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: hmm4/seq/R13F6.6
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Query: R13F6.6 CE31722 locus:zak-1 status:Partially_confirmed TR:Q21982 protein_id:AAC47047.4
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
pkinase Protein kinase domain 65.5 4.5e-17 1
SAM SAM domain (Sterile alpha motif) 11.2 0.12 1
Cauli_DNA-bind Caulimovirus DNA-binding protein 3.0 7.5 1
CPSase_L_D3 Carbamoyl-phosphate synthetase large c 2.6 2.2 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
pkinase 1/1 2 81 .. 172 288 .. 65.5 4.5e-17
Cauli_DNA-bind 1/1 78 98 .. 1 21 [. 3.0 7.5
SAM 1/1 170 207 .. 30 68 .] 11.2 0.12
CPSase_L_D3 1/1 439 449 .. 1 11 [. 2.6 2.2
Alignments of top-scoring domains:
pkinase: domain 1 of 1, from 2 to 81: score 65.5, E = 4.5e-17
*->vilegrgysskvDvWSlGviLyElltggplfpgadlpaftggdevdq
+ l++ g +++ DvWS+Gv+L+E+l++
R13F6.6 2 I-LQSEGLTTATDVWSYGVVLWEILSK-------------------- 27
liifvlklPfsdelpktridpleelfriikrpglrlplpsncSeelkdLl
+ P++d + ++ i++ g +l +p++c+ +lk+L+
R13F6.6 28 ------EVPYKD------YSEFRIFTMITQS-GITLAIPPSCPAPLKQLM 64
kkcLnkDPskRpGsatakei<-*
+ c+++ P++R ++++i
R13F6.6 65 SNCWKMTPKDRA---NMRQI 81
Cauli_DNA-bind: domain 1 of 1, from 78 to 98: score 3.0, E = 7.5
*->LaailsEieevlsdqkkikae<-*
+ +i+ E + +qkk+ +
R13F6.6 78 MRQIQGELNRLAGNQKKMRKD 98
SAM: domain 1 of 1, from 170 to 207: score 11.2, E = 0.12
*->nsidgvalltlteeDLkdiGgvtllGHrkkIlssIqgLk<-*
n i g ll +t++DL+ +G v ++G r +++ I++L
R13F6.6 170 NRITGARLLGMTQNDLEHLG-VHKVGSRIELMKMIRKLA 207
CPSase_L_D3: domain 1 of 1, from 439 to 449: score 2.6, E = 2.2
*->lreeLrtPtdd<-*
l+e+LrtP++d
R13F6.6 439 LQEQLRTPSPD 449