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/F56D12.5a
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Query: F56D12.5a CE11254 status:Confirmed TR:O16646 protein_id:AAB66119.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
HABP4_PAI-RBP1 Hyaluronan / mRNA binding family 210.0 7.1e-61 4
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
HABP4_PAI-RBP1 1/4 69 90 .. 1 31 [. -18.6 5.9e+04
HABP4_PAI-RBP1 2/4 107 134 .. 1 28 [. -13.2 5.9e+04
HABP4_PAI-RBP1 3/4 153 329 .. 1 198 [] 245.4 2.6e-71
HABP4_PAI-RBP1 4/4 339 360 .. 1 24 [. -14.8 5.9e+04
Alignments of top-scoring domains:
HABP4_PAI-RBP1: domain 1 of 4, from 69 to 90: score -18.6, E = 5.9e+04
*->GRrrGggnlGgGpsgeggdGedeRgkReFDR<-*
GR+rG g+ g+g++G +R+ R+ +R
F56D12.5a 69 GRGRG-GR------GRGRGGA-GRP-RDGER 90
HABP4_PAI-RBP1: domain 2 of 4, from 107 to 134: score -13.2, E = 5.9e+04
*->GRrrGggnlGgGpsgeggdGedeRgkRe<-*
G+rrGg+++ p g+gg+G R +Re
F56D12.5a 107 GPRRGGERGAARPAGRGGRGGFTRENRE 134
HABP4_PAI-RBP1: domain 3 of 4, from 153 to 329: score 245.4, E = 2.6e-71
*->GRrrGggnlGgGpsgeggdGedeRgkReFDRqSGsdRhYsTGvksed
+RrrGg++lGgGpsg++g+G+++Rg R+FDRqSGsdR TGv+s+d
F56D12.5a 153 PRRRGGFTLGGGPSGGRGGGRGGRG-RQFDRQSGSDR---TGVRSFD 195
KRdGaGrgNWGtpkDLvdsliyeiaqetEevapeeeknvtaEkpggeEea
K+dG+G+gNWG++kD e+a+etE++ape+++++++E+p
F56D12.5a 196 KKDGHGKGNWGDQKD-------ELAGETENIAPEGAESTEPEVP------ 232
adankEgtakeaEekeeeEpEaKEMTLdEykalqeekrkallalKageer
+E+ta+e ++++e+++ aK++TL+E+ka++++++++++++Kage++
F56D12.5a 233 ----REKTAEELAYEAELAVLAKQKTLKEFKAAAKADAPKFNTRKAGEGA 278
kvddgkevkamqllkkKkeddevfiklgsdkdkrKealdkeekakkq...
++++gk v++++++++++e+dev++ ++k++rK++ld+++++++++++
F56D12.5a 279 ADTFGKLVPIKKEVIPDREEDEVVV---IHKAPRKQVLDISITFRNDrpe 325
lsiN<-*
+++N
F56D12.5a 326 RERN 329
HABP4_PAI-RBP1: domain 4 of 4, from 339 to 360: score -14.8, E = 5.9e+04
*->GRrrGggnlGgGpsgeggdGedeR<-*
G+ rGgg+ GgG++g + +G ++R
F56D12.5a 339 GP-RGGGR-GGGRGGQRQGGHGGR 360