Motif confirmation by HMMer


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:                 /home/niguts/usr02/tshini/ykclst/db/Pfam_fs
Sequence file:            hmm4/seq/W06D4.1
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Query:  W06D4.1  CE29602  locus:hgo-1 HOMOGENTISATE 1,2-DIOXYGENASE (EC 1.13.11.5) (HOMOGENTISICASE) (HOMOGENTISATE OXYGENASE) (HOMOGENTISIC ACI

Scores for sequence family classification (score includes all domains):
Model    Description                                    Score    E-value  N
-------- -----------                                    -----    ------- ---
HgmA     homogentisate 1,2-dioxygenase                 1117.5          0   1

Parsed for domains:
Model    Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
-------- ------- ----- -----    ----- -----      -----  -------
HgmA       1/1       6   433 ..     1   474 []  1117.5        0

Alignments of top-scoring domains:
HgmA: domain 1 of 1, from 6 to 433: score 1117.5, E = 0
                   *->elkYlsGFGnefsssdEAvpGALPvGqNSPQkcpYGLYAEQLSGsAF
                      elkYl+GFGne+++sd++vp+ALPvGqNSPQkc++GLYAEQLSG+AF
     W06D4.1     6    ELKYLTGFGNEHATSDPRVPDALPVGQNSPQKCSHGLYAEQLSGTAF 52

                   TaPRheNrRSWLYRIrPSaaHepfeprksntigehltaefneehsldPNq
                   TaPR++N+RSWLYRIrPS+ H+pfe +k+n  ++h+t++f++ ++ +PNq
     W06D4.1    53 TAPRSQNQRSWLYRIRPSVIHRPFEAMKEN--DQHWTNNFSSIPP-NPNQ 99

                   LRWkPlpiPskeptDFVeGLhtiaGagdpLLlsrhGlAihvYsankSMen
                   +RW+P+p+P+ke ++FV++L+t++G gd+  +sr+GlAih++s+n+SMe+
     W06D4.1   100 YRWNPFPLPTKEGVTFVDNLYTVCGGGDV--ISRTGLAIHQFSCNASMEH 147

                   klFyRNADGDlLiVPqqGeLdltTEfGrleVePgeIaVIPRGvrFrVevl
                   +++y N+DGD+LiVPqqG+L++tTEfGrl+V+P+eIaVIP+G+rF+V v+
     W06D4.1   148 TAMY-NSDGDFLIVPQQGALEITTEFGRLLVNPQEIAVIPQGIRFSVAVR 196

                   DgpaRGYicEnyGahfqLPkDYRndLGPIGaNGLANPRDFkaPVinDqFR
                    gp+RGYi+E+yG+hfqLP     dLGPIGaNGLANPRDF+aPV
     W06D4.1   197 -GPSRGYILEVYGTHFQLP-----DLGPIGANGLANPRDFEAPV------ 234

                   AayeDeetpgeytvivKfqGkLftaeqdhsPlDVVAWHGNYvPYALskYD
                   A++eD ++  e+t+i+K+qG++f+a+q+hsP+DVV+WHGNYvPY   kYD
     W06D4.1   235 AWFEDLDV--EFTIINKYQGSWFQAKQGHSPFDVVGWHGNYVPY---KYD 279

                   LsrFnpinsvsFDHpDPSIFTVLTaPSdepGtAnaDFVICtFPPRWlVaE
                   L++F++in+vsFDH+DPSIFTVLTaPS+++GtA+aDFVI  FPPRW++a+
     W06D4.1   280 LKKFMVINTVSFDHCDPSIFTVLTAPSVKHGTAIADFVI--FPPRWGCAD 327

                   PhTFRPPisYYHRNDDYDEvMSEEiiFYssGqFMGLIrGaYdAKaeGFvP
                    +TFRPP  YYHRN     +MSE         +MGLI+G+Y+AK++GF+P
     W06D4.1   328 -NTFRPP--YYHRN-----CMSE---------YMGLITGCYEAKEGGFKP 360

                   GGaSLHncMtpHGPDaesfekAsnadLkPtkkFideGTmAFMFEtrlvlq
                   GG+SLH++MtpHGPD+++fe+AsnadLkP++  ++eGTm+FMFE++l+++
     W06D4.1   361 GGGSLHSMMTPHGPDFNCFEMASNADLKPQR--VAEGTMSFMFESSLNMA 408

                   vtewAlkesenlqddYdkcWqgLkshf<-*
                   +t+wA   ++n+++dY+k+Wq+Lk+hf
     W06D4.1   409 ITNWA--VYQNVDKDYYKDWQPLKKHF    433



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