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/Y11D7A.11
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Query: Y11D7A.11 CE20194 status:Partially_confirmed TR:Q9XWR2 protein_id:CAA21586.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
Collagen Collagen triple helix repeat (20 copies 90.1 2.8e-23 3
Col_cuticle_N Nematode cuticle collagen N-terminal do 11.1 0.068 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
Col_cuticle_N 1/1 26 58 .. 1 33 [. 11.1 0.068
Collagen 1/3 124 153 .. 31 60 .] 16.2 0.0056
Collagen 2/3 172 231 .. 1 60 [] 35.7 2.6e-08
Collagen 3/3 242 301 .. 1 60 [] 53.9 2.5e-13
Alignments of top-scoring domains:
Col_cuticle_N: domain 1 of 1, from 26 to 58: score 11.1, E = 0.068
*->SgvAvlacLftvpsiyndInsfqdevmdemdeF<-*
S+++ + c++ +p +y++++ +q+ v+ +++++
Y11D7A.11 26 SAASGIMCIILIPGLYTYLQYIQSSVQTDVGFC 58
Collagen: domain 1 of 3, from 124 to 153: score 16.2, E = 0.0056
*->GppGepGpPGppGppGppGppGapGapGpp<-*
G +G++G+PG pG++G Gp+G+pG G+
Y11D7A.11 124 GLAGPAGFPGRPGRDGIDGPAGKPGRDGQD 153
Collagen: domain 2 of 3, from 172 to 231: score 35.7, E = 2.6e-08
*->GppGppGppGppGppGppGppGpaGapGppGppGepGpPGppGppGp
GppGppG pGp+G G+pG G +G G G pGe G+ Gp G++G
Y11D7A.11 172 GPPGPPGNPGPQGNSGRPGMDGMPGRNGRCGRPGEQGERGPNGEDGR 218
pGppGapGapGpp<-*
pG +G +G pG +
Y11D7A.11 219 PGRRGDDGMPGTV 231
Collagen: domain 3 of 3, from 242 to 301: score 53.9, E = 2.5e-13
*->GppGppGppGppGppGppGppGpaGapGppGppGepGpPGppGppGp
G +G pG+ G +Gp+G+ G pG++G++GppG++G++G+PG pG++G
Y11D7A.11 242 GLRGAPGATGSQGPRGNDGRPGNKGPAGPPGDQGFDGAPGGPGADGE 288
pGppGapGapGpp<-*
pG +G+ Ga+G++
Y11D7A.11 289 PGAQGPLGAKGEC 301