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/K07A1.12
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Query: K07A1.12 CE16234 locus:lin-53 chromatin assembly factor 1 P55 subunit like status:Confirmed SW:P90916 protein_id:CAB03178.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
WD40 WD domain, G-beta repeat 153.7 3.2e-42 5
Herpes_VP19C Herpesvirus capsid shell protein VP19C 5.3 3.3 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
WD40 1/5 162 201 .. 1 39 [] 32.7 1.7e-07
WD40 2/5 212 251 .. 1 39 [] 29.2 1.7e-06
WD40 3/5 255 294 .. 1 39 [] 38.4 4.1e-09
WD40 4/5 299 338 .. 1 39 [] 34.1 6.9e-08
Herpes_VP19C 1/1 368 383 .. 377 391 .] 5.3 3.3
WD40 5/5 356 395 .. 1 39 [] 28.9 2.1e-06
Alignments of top-scoring domains:
WD40: domain 1 of 5, from 162 to 201: score 32.7, E = 1.7e-07
*->geclatl.gHtspvtcvafspdsgpylasgSrDgtiklWd<-*
++l l+gHt+ + ++++p+ +++s+S+D t++ Wd
K07A1.12 162 FNPLIRLkGHTKEGYGLSWNPNKEGLILSASDDQTVCHWD 201
WD40: domain 2 of 5, from 212 to 251: score 29.2, E = 1.7e-06
*->geclatl.gHtspvtcvafspdsgpylasgSrDgtiklWd<-*
+ + +++gH+s v++va++ + ++ s ++D+++ +Wd
K07A1.12 212 LQAKDVFkGHESVVEDVAWHVLHDGVFGSVGDDKKLLIWD 251
WD40: domain 3 of 5, from 255 to 294: score 38.4, E = 4.1e-09
*->geclatl.gHtspvtcvafspdsgpylasgSrDgtiklWd<-*
++ + +++H++ v+c+af+p s +la+gS+D+t+ lWd
K07A1.12 255 STPGHCIdAHSAEVNCLAFNPYSEFILATGSADKTVALWD 294
WD40: domain 4 of 5, from 299 to 338: score 34.1, E = 6.9e-08
*->geclatl.gHtspvtcvafspdsgpylasgSrDgtiklWd<-*
+ l++++ H + + v +sp++ ++las++ D+ +++Wd
K07A1.12 299 RMKLHSFeSHRDEIFQVQWSPHNETILASSGTDKRLHVWD 338
Herpes_VP19C: domain 1 of 1, from 368 to 383: score 5.3, E = 3.3
*->elenFvwdp.GpWtef<-*
++++F w+p+ pW+++
K07A1.12 368 KISDFSWNPnEPWVVC 383
WD40: domain 5 of 5, from 356 to 395: score 28.9, E = 2.1e-06
*->geclatl.gHtspvtcvafspdsgpylasgSrDgtiklWd<-*
e+l +++gHt+ +++ +++p+++ +++s S+D+ + +W
K07A1.12 356 PELLFIHgGHTAKISDFSWNPNEPWVVCSVSEDNILQVWQ 395