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



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