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: hmm3/seq/F40F4.6
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Query: F40F4.6 CE04536 EGF-like repeats status:Partially_confirmed TR:Q20219 protein_id:AAA81430.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
vwa von Willebrand factor type A domain 87.6 1.5e-26 1
lectin_c Lectin C-type domain 29.5 3.2e-06 1
EGF EGF-like domain 17.4 0.0032 5
DUF291 Domain of unknown function 8.2 1 1
DUF31 Domain of unknown function DUF31 6.6 1.3 1
HRM Hormone receptor domain 5.8 5.6 2
Bowman-Birk_leg Bowman-Birk serine protease inhibitor 5.5 7.3 1
Complex1_17_2kD NADH:ubiquinone oxidoreductase 17.2 k 5.0 4.5 1
PTS-HPr PTS HPr component phosphorylation sit 4.6 6.6 1
TSNR_N Thiostrepton-resistance methylase, N 3.8 7.4 1
Prog_receptor Progesterone receptor 2.7 1.1 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
EGF 1/5 84 92 .. 32 45 .] 4.1 19
HRM 1/2 391 400 .. 26 35 .. 1.1 1.1e+02
EGF 2/5 371 401 .. 1 45 [] 7.5 2.1
DUF291 1/1 412 425 .. 81 96 .] 8.2 1
PTS-HPr 1/1 436 452 .. 71 87 .] 4.6 6.6
TSNR_N 1/1 769 782 .. 44 58 .. 3.8 7.4
EGF 3/5 856 892 .. 1 45 [] 18.2 0.0019
lectin_c 1/1 1204 1311 .. 7 125 .] 29.5 3.2e-06
HRM 2/2 1328 1354 .. 53 79 .] 4.8 11
Complex1_17_2kD 1/1 1453 1461 .. 1 11 [. 5.0 4.5
EGF 4/5 1477 1500 .. 12 45 .] 5.5 7.5
Bowman-Birk_leg 1/1 1486 1505 .. 50 67 .] 5.5 7.3
EGF 5/5 1504 1529 .. 12 45 .] 11.9 0.12
DUF31 1/1 1716 1731 .. 114 129 .] 6.6 1.3
Prog_receptor 1/1 2021 2033 .. 557 569 .] 2.7 1.1
vwa 1/1 2013 2200 .. 1 189 [] 87.6 1.5e-26
Alignments of top-scoring domains:
EGF: domain 1 of 5, from 84 to 92: score 4.1, E = 19
*->ppGdyylsytGkrC<-*
+pG ytG++C
F40F4.6 84 KPG-----YTGETC 92
HRM: domain 1 of 2, from 391 to 400: score 1.1, E = 1.1e+02
*->pCPdyfsGfn<-*
+CP++fsGf+
F40F4.6 391 QCPEGFSGFH 400
EGF: domain 2 of 5, from 371 to 401: score 7.5, E = 2.1
*->CapnnpCsngGtCvntpggssdnfggytCeCppGdyylsytGkrC<-
C++ C ngG+ ++tp + +C+Cp+G ++G +C
F40F4.6 371 CSQM-LCANGGF-LPTPTSD-------RCQCPEG-----FSGFHC 401
*
F40F4.6 - -
DUF291: domain 1 of 1, from 412 to 425: score 8.2, E = 1
*->FdFsaGtkdpKLtitI<-*
FdF+a +p+Lt++I
F40F4.6 412 FDFNA-E-NPTLTLVI 425
PTS-HPr: domain 1 of 1, from 436 to 452: score 4.6, E = 6.6
*->eDeeeAiaAlvdlmake<-*
e++ e ++++vdl+a+e
F40F4.6 436 EQATESVQSIVDLLASE 452
TSNR_N: domain 1 of 1, from 769 to 782: score 3.8, E = 7.4
*->IRAGVeFiEVYGldt<-*
IR GV+ +EVYG+++
F40F4.6 769 IRDGVQ-TEVYGSSG 782
EGF: domain 3 of 5, from 856 to 892: score 18.2, E = 0.0019
*->Capnn...pCsngGtCvntpggssdnfggytCeCppGdyylsytGkr
C+p++++++C+n +C n++ +g +C+CppG y+G+
F40F4.6 856 CTPEFtgtYCQNI-ICYNGGT-----ASGDHCVCPPG-----YAGES 891
C<-*
C
F40F4.6 892 C 892
lectin_c: domain 1 of 1, from 1204 to 1311: score 29.5, E = 3.2e-06
*->eAelaCqkegghAHLvsIqsaeEqsfvvafltsltkksntyaWIGLt
+A+++C ++gg Lv + + fl+s++ nt +W+GL+
F40F4.6 1204 QAKAFCASAGGF--LVDDLTDDKN----GFLKSVAA--NTQFWTGLF 1242
dintegtwvwegwetdgspvnyt......enWapgePnnrgnhGgnEdCv
n +g+++w g++ n + +++ ++Wa+geP++ + +Cv
F40F4.6 1243 -KNNDGQFYW----DRGTGINPDllnqpiTYWADGEPSDDPT---R-QCV 1283
eiytdtdflaGkWnDepCdsklpyvCef<-*
+++ ++ + W + C +++++ C++
F40F4.6 1284 YFNGRSGDANKVWTTDTCAEPRAFACQK 1311
HRM: domain 2 of 2, from 1328 to 1354: score 4.8, E = 11
*->tenGwwerhpnsnwpwpdytnCtspey<-*
++ Gww+ ++ sn+p ++ +Ct +
F40F4.6 1328 LPAGWWYAKVKSNPPSGYPNMCTMSVR 1354
Complex1_17_2kD: domain 1 of 1, from 1453 to 1461: score 5.0, E = 4.5
*->gtlVGeDkfGN<-*
+VGeD+fGN
F40F4.6 1453 --HVGEDEFGN 1461
[output cut off at A = 10 top alignments]