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:            hmm3/seq/K11C4.1
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query:  K11C4.1  CE12108   serine\/threonine-protein kinase status:Partially_confirmed TR:Q94277 protein_id:AAB18314.1

Scores for sequence family classification (score includes all domains):
Model    Description                                    Score    E-value  N
-------- -----------                                    -----    ------- ---
pkinase  Protein kinase domain                           43.5    5.6e-11   1
PadR     Transcriptional regulator PadR-like family       4.1        8.6   1

Parsed for domains:
Model    Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
-------- ------- ----- -----    ----- -----      -----  -------
pkinase    1/1      19   194 ..     1   169 [.    43.5  5.6e-11
PadR       1/1     273   288 ..    38    53 ..     4.1      8.6

Alignments of top-scoring domains:
pkinase: domain 1 of 1, from 19 to 194: score 43.5, E = 5.6e-11
                   *->yelleklGeGsfGkVykakhkdktgkiVAvKilkkekesikekrflr
                      +++ +klGeG+fG Vy +++    g + A+K      e+i+   +
     K11C4.1    19    FTVFKKLGEGTFGAVYAVRDD--AGAEHALKAEL-ATEKIPL--LKL 60

                   EiqilkrLs...HpNIvrligvfedtddhlylvmEymegGdLfdylrrng
                   E++++++Ls ++ ++  +li+  + +++  y+vm ++++ +L d  +
     K11C4.1    61 ELYVMQKLSmkgPKHMATLIDKGR-HENFNYIVMKFLGK-SLQDAKKTGP 108

                   .gplsekeakkialQilrGleYLHsngivHRDLKpeNILlden....dgt
                   +g+l+   a+    Q l++le LH +g++HRD+Kp N+ l + + ++  +
     K11C4.1   109 dGHLTLGSAIGASIQCLEALEELHWCGFLHRDVKPGNFCLGRAelgeLRK 158

                   vKiaDFGLArlle.......sssklttfvGTpwYmmA<-*
                   + + DFGL+r+++++++      ++  + GTp+Y  +
     K11C4.1   159 IFVLDFGLCRKFVddrnvmlQPRRKAPYRGTPRYA-P    194

PadR: domain 1 of 1, from 273 to 288: score 4.1, E = 8.6
                   *->ffrpseGtLYPiLkrL<-*
                      f++p++G +Y +LkrL
     K11C4.1   273    FMEPNYGLIYSTLKRL    288



[DB home][top]