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/K04A8.6
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Query: K04A8.6 CE27388 status:Partially_confirmed TR:Q94251 protein_id:AAC48052.3
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
F-box F-box domain 48.9 2.5e-11 1
zf-UBR1 Putative zinc finger in N-recognin 36.6 5.6e-08 1
Rhabdo_glycop Rhabdovirus spike glycoprotein 4.5 1.1 1
Nairo_nucleocap Nucleocapsid N protein 0.8 5.9 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
F-box 1/1 160 207 .. 1 46 [] 48.9 2.5e-11
Rhabdo_glycop 1/1 269 300 .. 457 489 .. 4.5 1.1
Nairo_nucleocap 1/1 526 533 .. 1 8 [. 0.8 5.9
zf-UBR1 1/1 859 913 .. 16 80 .] 36.6 5.6e-08
Alignments of top-scoring domains:
F-box: domain 1 of 1, from 160 to 207: score 48.9, E = 2.5e-11
*->fslldLPdellleIlsrLdpkdllrlslVSkrwrslvdsl.lwf.kl
+++ +LP+elll+++s+L+ k+ll++s+VS r++++++s+++w++ +
K04A8.6 160 DHINRLPEELLLKVFSFLPDKSLLACSSVSYRFNQISNSHeVWKeLY 206
l<-*
+
K04A8.6 207 C 207
Rhabdo_glycop: domain 1 of 1, from 269 to 300: score 4.5, E = 1.1
*->sikdaenteDdDDtEEvffdnhigvsknpvdlv<-*
+i++a++++ +D+ E ++++h+gv ++p+d +
K04A8.6 269 QIEKAQSFLEEDEYREKLIFLHTGV-HEPIDTI 300
Nairo_nucleocap: domain 1 of 1, from 526 to 533: score 0.8, E = 5.9
*->MENkIkan<-*
MEN+I an
K04A8.6 526 MENRIYAN 533
zf-UBR1: domain 1 of 1, from 859 to 913: score 36.6, E = 5.6e-08
*->nlYrCkTCaldpetcvlCedCFrsscHkgHdvlvslktsrgsEGgiC
n YrC TC+++ +++C++C r +cH gH+ v+l + + ++C
K04A8.6 859 NFYRCTTCNTTE-RNAICTNCIR-TCHRGHS--VELVRFDR---FFC 898
DCGdkeAwnedlkCknhe<-*
DCG+ + + +C + +
K04A8.6 899 DCGAG---TLERHCHLQN 913