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/F56C9.3
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Query: F56C9.3 CE29406 status:Partially_confirmed TR:Q20864 protein_id:AAK18959.2
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
Cation_efflux Cation efflux family 231.8 9.7e-66 1
GatB_Yqey GatB/Yqey domain 4.0 7.4 1
Na_Ca_Ex Sodium/calcium exchanger protein 3.9 9.7 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
Na_Ca_Ex 1/1 328 342 .. 146 160 .] 3.9 9.7
GatB_Yqey 1/1 350 369 .. 134 152 .] 4.0 7.4
Cation_efflux 1/1 137 438 .. 1 303 [] 231.8 9.7e-66
Alignments of top-scoring domains:
Na_Ca_Ex: domain 1 of 1, from 328 to 342: score 3.9, E = 9.7
*->glvLlllYivylvfl<-*
g++L+++Yi+y++++
F56C9.3 328 GAILVSVYILYTWIR 342
GatB_Yqey: domain 1 of 1, from 350 to 369: score 4.0, E = 7.4
*->ktrGk.AdPklVneilkekL<-*
++ Gk+A+P+l+n+i+++ +
F56C9.3 350 MLSGKsAHPELINRIVHQCI 369
Cation_efflux: domain 1 of 1, from 137 to 438: score 231.8, E = 9.7e-66
*->lwislalnlllavvKfiaGllsgSlALlaDavHslsDvaasliaLla
+ i+l++nl+l+++K++a +lsgS++++++ v+s++D+++ +++ ++
F56C9.3 137 AHITLFVNLVLMLAKIFASYLSGSMSIISSMVDSVVDLTSGAVLSIS 183
lriarkPaDrrhpfGhgRaEiLaalinavllfvvglggfilyeaierlls
r+ rk +++p G R+E+L+ ++ +v++ ++++ ++++++++r+ +
F56C9.3 184 SRMIRKRDPYQYPRGRTRVEPLSLILISVIMGMASV--QLIISSVRRIHD 231
PyeieedsShgdahepvdpglialivalis.lvvnlllalyllrggkktn
+ ++ +p++ + + +i++++s+++v+l+l+++ + k+
F56C9.3 232 A---A----VYGIKDPINVS-WPTIAIMGStIAVKLTLFIICQKY-KSNS 272
sgnpalraaalHvlsDlLgSlgvlvgalliyftgngl.............
s +++++l++++D++++ +l++a+l+ + ++++++++ +
F56C9.3 273 S----IKVLSLDHRNDCISNSMALACAWLAFYYT--Vkdgdeksgavvfe 316
...eWpwaDPiaallIsllIlktafrllkesvniLldgvppeedle.kir
++ +++++DP++a+l+s++Il+t++r+++ + +L + ++ +e+++++++
F56C9.3 317 kqfDLYYLDPAGAILVSVYILYTWIRTGYAHFVMLSGKSAHPELINrIVH 366
eiilsipgVkgvhdlrtwsiGpgefvlsvHievdpdlsleeaheiadeie
+ i+++p++ +++ + ++++G++ v+ vHi++d+++sl+ +h+ia++++
F56C9.3 367 QCIEHDPRITHIDTVYVYHYGTKFLVE-VHIVLDQNMSLKVTHDIAESLQ 415
erlleefpeiehvtihvepeglee<-*
++++++ ie++++h ++e++++
F56C9.3 416 TGIESLPE-IERAFVHCDYEFEHH 438