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:            hmm2/seq/F35G12.3b
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Query:  F35G12.3b  CE00972  locus:sel-5 serine\/threonine kinase status:Confirmed TR:Q20056 protein_id:CAA86332.1

Scores for sequence family classification (score includes all domains):
Model          Description                              Score    E-value  N
--------       -----------                              -----    ------- ---
pkinase        Protein kinase domain                    123.0    5.3e-33   1
Amb_V_allergen Amb V Allergen                             5.0        3.6   1
RIO1           RIO1 family                                3.1        6.2   1

Parsed for domains:
Model          Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------       ------- ----- -----    ----- -----      -----  -------
RIO1             1/1      60    79 ..     1    30 [.     3.1      6.2
pkinase          1/1      47   310 ..     1   287 [.   123.0  5.3e-33
Amb_V_allergen   1/1     325   334 ..    35    44 .]     5.0      3.6

Alignments of top-scoring domains:
RIO1: domain 1 of 1, from 60 to 79: score 3.1, E = 6.2
                   *->nVYhAvsyaedgekdshsvlvevAvKiyrt<-*
                       VY+A +   +++k        +A+K  +t
   F35G12.3b    60    IVYVASD--RKNNK--------FALKRQFT    79

pkinase: domain 1 of 1, from 47 to 310: score 123.0, E = 5.3e-33
                   *->yelleklGeGsfGkVykakhkdktgkiVAvKilkkekesikek.rfl
                       ++ +++ eG+f+ Vy a ++  ++ ++A+K    +k ++k  +
   F35G12.3b    47    VTIEKQIAEGGFAIVYVASDR--KNNKFALKRQF-TKDNEKQLeACC 90

                   rEiqilkrLs.HpNIvrligvfed....tddhlylvmEymegGdLfdylr
                   rE + lk++ +H+NIv++ +++++  ++   +++l +Ey+ +   ++++
   F35G12.3b    91 REHSFLKQCIgHKNIVEFVDSYTNclgnGIWECMLLTEYHQK-NVLQLMN 139

                   rng...gplsekeakkialQilrGleYLHsng..ivHRDLKpeNILlden
                   ++ +++ +l+ +e+++i+++++++++++H++ ++i+HRDLK eN+L++++
   F35G12.3b   140 ERIsqnQYLTNDEILSIFTDLCEAVSFIHNRPqpIIHRDLKVENVLISSH 189

                   .dgtvKiaDFGLArlle.............sssklttfvGTpwYmmAPEv
                   ++ +  ++DFG A+    + ++ + +  ++  +++tt +    Y+ +PE
   F35G12.3b   190 kPPHYVLCDFGSATTQIlsvekygveyvksEVERNTTMC----YR-SPEM 234

                   ileg...rgysskvDvWSlGviLyElltggplfpgadlpaftggdevdql
                    +   ++ +++ k+D+W+lGv+Ly l++
   F35G12.3b   235 -IDFysgLEIGLKSDIWALGVLLYRLCFF--------------------- 262

                   iifvlklPfsdelpktridpleelfriikrpglrlplpsncSeelkdLlk
                          Pf+        +   ++ + +++    +p  +n+++e k L+
   F35G12.3b   263 -----CVPFE--------ESPLAIQSVNYQ----FPSVPNIPDEIKVLIY 295

                   kcLnkDPskRpGsatake<-*
                    +L+ D ++Rp   ++ +
   F35G12.3b   296 MLLDIDVNRRP---SIYQ    310

Amb_V_allergen: domain 1 of 1, from 325 to 334: score 5.0, E = 3.6
                   *->SkeICsKkCt<-*
                      S eI +KkCt
   F35G12.3b   325    SEEIQNKKCT    334



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