPlPPKSRGRSRSTRG-GHM 924  

                   k...sssppPvyvYkSpPppvysPPPPyvYssPPPPvy............
                    +++     P+      P p  s        s PP + +++++ ++++++
     sh06537   925 NsggHAKTRPACQDWTVPLPA-SAGRT----SWPPATArstesftstsrs 969  

                   vynsaPvykksPPkhhYiYsSPPPphh<-*
                     + +P    s        sSP  p     
     sh06537   970 KSEVSPGMAFSNMTNFLCPSSPTTPWT    996  

RhoGEF: domain 1 of 1, from 1232 to 1411: score 70.4, E = 3.8e-17
                   *->vlkElleTEkkYvrdLeildnvymkpLreaaisskpvltpddietiF
                      v +El+ +E+ Y+r+L i ++++ +     a      l+ ++ + +F
     sh06537  1232    VKFELIVSEASYLRSLNIAVDHFQLSTSLRA-----TLSNQEHQWLF 1273 

                   sNiediyefhreFLkssLearisssqfedlDekkiepsaqrlGdlFlklk
                   s + d  ++  +FL+  Le++ +                  + d++l + 
     sh06537  1274 SRLQDVRDVSATFLS-DLEENFENN-----------IFSFQVCDVVLNHA 1311 

                   epflqvYgeYcsnkpyAqelleklrqaasnpqFaefldeveassntgAkd
                    +f  vY +Y++n+ y + +  +l    sn +F+e+l+++e  + +    
     sh06537  1312 PDFRRVYLPYVTNQTYQERTFQSLM--NSNSNFREVLEKLESDPVCQ--- 1356 

                   davkltLqsLLlkPvqRilrYpLLLkeLLkhtpegedqpdredLkkaldl
                      +l+L s+L+ P qRi+r  LLL+ +Lk t++  ++++++++ ka  +
     sh06537  1357 ---RLSLKSFLILPFQRITRLKLLLQNILKRTQP--GSSEEAEATKAHHA 1401 

                   lqdlaksiNe<-*
                   l+ l+++ N    
     sh06537  1402 LEQLIRDCNN    1411 

PH: domain 1 of 1, from 1445 to 1556: score 41.0, E = 2.7e-08
                   *->vikeGwLlkkg........gkkswkkRyfvLfndvLlyykdkk...k
                      ++k+G+L+  + + +++ ++k + +++++ Lfnd+Ll+ +++ ++++
     sh06537  1445    LVKSGELTALEfsaspglrRKLNTRPVHLHLFNDCLLLSRPREgsrF 1491 

                   kpkgsipLsgiqvekvpdn...krkncFeirt.dr.....etlllqaese
                         p s+i+ ek++   ++++kn F++  ++++++ + ++l+++e++
     sh06537  1492 LVFDHAPFSSIRGEKCEMKlhgPHKNLFRLFLrQNtqgaqAEFLFRTETQ 1541 

                   eerkeWvkaiqsair<-*
                    e+ +W++a+ +  +   
     sh06537  1542 SEKLRWISALAMPRE    1556 

SH3_1: domain 1 of 1, from 1567 to 1623: score 40.2, E = 4.7e-08
                   *->kkvvALYDYearesdELsFkkGDvitvleksddgWWkgrlkgtgGke
                      ++v+ L +Y++re dEL ++k Dv+ v ++s dgW++g ++++g ++
     sh06537  1567    PQVQCLRAYKPRENDELALEKADVVMVTQQSSDGWLEGVRLSDG-ER 1612 

                   GliPsNYVepv<-*
                   G++P++ Ve +   
     sh06537  1613 GWFPVQQVEFI    1623 

SH3_2: domain 1 of 1, from 1568 to 1623: score 40.2, E = 4.8e-08
                   *->yvrairdyvaAtdenenleeeLslkkGdvvkVldvggskdddgwwlg
                       v+++r y + + ++e     L+l+k dvv V+    ++++dgw +g
     sh06537  1568    QVQCLRAYKP-RENDE-----LALEKADVVMVT----QQSSDGWLEG 1604 

                   es..geEmaGrrmGlvPssaveel<-*
                    + ++    G+r G++P + ve +   
     sh06537  1605 VRlsD----GER-GWFPVQQVEFI    1623 

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