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/C02B8.6
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: C02B8.6 CE29656 DNA repair protein RAD16 (yeast, weak) status:Partially_confirmed SW:Q11096 protein_id:AAA81439.2
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
WWE WWE domain 104.1 1.2e-28 1
zf-C3HC4 Zinc finger, C3HC4 type (RING finger) 25.1 4.9e-08 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
zf-C3HC4 1/1 5 43 .. 1 50 [] 25.1 4.9e-08
WWE 1/1 244 321 .. 1 88 [] 104.1 1.2e-28
Alignments of top-scoring domains:
zf-C3HC4: domain 1 of 1, from 5 to 43: score 25.1, E = 4.9e-08
*->CrICleelkepsndfplilpCgHsGslkyfCrsClerWls..gnttv
C IC++++ p+ l C+H fC+ C++ +++++ +
C02B8.6 5 CTICHNTPNRPV-----RLDCNHE-----FCYICIKGSIQndM-LN- 39
kCplC<-*
C +C
C02B8.6 40 -CAVC 43
WWE: domain 1 of 1, from 244 to 321: score 104.1, E = 1.2e-28
*->slappstvagekvvvWeyerSkddnggWwpYdprvsrdIEnAyaagk
+++++++va+ ++++W y+ ++++gWw++d+r+++dIE+++ a+k
C02B8.6 244 NVQANFNVAR-VKFFWLYS---SRGDGWWRFDQRCEKDIEDEFLANK 286
kfgsvtldqvsicgrhYtidfetmtqyrqetgssttRpVrR<-*
+ +++ ++ +g++Y++df +m+q+++++ +++R+++R
C02B8.6 287 P----NME-MYLFGKPYILDFVAMRQWQKGNL-DAWRQIKR 321