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/ZK1248.2
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Query: ZK1248.2 CE02902 status:Partially_confirmed TR:Q23422 protein_id:AAC71083.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
Collagen Collagen triple helix repeat (20 copies) 87.0 2e-22 3
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
Collagen 1/3 90 124 .. 26 60 .] 18.5 0.0013
Collagen 2/3 136 194 .. 1 60 [] 30.5 7e-07
Collagen 3/3 203 262 .. 1 60 [] 52.4 6.3e-13
Alignments of top-scoring domains:
Collagen: domain 1 of 3, from 90 to 124: score 18.5, E = 0.0013
*->apGppGppGepGpPGppGppGppGppGapGapGpp<-*
++Gp+Gp+G+ G++G +G pG pG +G++ + ++
ZK1248.2 90 PAGPAGPKGAQGSDGIDGIPGVPGIDGQDADDAQA 124
Collagen: domain 2 of 3, from 136 to 194: score 30.5, E = 7e-07
*->GppGppGppGppGppGppGppGpaGapGppGppGepGpPGppGppGp
p Gp+Gp Gp+G pG +G G++G +pG G pG+PG+ Gp Gp
ZK1248.2 136 -PQGPQGPQGPQGKPGVRGMRGARGQGAMPGRDGTPGQPGSLGPVGP 181
pGppGapGapGpp<-*
Gp+G+pG++G+p
ZK1248.2 182 VGPQGEPGSEGEP 194
Collagen: domain 3 of 3, from 203 to 262: score 52.4, E = 6.3e-13
*->GppGppGppGppGppGppGppGpaGapGppGppGepGpPGppGppGp
G pGp G Gp+G+pG+ Gp+G+ Ga+G pG+pGe+Gp G +G +G
ZK1248.2 203 GLPGPKGISGPTGQPGDQGPQGDTGAQGIPGAPGERGPRGDKGDNGE 249
pGppGapGapGpp<-*
G +GapG++G+p
ZK1248.2 250 NGSAGAPGEEGEP 262