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: hmm2/seq/F22D6.10
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Query: F22D6.10 CE05691 collagen status:Partially_confirmed TR:Q19725 protein_id:CAA95812.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
Collagen Collagen triple helix repeat (20 copies 95.4 9.8e-25 3
Col_cuticle_N Nematode cuticle collagen N-terminal do 70.8 1.2e-19 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
Col_cuticle_N 1/1 15 79 .. 1 66 [] 70.8 1.2e-19
Collagen 1/3 96 124 .. 32 60 .] 15.6 0.0083
Collagen 2/3 143 202 .. 1 60 [] 49.6 3.8e-12
Collagen 3/3 208 267 .. 1 60 [] 46.0 3.8e-11
Alignments of top-scoring domains:
Col_cuticle_N: domain 1 of 1, from 15 to 79: score 70.8, E = 1.2e-19
*->SgvAvlacLftvpsiyndInsfqdevmdemdeFKvyaddaWneMvdv
S+vA+la+L+++ ++ynd+ +f++ev++e++ FK++ +daW M+++
F22D6.10 15 SSVAILAALLFTTFMYNDLYDFHSEVEEELYGFKDIYNDAWFLMTKT 61
qrnvrppskpasarfgrpf<-*
+++ ++++ s+ ++r f
F22D6.10 62 ASTKFSSTES-SSEMDRIF 79
Collagen: domain 1 of 3, from 96 to 124: score 15.6, E = 0.0083
*->ppGepGpPGppGppGppGppGapGapGpp<-*
p+G+pGpPG pG++G G++G++G G
F22D6.10 96 PRGPPGPPGEPGENGTDGQAGQDGQDGNT 124
Collagen: domain 2 of 3, from 143 to 202: score 49.6, E = 3.8e-12
*->GppGppGppGppGppGppGppGpaGapGppGppGepGpPGppGppGp
GppG++Gp G+pG++G+ G+pG +G G+ Gp G++G+PG +G++G
F22D6.10 143 GPPGEQGPDGAPGEAGRDGQPGSDGQSGNEGPTGPRGSPGNKGRDGN 189
pGppGapGapGpp<-*
pG +G pG pG
F22D6.10 190 PGRDGSPGRPGRD 202
Collagen: domain 3 of 3, from 208 to 267: score 46.0, E = 3.8e-11
*->GppGppGppGppGppGppGppGpaGapGppGppGepGpPGppGppGp
G pG+pG pG +Gp Gp+G+pG+ G pG+ G++G++G+PG +G+ Gp
F22D6.10 208 GQPGSPGQPGSRGPEGPRGQPGNMGRPGEYGDAGPAGQPGNDGEQGP 254
pGppGapGapGpp<-*
G G pG+pG p
F22D6.10 255 DGVVGIPGEPGLP 267