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).
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
HMM file:                 /home/niguts/usr02/tshini/ykclst/db/Pfam_fs
Sequence file:            hmm4/seq/W03A5.1
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query:  W03A5.1  CE29359    status:Partially_confirmed TR:Q23136 protein_id:AAL02528.1

Scores for sequence family classification (score includes all domains):
Model    Description                                    Score    E-value  N
-------- -----------                                    -----    ------- ---
pkinase  Protein kinase domain                          177.9    1.7e-49   1
SH2      SH2 domain                                       5.1        1.7   2

Parsed for domains:
Model    Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
-------- ------- ----- -----    ----- -----      -----  -------
SH2        1/2     189   193 ..     1     5 [.    -0.4  1.4e+02
SH2        2/2     393   406 ..    66    79 .]     5.8     0.99
pkinase    1/1     545   808 ..     6   294 .]   177.9  1.7e-49

Alignments of top-scoring domains:
SH2: domain 1 of 2, from 189 to 193: score -0.4, E = 1.4e+02
                   *->WyhGk<-*
                      WyhG+
     W03A5.1   189    WYHGN    193

SH2: domain 2 of 2, from 393 to 406: score 5.8, E = 0.99
                   *->gvkFssLpeLvehY<-*
                      g+++++L++Lv+h
     W03A5.1   393    GKRYDTLYDLVHHL    406

pkinase: domain 1 of 1, from 545 to 808: score 177.9, E = 1.7e-49
                   *->klGeGsfGkVykakhkd..ktgkiVAvKilkkekesikek.rflrEi
                      ++G+G+fG+V+k+k +++ +   +VAvK+l ++++s++e++ +++E+
     W03A5.1   545    QIGKGAFGTVKKGKFRNslGESVPVAVKKLGLRESSKDERnPAFSEM 591

                   qilkrLsHpNIvrligvfed.tddhlylvmEymegGdLfdylrrnggpls
                   +il ++ HpNIv ++g+   ++++ lyl +E+m+  +L +++ + +  ls
     W03A5.1   592 EILEMVAHPNIVFYYGFSISgDEQALYLLFELMDT-SLDKFIDKSDAILS 640

                   ekeakkialQilrGleYLHsng..ivHRDLKpeNILlden.....dgtvK
                   e+e ++i  Qi+rG+++LH + ++ivH DL+++N+Ll++++   +   +K
     W03A5.1   641 ENERLDILAQICRGMSFLHTRTpsIVHGDLAARNVLLKKHpvyikKYICK 690

                   iaDFGLArlle..sssklttfvGTpwYmmAPEvilegrgysskvDvWSlG
                   i+D GLA+   ++ ++++++ +  p+ +++PEv l +r  s k D+W++G
     W03A5.1   691 ITDLGLAKTCLdeLYTSYDDPTKIPFKWLPPEV-LGSRTLSLKTDIWAFG 739

                   viLyElltggplfpgadlpaftggdevdqliifvlklPfsdelpktridp
                   ++++E++ +                          ++P+        + p
     W03A5.1   740 IVCFEVCDKV-------------------------GEPYGA------CVP 758

                   leelfriikrpglrlplpsncSeelkdLlkkcLnkDPskRpGsatakeil
                   +++l + + + g+  ++  + S++ + +  +c ++ P +Rp   ++ e+
     W03A5.1   759 TSNLCQYLTD-GYVHEKGLHMSDTIYNIALDCMRQHPIERP---SFAEL- 803

                   nhpwf<-*
                    + ++
     W03A5.1   804 VDQFL    808



[DB home][top]