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: hmm5/seq/Y6D1A.2
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Query: Y6D1A.2 CE21323 Zinc finger, C3HC4 type (RING finger) status:Partially_confirmed TR:Q9U1S9 protein_id:CAB60579.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
zf-C3HC4 Zinc finger, C3HC4 type (RING finger) 22.9 2.9e-07 1
Transposase_9 Transposase 4.3 6.8 1
Methionine_synt Methionine synthase, vitamin-B12 inde 1.9 7.1 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
Transposase_9 1/1 20 41 .. 65 86 .. 4.3 6.8
Methionine_synt 1/1 151 170 .. 144 166 .. 1.9 7.1
zf-C3HC4 1/1 183 226 .. 1 49 [. 22.9 2.9e-07
Alignments of top-scoring domains:
Transposase_9: domain 1 of 1, from 20 to 41: score 4.3, E = 6.8
*->LtrrredLvadrtrlaNRlrrl<-*
+t+rr+d+++ rt++++Rl+++
Y6D1A.2 20 ITARRSDRIGIRTKEIERLKAA 41
Methionine_synt: domain 1 of 1, from 151 to 170: score 1.9, E = 7.1
*->RgfYdDvdreeiamqiAlALRdE<-*
R Dv r++++ q+AlAL++E
Y6D1A.2 151 R---ADVQRKRALEQVALALKKE 170
zf-C3HC4: domain 1 of 1, from 183 to 226: score 22.9, E = 2.9e-07
*->CrICleelkepsndfplilpCgHsGslkyfCrsClerWls..gnttv
C IC e+++ ++++p +l CgH+ C++C++r +++++++
Y6D1A.2 183 CEICSREYEDTKERVPRVLDCGHT-----ICHECITRIHKptEPFK- 223
kCpl<-*
Cp+
Y6D1A.2 224 -CPF 226