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/T05C12.6a
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Query:  T05C12.6a  CE02318  locus:mig-5 presynaptic density protein (PSD-95) repeat-like domain status:Partially_confirmed TR:Q22227 protein_id:CA

Scores for sequence family classification (score includes all domains):
Model      Description                                  Score    E-value  N
--------   -----------                                  -----    ------- ---
DIX        DIX domain                                   174.4    1.9e-48   1
DEP        Domain found in Dishevelled, Egl-10, and P   115.8    8.4e-31   1
PDZ        PDZ domain (Also known as DHR or GLGF)        47.4      5e-12   1
Mur_ligase Mur ligase family, catalytic domain            3.2        5.3   1

Parsed for domains:
Model      Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------   ------- ----- -----    ----- -----      -----  -------
DIX          1/1       9    92 ..     1    87 []   174.4  1.9e-48
Mur_ligase   1/1     232   266 ..     1    37 [.     3.2      5.3
PDZ          1/1     226   308 ..     1    84 []    47.4    5e-12
DEP          1/1     427   501 ..     1    82 []   115.8  8.4e-31

Alignments of top-scoring domains:
DIX: domain 1 of 1, from 9 to 92: score 174.4, E = 1.9e-48
                   *->csetKViYhLDdEetPYlvkvpvpaervTLgdFKevLtkrngsYKYy
                      cs++KV+Y+LDdE+tPY+++++++++++TLg+FK+++tkr  +YKYy
   T05C12.6a     9    CSQIKVFYYLDDETTPYVSVIEAREGVATLGNFKNSFTKR--GYKYY 53

                   fKslDpDfdCgvVKeEirdDsarLrPcfNgrvvswLvsve<-*
                   +K+lDpD++ ++VK+E+++Ds+rLr+++Ng+++++Lvs++
   T05C12.6a    54 AKELDPDIQ-REVKVELTTDSDRLRKSQNGFYEIFLVSTP    92

Mur_ligase: domain 1 of 1, from 232 to 266: score 3.2, E = 5.3
                   *->kgtlflglkgekidgshgieqldasragalvvkspai<-*
                      k+  +lgl +++idg+ ++++++  ++ga++  ++++
   T05C12.6a   232    KNVPYLGLSVCTIDGHIFVSEIA--PEGAVEKDGRVN    266

PDZ: domain 1 of 1, from 226 to 308: score 47.4, E = 5e-12
                   *->evtlekevkrgglGfsikggsdkgivvsevlpGsgaAeagGrLkeGD
                      e+ l++     +lG+s+   +  +i+vse+ p  ga e++Gr ++GD
   T05C12.6a   226    EIYLPMK-NVPYLGLSVCTIDG-HIFVSEIAPE-GAVEKDGRVNVGD 269

                   vIlsvNGqdvenmsheravlaikgsgg..sevtLtvlRd<-*
                   +Il+vN +++e +s  +av  ++++ ++++++tL +
   T05C12.6a   270 QILQVNRVSFEELSGPQAVRSLREAASskRPITLYISKF    308

DEP: domain 1 of 1, from 427 to 501: score 115.8, E = 8.4e-31
                   *->pesgvklkdrkwllkvipncFtGselVdWLmdnlsgvidrkeAlhla
                      p+sg+ +k+rkwl++++p++F+G++lVdWL+d++ ++++rk+A+ +a
   T05C12.6a   427    PDSGLAVKNRKWLKILVPMSFIGRDLVDWLVDHMADIHNRKKARIYA 473

                   qlLlkeGyirhvgdhltgkndhtFldkqtyYrfpd<-*
                   ++Ll+ G+irhv      ++++tF++  +yY+f+d
   T05C12.6a   474 ARLLAAGLIRHV------VSKLTFTE-KCYYVFGD    501



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