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/F33C8.1
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Query: F33C8.1 CE05796 perlecan like glycoprotein status:Partially_confirmed SW:Q19981 protein_id:CAA93653.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
PSI Plexin repeat 214.9 8.7e-70 5
Kelch Kelch motif 117.6 4.7e-32 6
CUB CUB domain 59.1 3.6e-16 1
laminin_EGF Laminin EGF-like (Domains III and V) 45.8 1.3e-11 5
Stap_Strp_toxin Staphylococcal/Streptococcal toxin, O 8.1 0.69 1
L71 L71 family 6.0 2.4 1
RgpF Rhamnan synthesis protein F 1.7 7 1
integrin_B Integrin, beta chain 0.6 5.9 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
laminin_EGF 1/5 79 94 .. 27 43 .. 2.1 44
CUB 1/1 94 200 .. 1 116 [] 59.1 3.6e-16
PSI 1/5 208 215 .. 1 9 [. 0.9 70
laminin_EGF 2/5 208 232 .. 2 41 .. -0.0 1.8e+02
Kelch 1/6 290 333 .. 1 41 [. 15.0 0.012
Stap_Strp_toxin 1/1 356 365 .. 85 94 .] 8.1 0.69
Kelch 2/6 342 388 .. 1 38 [. 24.9 1.8e-05
Kelch 3/6 404 450 .. 1 45 [] 14.0 0.023
Kelch 4/6 459 505 .. 1 45 [] 16.6 0.0043
Kelch 5/6 507 560 .. 1 45 [] 27.3 3.7e-06
Kelch 6/6 564 596 .. 1 33 [. 22.2 0.0001
PSI 2/5 663 709 .. 1 67 [] 49.2 6.9e-15
PSI 3/5 719 801 .. 1 67 [] 65.9 1.9e-20
L71 1/1 791 810 .. 64 83 .. 6.0 2.4
PSI 4/5 847 904 .. 1 67 [] 67.7 5e-21
integrin_B 1/1 915 927 .. 1 14 [. 0.6 5.9
PSI 5/5 909 963 .. 1 67 [] 56.3 3e-17
laminin_EGF 3/5 965 972 .. 1 8 [. 3.0 24
laminin_EGF 4/5 988 1017 .. 28 59 .] 33.8 3.5e-08
laminin_EGF 5/5 1020 1065 .. 1 59 [] 41.8 1.8e-10
RgpF 1/1 1152 1160 .. 504 512 .] 1.7 7
Alignments of top-scoring domains:
laminin_EGF: domain 1 of 5, from 79 to 94: score 2.1, E = 44
*->qClkCkpnvtGrrCdrC<-*
+C+ C + +G +Cd+C
F33C8.1 79 ACV-CSKGWYGSQCDHC 94
CUB: domain 1 of 1, from 94 to 200: score 59.1, E = 3.6e-16
*->CGgtldltessGsisSPnYPnrsdYppnkeCvWrIrappgyrv.VeL
C g++ + + +is ++P dY p++ C+W+I+ p+++ + ++
F33C8.1 94 CFGRIRISDNASYIS--DGPL--DYSPSAKCTWLIE-PENSATpLKI 135
tFqdFdlEdhdgaCryDyvEirDGdpssspllGrfCGsgkPedirStsnr
++ +F +E C++Dy+ i+DGd+ +++ l+ CG+++ ++ s
F33C8.1 136 RINSFFTE-----CGWDYLYIYDGDSVYGKQLAALCGEQPSQEFTAASGK 180
mlikFvsDasvskrGFkAty<-*
l+ F sD ++ GF+ +y
F33C8.1 181 ALVHFFSDLAINLNGFNVSY 200
PSI: domain 1 of 5, from 208 to 215: score 0.9, E = 70
*->nCsqhrqsC<-*
nCs h +sC
F33C8.1 208 NCSNH-GSC 215
laminin_EGF: domain 2 of 5, from 208 to 232: score -0.0, E = 1.8e+02
*->dCnphGslsddtCdsddelfgeetGqClkCkpnvtGrrCd<-*
+C++hG +C G C+ C +++ G +C+
F33C8.1 208 NCSNHG-----SC---------LNGKCD-CEDGYKGLNCE 232
Kelch: domain 1 of 6, from 290 to 333: score 15.0, E = 0.012
*->pRsgagvvvlggkiYviGGydg...qslnsvevYDpetntWekl<-*
+++++ ++++ ++ iGG +++++ n+++vY+ ++ W+k+
F33C8.1 290 GKASHASIAIDDVVWSIGGEFFdgsSDPNNIDVYNVTSRIWSKV 333
Stap_Strp_toxin: domain 1 of 1, from 356 to 365: score 8.1, E = 0.69
*->ciYGGVTlhe<-*
+++GGVT+++
F33C8.1 356 YMFGGVTKTQ 365
Kelch: domain 2 of 6, from 342 to 388: score 24.9, E = 1.8e-05
*->pRsgagvvvlggkiYviGGydg.........qslnsvevYDpetntW
pR ++vv +++k+Y +GG++ ++ ++++++ ++n +++D +++W
F33C8.1 342 PRFDHTVVKYKNKLYMFGGVTKtqvrhqttqAATNELWIFDMGSKKW 388
<-*
F33C8.1 - -
Kelch: domain 3 of 6, from 404 to 450: score 14.0, E = 0.023
*->pRsgagvvvlggkiYviGGydg..qslnsvevYDpetntWeklpsmp
+ +g+++ v+ +++vi Gy++ + v +Y+ et +W+ ++
F33C8.1 404 AVAGHSAHVIRSEMFVIFGYNPlfGFMHHVQIYNFETEEWTVANTSD 450
<-*
F33C8.1 - -
Kelch: domain 4 of 6, from 459 to 505: score 16.6, E = 0.0043
*->pRsgagvvvlggkiYviGGydg..qslnsvevYDpetntWeklpsmp
+ +++ + i v GG+ ++++++s +D++t++W+ lp +
F33C8.1 459 SAVEYTTPTGATAILVYGGSMWnnTITDSLMQFDTSTKKWSNLPQSG 505
<-*
F33C8.1 - -
Kelch: domain 5 of 6, from 507 to 560: score 27.3, E = 3.7e-06
*->pRsgagvvvlggkiYviGGydg.........qslnsvevYDpetntW
+ +++++l+g + v+GG+ ++ + +++++ ++n v +YD ++W
F33C8.1 507 QLYLHAAAYLNGLMVVVGGRGSnvtagskseCFSNMVQSYDVACKQW 553
eklpsmp<-*
+ +++ p
F33C8.1 554 SNMSTAP 560
[output cut off at A = 10 top alignments]