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/Y73B6BL.33
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Query: Y73B6BL.33 CE30324 status:Confirmed TN:AAM44389 protein_id:AAM44389.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
rrm RNA recognition motif. (a.k.a. RRM, RBD, or 118.1 2.6e-33 3
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
rrm 1/3 66 133 .. 1 77 [] 48.7 7.1e-13
rrm 2/3 159 231 .. 1 77 [] 40.9 1.4e-10
rrm 3/3 327 395 .. 1 77 [] 28.2 7.6e-07
Alignments of top-scoring domains:
rrm: domain 1 of 3, from 66 to 133: score 48.7, E = 7.1e-13
*->lfVgNLppdvteedLkdlFskfGpivsikivkDhiekpketgkskGf
+ ++Lp+++te+d+ ++F+ i+++k v tg+++G
Y73B6BL.33 66 IRLRGLPFNATEKDIHEFFAGL-TIERVKFVC-------TTGRPNGE 104
aFVeFeseedAekAlealnGkelggrklrv<-*
a+VeF++ e+A kA+e + ke+ +r ++v
Y73B6BL.33 105 AYVEFKNTEEAGKAME-NDRKEISNRYIEV 133
rrm: domain 2 of 3, from 159 to 231: score 40.9, E = 1.4e-10
*->lfVgNLppdvteedLkdlFskfGpivsikivkDhiekpketgkskGf
+ ++ p+++ e+d++++F+ p ++iv+ ++ ++ G
Y73B6BL.33 159 IRLRGVPWSCKEDDVRKFFEGLEPP-PAEIVIG--GTGGPRSRPSGE 202
aFVeFeseedAekAlealnGkelggrklrv<-*
aFV+F+++++AekA++ +n++ g+r ++v
Y73B6BL.33 203 AFVRFTTQDAAEKAMD-YNNRHMGSRYVEV 231
rrm: domain 3 of 3, from 327 to 395: score 28.2, E = 7.6e-07
*->lfVgNLppdvteedLkdlFskfGpivsikivkDhiekpketgkskGf
+++++Lp+d++++ + ++Fs+ + s+ki ++ etg++ G
Y73B6BL.33 327 VYMRGLPYDADDHAIAAFFSPL-RCHSVKIGIN------ETGRPSGD 366
aFVeFeseedAekAlealnGkelggrklrv<-*
a eF+++ d + Al+ n++ g r ++
Y73B6BL.33 367 AIAEFDNYNDLQVALS-RNNQRMGRRYVEL 395