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: hmm1/seq/B0399.1b
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: B0399.1b CE31870 status:Partially_confirmed
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
CaMBD Calmodulin binding domain 175.2 2.9e-50 1
SK_channel Calcium-activated SK potassium channel 62.5 2.8e-18 1
ion_trans Ion transport protein 15.0 0.0072 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
SK_channel 1/1 215 329 .. 1 111 [. 62.5 2.8e-18
ion_trans 1/1 392 495 .. 104 228 .] 15.0 0.0072
CaMBD 1/1 514 590 .. 1 82 [] 175.2 2.9e-50
Alignments of top-scoring domains:
SK_channel: domain 1 of 1, from 215 to 329: score 62.5, E = 2.8e-18
*->kLGHRRALFEKRKRLsDYALiFGmFGivvmviEtEL.....sWGlYs
+ R+ LF +R ++ D L + G+ ++i+ EL+ ++s G+ +
B0399.1b 215 RCRLRKQLFIRRNKVCDISLFLAVLGLLLVIIDSELtalssSTGI-T 260
KeslyslALKCLisLstiiLLGLvvlYHaREvqLFvvDnGADDWRiAmty
K+s s+ L+ +st L+ ++ YHa Ev++ ++D GADDWR+A
B0399.1b 261 KDSPISIILRSACVVSTFFLICCLINYHAIEVKIALIDSGADDWRVAFST 310
ERvllisLEllvCAiHPvP<-*
+R + + +E+ vC i P P
B0399.1b 311 DRFIKMLIEVCVCMICPFP 329
ion_trans: domain 1 of 1, from 392 to 495: score 15.0, E = 0.0072
*->llrrapglfefelrtlGWklqslgrslkslfnlllllllllfifaii
+l+r+ + ++ ++ +++ +l l++++l +++ +++
B0399.1b 392 ALNRISM-----DFRF---VIKTMMADHPLRVLIVFTLSYWMCMSWM 430
gvqlfggelnkccnpingntnFdnfgeaflwlFqtlTteGwgdimpdtla
+ q + ++ + +++++++ ++t ++G+gdi+p+
B0399.1b 431 FTQCERYD--------GQLEVEHYYLNSMWFIMVTFMSIGYGDIVPN--- 469
gtvlgkiyfvifiilggflllNlfiavi<-*
t g + ++ i+g+ + + +ia+i
B0399.1b 470 -TYCGRCLSITTGIVGA-GVSSALIAII 495
CaMBD: domain 1 of 1, from 514 to 590: score 175.2, E = 2.9e-50
*->DtqLTkelKnAAAnVLqETWRtVLlIyKhtklvskgdqgRlRkHQRK
D++LT+++KnAAA+VLqETW +I+K++k+++kgd+ RlR+HQR+
B0399.1b 514 DSKLTNQRKNAAASVLQETW----FIHKYKKALHKGDDLRLRHHQRR 556
FLkAIhakfRkVkwdqRklsEnaNslvDvaKtqsv<-*
FL++I+ fR++kwdqRkl+E++Nsl+Dv+K++s+
B0399.1b 557 FLHSINE-FRRIKWDQRKLQEKGNSLLDVGKLHSD 590