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/ZC373.7
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Query: ZC373.7 CE02380 cuticular collagen status:Partially_confirmed TR:Q23263 protein_id:CAA88979.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
Col_cuticle_N Nematode cuticle collagen N-terminal do 91.5 8.5e-26 1
Collagen Collagen triple helix repeat (20 copies 83.8 1.5e-21 3
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
Col_cuticle_N 1/1 15 76 .. 1 66 [] 91.5 8.5e-26
Collagen 1/3 104 129 .. 35 60 .] 16.4 0.0051
Collagen 2/3 155 214 .. 1 60 [] 44.6 9e-11
Collagen 3/3 217 276 .. 1 60 [] 38.9 3.3e-09
Alignments of top-scoring domains:
Col_cuticle_N: domain 1 of 1, from 15 to 76: score 91.5, E = 8.5e-26
*->SgvAvlacLftvpsiyndInsfqdevmdemdeFKvyaddaWneMvdv
S++A++acL++vps+y +I++++ ev+d+++ F+v++d aW+eM+d+
ZC373.7 15 STLAIVACLVVVPSLYATIDEIHAEVLDGVNVFRVETDSAWTEMMDI 61
qrnvrppskpasarfgrpf<-*
q+ v+pp+kp +++pf
ZC373.7 62 QILVTPPTKP----RVNPF 76
Collagen: domain 1 of 3, from 104 to 129: score 16.4, E = 0.0051
*->epGpPGppGppGppGppGapGapGpp<-*
+pGpPGppGp+G+pG pGapG++G+
ZC373.7 104 PPGPPGPPGPAGQPGTPGAPGPKGQD 129
Collagen: domain 2 of 3, from 155 to 214: score 44.6, E = 9e-11
*->GppGppGppGppGppGppGppGpaGapGppGppGepGpPGppGppGp
Gp+G++Gp+Gp Gp+G+pG+pG aG pG pG pG +G G+pG++G
ZC373.7 155 GPAGSAGPAGPKGPDGRPGQPGSAGHPGAPGQPGSKGNNGAPGAAGG 201
pGppGapGapGpp<-*
pG+pG+pG G++
ZC373.7 202 PGQPGRPGKDGQR 214
Collagen: domain 3 of 3, from 217 to 276: score 38.9, E = 3.3e-09
*->GppGppGppGppGppGppGppGpaGapGppGppGepGpPGppGppGp
G +G pG+pG +Gp+Gp+G pG++G++G pGp+G++G PG pG G+
ZC373.7 217 GSAGAPGAPGKAGPAGPAGGPGNNGSAGTPGPAGPAGNPGTPGNKGS 263
pGppGapGapGpp<-*
G pG pGapG p
ZC373.7 264 DGHPGTPGAPGGP 276