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/K01G5.5
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Query: K01G5.5 CE16195 centromere\/microtubule binding protein status:Partially_confirmed SW:O17919 protein_id:CAB07244.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
TruB_N TruB family pseudouridylate synthase (N term 260.0 3.2e-74 1
PUA PUA domain 97.5 2.5e-25 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
TruB_N 1/1 95 235 .. 1 157 [] 260.0 3.2e-74
PUA 1/1 283 358 .. 1 80 [] 97.5 2.5e-25
Alignments of top-scoring domains:
TruB_N: domain 1 of 1, from 95 to 235: score 260.0, E = 3.2e-74
*->akvKriLnteKvGHgGTLDPlAtGVLpicigrATKllqyLlgapKeY
+++KriL++eK+GH+GTLDP+++G+L++ci+r T+l+++++ga+KeY
K01G5.5 95 SWIKRILRCEKTGHSGTLDPKVSGCLIVCIDRTTRLAKSQQGAGKEY 141
valirLGqsTdteDaeGevvetkpvilnkedikevLeeFrGeIeQvPPly
++++L++++++ ++++k++Le+++G+++Q+PPl+
K01G5.5 142 ICIFKLHEEVED----------------DRKVKQALEKLTGALFQRPPLI 175
SAvKvqGkrlyeYAreGievereaRkvtiydlelaGtyirrlcneiglel
SAvK+q++++++Y+ ++ie++ +++++++++++++Gty+r++c+++gl l
K01G5.5 176 SAVKRQLRIRTVYENKFIEYDPAQQMGIFNCICESGTYVRTICVHLGLIL 225
gvgcskgtyi<-*
g+g ++++++
K01G5.5 226 GCGGQMQELR 235
PUA: domain 1 of 1, from 283 to 358: score 97.5, E = 2.5e-25
*->glirvdvgavaadfiknGasLlapGvvevdgnIkegdeVvivtekpe
++rv+v+++ +++i++Ga++l pG++++d++I+ g e+vi+++
K01G5.5 283 QHKRVVVKDSCINAICYGAKILIPGILRYDDDIEVGKEIVIMST--- 326
GkgelvgvGiAnmsseEmkeikkGkavkvrrvl<-*
kge+++++iA+m++++++++++G+++k +rv+
K01G5.5 327 -KGEAICIAIAQMNTSTIASVDHGVVAKSKRVI 358