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: hmm1/seq/C36B1.1a
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Query: C36B1.1a CE29705 locus:cle-1 cle-1 isoform A status:Partially_confirmed TR:Q9U9K7 protein_id:CAD21701.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
fn3 Fibronectin type III domain 78.7 3e-21 2
Collagen Collagen triple helix repeat (20 copies 63.5 5.6e-16 3
TSPN Thrombospondin N-terminal -like domain 7.3 0.53 1
FA_desaturase Fatty acid desaturase 3.2 5.5 1
DUF250 Domain of unknown function, DUF250 2.8 8.3 1
MGAT2 N-acetylglucosaminyltransferase II (MGA -0.1 5.4 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
FA_desaturase 1/1 7 29 .. 1 26 [. 3.2 5.5
fn3 1/2 33 111 .. 1 84 [] 56.7 6.3e-15
DUF250 1/1 163 179 .. 1 17 [. 2.8 8.3
fn3 2/2 187 227 .. 46 84 .] 23.3 2.9e-05
TSPN 1/1 422 453 .. 54 89 .. 7.3 0.53
MGAT2 1/1 477 496 .. 1 21 [. -0.1 5.4
Collagen 1/3 649 708 .. 1 60 [] 48.0 1.1e-11
Collagen 2/3 717 756 .. 1 40 [. 28.0 3.4e-06
Collagen 3/3 802 820 .. 42 60 .] 2.5 33
Alignments of top-scoring domains:
FA_desaturase: domain 1 of 1, from 7 to 29: score 3.2, E = 5.5
*->awllggtaltglfvtsGLGiTaggHd<-*
++ll ++++++lf+ G+Ta+ H+
C36B1.1a 7 QYLLFLLFICSLFN---SGSTALQHE 29
fn3: domain 1 of 2, from 33 to 111: score 56.7, E = 6.3e-15
*->PsaPtnltvtdvtstsltlsWsppt.gngpitgYevtyRqpknggew
P aP+n++++ +sts+tl W++p+++ i gY+v+y + + +
C36B1.1a 33 PNAPQNVRIKT-QSTSATLWWDAPPdPTVLIRGYTVEY-GEG-SISQ 76
neltvpgtttsytltgLkPgteYevrVqAvnggGGpeS<-*
+ l+ +++ts+t+t L P+t+Y++ V A+n++ e
C36B1.1a 77 RILIEGPDSTSFTVTRLSPNTNYVFAVSAYNEA---EG 111
DUF250: domain 1 of 1, from 163 to 179: score 2.8, E = 8.3
*->nsssdkssnetkkkYvi<-*
+sss++s + t k+Yvi
C36B1.1a 163 ESSSENSIDSTQKQYVI 179
fn3: domain 2 of 2, from 187 to 227: score 23.3, E = 2.9e-05
*->wneltvpgtttsytltgLkPgteYevrVqAvnggG..GpeS<-*
++++ v +++ + ltgL Pg eYev V+ v g+G+++p+S
C36B1.1a 187 DTQQKVRSNAKAVRLTGLIPGKEYEVAVKVVAGDGreSPWS 227
TSPN: domain 1 of 1, from 422 to 453: score 7.3, E = 0.53
*->ptrrlfPAsglpedFsllttfrqapeTpksrgvLfa<-*
p r+ P + +++ Fsll+t +++ k++g+Lfa
C36B1.1a 422 PYRLYLP-RNFFKQFSLLATIKPMD---KRGGYLFA 453
MGAT2: domain 1 of 1, from 477 to 496: score -0.1, E = 5.4
*->nltLkkReiVeslsFlNedfs<-*
n++L+ R++ +sFl edfs
C36B1.1a 477 NISLIVRSVAI-VSFLVEDFS 496
Collagen: domain 1 of 3, from 649 to 708: score 48.0, E = 1.1e-11
*->GppGppGppGppGppGppGppGpaGapGppGppGepGpPGppGppGp
G+pGp+Gp G G pG G+pG++G++G G+pG G+ G +G pGp
C36B1.1a 649 GEPGPQGPSGNDGIPGSHGAPGHQGERGADGAPGLHGSRGDQGLPGP 695
pGppGapGapGpp<-*
pG pG +G+pGpp
C36B1.1a 696 PGMPGLAGPPGPP 708
Collagen: domain 2 of 3, from 717 to 756: score 28.0, E = 3.4e-06
*->GppGppGppGppGppGppGppGpaGapGppGppGepGpPG<-*
G+ Gp+GppG+pG+pG+ G G G +Gp+GppG++G +G
C36B1.1a 717 GADGPQGPPGLPGAPGRDGTSGVEGQRGPQGPPGPKGDDG 756
Collagen: domain 3 of 3, from 802 to 820: score 2.5, E = 33
*->pGppGppGppGapGapGpp<-*
+G+ G +G pGapGap pp
C36B1.1a 802 KGEKGERGAPGAPGAPAPP 820