hmmpfam - search one or more sequences against HMM database
HMMER 2.3.2 (Oct 2003)
Copyright (C) 1992-2003 HHMI/Washington University School of Medicine
Freely distributed under the GNU General Public License (GPL)
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HMM file:                 /db/iprscan/data/Pfam.bin
Sequence file:            /db/iprscan/tmp/20080812/iprscan-20080812-18454273/chunk_1/iprscan-20080812-18454273.nocrc
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Query sequence: hj07171
Accession:      [none]
Description:    [none]

Scores for sequence family classification (score includes all domains):
Model         Description                               Score    E-value  N 
--------      -----------                               -----    ------- ---
PF00104.20.fs Ligand-binding domain of nuclear hormon   241.7    5.9e-72   1
PF00104.20.ls Ligand-binding domain of nuclear hormon   243.6    3.8e-70   1
PF00105.9.fs  Zinc finger, C4 type (two domains)        188.2      8e-56   1
PF00105.9.ls  Zinc finger, C4 type (two domains)        190.2    4.6e-54   1

Parsed for domains:
Model         Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------      ------- ----- -----    ----- -----      -----  -------
PF00105.9.fs    1/1     161   236 ..     1    77 []   188.2    8e-56
PF00105.9.ls    1/1     161   236 ..     1    77 []   190.2  4.6e-54
PF00104.20.fs   1/1     301   482 ..     1   198 []   241.7  5.9e-72
PF00104.20.ls   1/1     301   482 ..     1   198 []   243.6  3.8e-70

Alignments of top-scoring domains:
PF00105.9.fs: domain 1 of 1, from 161 to 236: score 188.2, E = 8e-56
                   *->elCkVCGDkASGyHYGvlTCEGCKGFFrRSiqknlviYsCkrnkdCv
                      ++C++CGD++SG+HYGv++CEGCKGFF+R+++k l+ Y+C+ nkdC 
     hj07171   161    HICAICGDRSSGKHYGVYSCEGCKGFFKRTVRKDLT-YTCRDNKDCL 206  

                   IdKrnRnrCQyCRLkKCLeVGMskeaVrfg<-*
                   IdKr+RnrCQyCR++KCL++GM++eaV+++   
     hj07171   207 IDKRQRNRCQYCRYQKCLAMGMKREAVQEE    236  

PF00105.9.ls: domain 1 of 1, from 161 to 236: score 190.2, E = 4.6e-54
                   *->elCkVCGDkASGyHYGvlTCEGCKGFFrRSiqknlviYsCkrnkdCv
                      ++C++CGD++SG+HYGv++CEGCKGFF+R+++k l+ Y+C+ nkdC 
     hj07171   161    HICAICGDRSSGKHYGVYSCEGCKGFFKRTVRKDLT-YTCRDNKDCL 206  

                   IdKrnRnrCQyCRLkKCLeVGMskeaVrfg<-*
                   IdKr+RnrCQyCR++KCL++GM++eaV+++   
     hj07171   207 IDKRQRNRCQYCRYQKCLAMGMKREAVQEE    236  

PF00104.20.fs: domain 1 of 1, from 301 to 482: score 241.7, E = 5.9e-72
                   *->drelllivewaKklPgFseLsleDQiiLLksswlelllLrlayrsyk
                      d++l+++vewaK++P+FseL+l+DQ+iLL+++w ell+ ++++rs+ 
     hj07171   301    DKQLFTLVEWAKRIPHFSELPLDDQVILLRAGWNELLIASFSHRSIA 347  

                   ek.elllfpdggdifeeqlr.ggl.elvrilqelv.plreLkldeeEyal
                    k+ +ll+ + + ++++++  g+  +++r+l elv+++r +++d++E+ +
     hj07171   348 VKdGILLATGLHVHRNSAHSaGVGaIFDRVLTELVsKMRDMQMDKTELGC 397  

                   LkAivLfnpdvpglSlkgreiveklqekylsaLleYclltygkepgspqd
                   L AivLfnpd +g  l++++ ve l+ek++ +L  Yc+++y   p    +
     hj07171   398 LRAIVLFNPDSKG--LSNPAEVEALREKVYASLEAYCKHKY---PE---Q 439  

                   prgpsRFakLLllLpelrslsksklieflfflklfgpvlfpiklppLldv
                   p    RFakLLl+Lp+lrs+   k++e+lff+kl+g++  pi+   +l  
     hj07171   440 P--G-RFAKLLLRLPALRSIG-LKCLEHLFFFKLIGDT--PID--TFL-- 479  

                   LfkEi<-*
                     +E+   
     hj07171   480 --MEM    482  

PF00104.20.ls: domain 1 of 1, from 301 to 482: score 243.6, E = 3.8e-70
                   *->drelllivewaKklPgFseLsleDQiiLLksswlelllLrlayrsyk
                      d++l+++vewaK++P+FseL+l+DQ+iLL+++w ell+ ++++rs+ 
     hj07171   301    DKQLFTLVEWAKRIPHFSELPLDDQVILLRAGWNELLIASFSHRSIA 347  

                   ek.elllfpdggdifeeqlr.ggl.elvrilqelv.plreLkldeeEyal
                    k+ +ll+ + + ++++++  g+  +++r+l elv+++r +++d++E+ +
     hj07171   348 VKdGILLATGLHVHRNSAHSaGVGaIFDRVLTELVsKMRDMQMDKTELGC 397  

                   LkAivLfnpdvpglSlkgreiveklqekylsaLleYclltygkepgspqd
                   L AivLfnpd +g  l++++ ve l+ek++ +L  Yc+++y   p    +
     hj07171   398 LRAIVLFNPDSKG--LSNPAEVEALREKVYASLEAYCKHKY---PE---Q 439  

                   prgpsRFakLLllLpelrslsksklieflfflklfgpvlfpiklppLldv
                   p    RFakLLl+Lp+lrs+   k++e+lff+kl+g++  pi+   +l  
     hj07171   440 P--G-RFAKLLLRLPALRSIG-LKCLEHLFFFKLIGDT--PID--TFL-- 479  

                   LfkEi<-*
                     +E+   
     hj07171   480 --MEM    482  

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