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:            hmm3/seq/F49F1.1
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Query:  F49F1.1  CE17084    status:Partially_confirmed TR:Q9GZE5 protein_id:AAF99968.1

Scores for sequence family classification (score includes all domains):
Model       Description                                 Score    E-value  N
--------    -----------                                 -----    ------- ---
ShTK        ShTK domain                                 120.0    1.6e-34   5
squash      Squash family serine protease inhibitor       4.5       0.94   1
Baculo_VP39 Baculovirus major capsid protein VP39         2.1        8.8   1

Parsed for domains:
Model       Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------    ------- ----- -----    ----- -----      -----  -------
ShTK          1/5      17    49 ..     1    44 []    31.2  7.5e-08
squash        1/1      24    56 ..     1    30 []     4.5     0.94
ShTK          2/5      54    86 ..     1    44 []    24.8  6.3e-06
ShTK          3/5      88   119 ..     1    44 []    23.2    2e-05
Baculo_VP39   1/1     142   154 ..    29    41 ..     2.1      8.8
ShTK          4/5     136   167 ..     1    44 []    26.2  2.3e-06
ShTK          5/5     227   265 .]     1    43 [.    45.4  4.1e-12

Alignments of top-scoring domains:
ShTK: domain 1 of 5, from 17 to 49: score 31.2, E = 7.5e-08
                   *->tCvDyvDpasdCaawaslGefCnnppYyqdfmkenCpkTCGfCs<-*
                      tC+   D ++dC+ ++ +   C     ++++++ +C+ +CG+C+
     F49F1.1    17    TCM---DFMIDCPRIVYY---C-----DETYVQNQCQFSCGICK    49

squash: domain 1 of 1, from 24 to 56: score 4.5, E = 0.94
                   *->riCPrilmeCkr...DsDClaeC.vCleegeyCG<-*
                        CPri+  C ++   + C   C++C+++ + CG
     F49F1.1    24    -DCPRIVYYCDEtyvQNQCQFSCgICKQDPGVCG    56

ShTK: domain 2 of 5, from 54 to 86: score 24.8, E = 6.3e-06
                   *->tCvDyvDpasdCaawaslGefCnnppYyqdfmkenCpkTCGfCs<-*
                       C    D++ dC ++      Cn+p       +++C+ TCG+C+
     F49F1.1    54    VCG---DTYFDCDMYDTK---CNSPS-----FQRQCAGTCGLCP    86

ShTK: domain 3 of 5, from 88 to 119: score 23.2, E = 2e-05
                   *->tCvDyvDpasdCaawaslGefCnnppYyqdfmkenCpkTCGfCs<-*
                       C+   D +  C+++ +    C+      d +k+ Cp  CG+C+
     F49F1.1    88    ACE---DIWDGCSHFLAP---CS------DDIKSLCPIKCGLCN    119

Baculo_VP39: domain 1 of 1, from 142 to 154: score 2.1, E = 8.8
                   *->dnCrtYtsPCSpD<-*
                      ++C++Y++PCS+D
     F49F1.1   142    NQCANYSPPCSDD    154

ShTK: domain 4 of 5, from 136 to 167: score 26.2, E = 2.3e-06
                   *->tCvDyvDpasdCaawaslGefCnnppYyqdfmkenCpkTCGfCs<-*
                       Cv   D+ + Ca++ +    C+      d +k +Cp TCG Cs
     F49F1.1   136    RCV---DAGNQCANYSPP---CS------DDVKIFCPATCGSCS    167

ShTK: domain 5 of 5, from 227 to 265: score 45.4, E = 4.1e-12
                   *->tCvDyvDpasdCaawaslGefCnnppYyqdfmkenCpkTCGfC<-*
                      +C    D++++Ca wa++G+ C+n +Y  + +ke+C kTC++C
     F49F1.1   227    PCK---DSSPNCAGWAKNGF-CTNTFYPPEKRKEYCGKTCRMC    265



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