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/F46F6.2
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Query:  F46F6.2  CE31703   Protein kinase C terminal domain status:Partially_confirmed TR:O17874 protein_id:CAA90339.4

Scores for sequence family classification (score includes all domains):
Model           Description                             Score    E-value  N
--------        -----------                             -----    ------- ---
pkinase         Protein kinase domain                   247.2    2.2e-70   1
HR1             Hr1 repeat                               78.9    3.1e-22   1
pkinase_C       Protein kinase C terminal domain         53.5    3.3e-15   1
RNase_P_p30     RNase P subunit p30                       6.6        1.5   1
DNA_ligase_N    NAD-dependent DNA ligase adenylation      4.7        1.7   1
Ureidogly_hydro Ureidoglycolate hydrolase                 4.4        2.4   1
NiFeSe_Hases    Nickel-dependent hydrogenase              3.1        1.7   1

Parsed for domains:
Model           Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------        ------- ----- -----    ----- -----      -----  -------
DNA_ligase_N      1/1      66    81 ..     1    16 [.     4.7      1.7
RNase_P_p30       1/1      93   110 ..     1    18 [.     6.6      1.5
NiFeSe_Hases      1/1     176   184 ..     1     9 [.     3.1      1.7
Ureidogly_hydro   1/1     208   220 ..     1    13 [.     4.4      2.4
HR1               1/1     159   232 ..     1    87 []    78.9  3.1e-22
pkinase           1/1     684   943 ..     1   294 []   247.2  2.2e-70
pkinase_C         1/1     944  1008 ..     1    62 [.    53.5  3.3e-15

Alignments of top-scoring domains:
DNA_ligase_N: domain 1 of 1, from 66 to 81: score 4.7, E = 1.7
                   *->eeaqqeieeLrelirk<-*
                      + +qqe++eLr +irk
     F46F6.2    66    SSIQQEALELRSVIRK    81

RNase_P_p30: domain 1 of 1, from 93 to 110: score 6.6, E = 1.5
                   *->ysRitIkaedprqskvrr<-*
                      ysRi+++++d+rqs+ +r
     F46F6.2    93    YSRIKLITSDRRQSEFLR    110

NiFeSe_Hases: domain 1 of 1, from 176 to 184: score 3.1, E = 1.7
                   *->RGLEkILkG<-*
                      RGLE++L+G
     F46F6.2   176    RGLEQFLRG    184

Ureidogly_hydro: domain 1 of 1, from 208 to 220: score 4.4, E = 2.4
                   *->MkklvaepLTkEA<-*
                      M + ++e+L++EA
     F46F6.2   208    MLRMQIERLSQEA    220

HR1: domain 1 of 1, from 159 to 232: score 78.9, E = 3.1e-22
                   *->lllerLrkkLevElkireGaEkllRltsdekLlllkketkevkrkak
                      ++l++L+ +Le+Elk+++G+E++lR ++d++           k++++
     F46F6.2   159    SKLVILQLELEKELKVKRGLEQFLRGAPDKS-----------KVHGD 194

                   seaeeklvESnqklelLkqsLerLeelhqdsdpegesdte<-*
                   s++++++  S++k+++L++++erL++++++++ e+++++e
     F46F6.2   195 SQSLLDD--SRAKIAMLRMQIERLSQEAPAVEGEPKTKVE    232

pkinase: domain 1 of 1, from 684 to 943: score 247.2, E = 2.2e-70
                   *->yelleklGeGsfGkVykakhkdktgkiVAvKilkk....ekesikek
                      ++l+ +lG+G+fGkV + +h  +t   +A+K+lkk++  ++ ++++
     F46F6.2   684    FRLISVLGRGHFGKVILSQHN-PTSNYYALKVLKKgdilGRDEVES- 728

                   rflrEiqilkrLs...HpNIvrligvfedtddhlylvmEymegGdLfdyl
                    +  E +i    s+ +Hp++v+l g f+ t++h+ ++mEy +gGdL++++
     F46F6.2   729 -LMVEKRIFEVSSrarHPFLVNLNGCFQ-TNEHVFFCMEYSMGGDLMRHI 776

                   rrnggplsekeakkialQilrGleYLHsngivHRDLKpeNILldendgtv
                   ++    ++e   +++a  ++ Gl++LH ++i++RD+K +N+Lld++ g v
     F46F6.2   777 HDDV--FDEVRGCFYAACVVLGLDFLHKHNIIYRDIKLDNLLLDRE-GYV 823

                   KiaDFGLArlle.sssklttfvGTpwYmmAPEvilegrgysskvDvWSlG
                   KiaDFGL+++  ++  k++tf+GTp++  APEv l+++ y++++D+W lG
     F46F6.2   824 KIADFGLCKENMgPFDKTSTFCGTPEFL-APEV-LSDSSYTRAIDWWGLG 871

                   viLyElltggplfpgadlpaftggdevdqliifvlklPfsdelpktridp
                   v+++E+l g                          ++Pfs+       d
     F46F6.2   872 VLIFEMLVG--------------------------EPPFSG-------DD 888

                   leelfriikrpglrlplpsncSeelkdLlkkcLnkDPskRpG..satake
                    ee+f+ i    +  + p+++S e + +++++L+k P+kR+G + + a++
     F46F6.2   889 EEEIFDSIIS--EDVRYPRYLSVESIAIMRRLLRKVPEKRLGygERDAED 936

                   ilnhpwf<-*
                   i+   +f
     F46F6.2   937 IKIQRFF    943

pkinase_C: domain 1 of 1, from 944 to 1008: score 53.5, E = 3.3e-15
                   *->reId..WdkLEnkeiePPFKPkiksprDtsNFDkeFTrekPvLTPvD
                      r+I+ +WdkL+n+ei PPF+P+i +p+D+sNFD eFT ek + + +
     F46F6.2   944    RHISweWDKLLNREIRPPFQPQIRNPEDVSNFDLEFTQEKARFSAAS 990

                   svl.irsiDQeeFrGFSY<-*
                   s+ +i++ DQ  F +F +
     F46F6.2   991 STRpITEADQRLFNNFDF    1008



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