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/Y41E3.10
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Query: Y41E3.10 CE18378 Elongation factor 1 (beta\/delta chain) status:Partially_confirmed TR:Q9U2H9 protein_id:CAB63360.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
EF1BD EF-1 guanine nucleotide exchange domain 165.7 6.5e-47 1
bZIP bZIP transcription factor 4.9 7.2 1
DNA_topoisoIV DNA gyrase/topoisomerase IV, subunit A 3.3 1.7 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
bZIP 1/1 101 131 .. 35 65 .] 4.9 7.2
DNA_topoisoIV 1/1 98 133 .. 444 481 .. 3.3 1.7
EF1BD 1/1 198 285 .] 1 90 [] 165.7 6.5e-47
Alignments of top-scoring domains:
bZIP: domain 1 of 1, from 101 to 131: score 4.9, E = 7.2
*->veeLeaeNkaLrkelerLkkevakLksenee<-*
v +L +e +aL+k+++ L +va+L ++++
Y41E3.10 101 VSKLREEHSALAKKVDDLASLVAELQLQLST 131
DNA_topoisoIV: domain 1 of 1, from 98 to 133: score 3.3, E = 1.7
*->glErekLekEykeLeeeIaeLekiLasEseerllkiir<-*
g+++ kL++E++ L ++ ++L ++ a + +++l +r
Y41E3.10 98 GEDVSKLREEHSALAKKVDDLASLVA--ELQLQLSTLR 133
EF1BD: domain 1 of 1, from 198 to 285: score 165.7, E = 6.5e-47
*->kSsVlldiKpwPeDdEtDldeLeeavrsiqmeGlewgasklvPvAFG
kSsV+ld+Kpw DdEtDl e+e+ vrsi+m+Gl+wg+ kl+P+++G
Y41E3.10 198 KSSVILDVKPW--DDETDLGEMEKLVRSIEMDGLVWGGAKLIPIGYG 242
ikKLqimvvveDdevgtddleEeiee.iEnDyVqSvDIaafnKl<-*
ikKLqi+ v+eD +v++ddl+E+i++++E D+VqSvDI+afnK+
Y41E3.10 243 IKKLQIITVIEDLKVSVDDLIEKITGdFE-DHVQSVDIVAFNKI 285