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: hmm4/seq/T21E3.3
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Query: T21E3.3 CE28688 EGF-like protein status:Partially_confirmed TR:O01768 protein_id:AAB54138.2
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
ldl_recept_a Low-density lipoprotein receptor domain 567.4 1.4e-171 20
ldl_recept_b Low-density lipoprotein receptor repeat 127.5 2.5e-34 10
EGF EGF-like domain 62.3 6.5e-16 25
MSG Major surface glycoprotein 4.9 4 1
CBM_19 Carbohydrate binding domain (family 19) 4.5 9.8 1
zf-NF-X1 Zinc finger 4.1 3.9 1
PDCD2_C Programmed cell death protein 2, C-termi 3.1 6.4 1
Stig1 Stigma-specific protein, Stig1 2.2 6.1 1
A4_EXTRA Amyloid A4 extracellular domain -0.0 1.6 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
EGF 1/25 15 29 .. 1 15 [. 2.9 40
ldl_recept_a 1/20 13 49 .. 1 41 [. 47.2 8.6e-13
EGF 2/25 51 70 .. 1 29 [. 2.2 62
ldl_recept_a 2/20 50 87 .. 2 43 .] 41.7 4e-11
ldl_recept_a 3/20 104 134 .. 11 43 .] 48.6 3.2e-13
EGF 3/25 175 185 .. 30 45 .] 1.5 99
ldl_recept_a 4/20 147 187 .. 1 43 [] 50.8 6.9e-14
EGF 4/25 215 225 .. 30 45 .] 0.8 1.6e+02
ldl_recept_a 5/20 188 227 .. 1 43 [] 45.6 2.7e-12
ldl_recept_a 6/20 231 274 .. 1 43 [] 60.8 5.8e-17
EGF 5/25 306 316 .. 30 45 .] 3.7 24
ldl_recept_a 7/20 300 318 .. 23 43 .] 21.0 8.7e-05
MSG 1/1 308 324 .. 1 17 [. 4.9 4
EGF 6/25 323 343 .. 1 30 [. 5.2 8.9
ldl_recept_a 8/20 321 361 .. 1 43 [] 44.0 8.3e-12
ldl_recept_a 9/20 384 407 .. 17 43 .] 11.3 0.078
EGF 7/25 412 450 .. 1 45 [] -2.3 1.2e+03
EGF 8/25 456 490 .. 1 45 [] 32.9 1.4e-07
ldl_recept_b 1/10 538 545 .. 1 8 [. 3.2 30
ldl_recept_b 2/10 576 583 .. 40 47 .] 2.1 60
ldl_recept_b 3/10 585 627 .. 1 47 [] 22.0 0.00015
ldl_recept_b 4/10 629 672 .. 1 47 [] 38.9 2.7e-09
ldl_recept_b 5/10 674 714 .. 1 46 [. 18.0 0.002
ldl_recept_b 6/10 715 744 .. 1 32 [. 18.6 0.0014
EGF 9/25 772 812 .. 1 45 [] 11.2 0.19
ldl_recept_a 10/20 814 848 .. 1 36 [. 39.4 2e-10
ldl_recept_a 11/20 859 905 .. 1 43 [] 19.4 0.00027
ldl_recept_a 12/20 906 945 .. 1 43 [] 44.0 7.9e-12
EGF 10/25 948 987 .. 1 45 [] -4.0 3.6e+03
ldl_recept_a 13/20 946 989 .. 1 43 [] 34.5 6.3e-09
EGF 11/25 993 1027 .. 1 45 [] -5.0 6.5e+03
ldl_recept_a 14/20 991 1029 .. 1 43 [] 57.2 7.7e-16
ldl_recept_a 15/20 1036 1065 .. 13 43 .] 11.4 0.071
ldl_recept_a 16/20 1079 1098 .. 22 43 .] 27.1 1.1e-06
ldl_recept_a 17/20 1106 1128 .. 19 43 .] 16.1 0.0027
EGF 12/25 1117 1131 .. 1 12 [. -0.8 4.4e+02
ldl_recept_a 18/20 1131 1167 .. 4 43 .] 28.1 5.8e-07
ldl_recept_a 19/20 1191 1211 .. 23 43 .] 25.0 5.2e-06
EGF 13/25 1213 1246 .. 1 45 [] -2.1 1e+03
ldl_recept_a 20/20 1213 1248 .. 3 43 .] 42.2 2.8e-11
zf-NF-X1 1/1 1245 1262 .. 7 23 .] 4.1 3.9
EGF 14/25 1250 1277 .. 1 41 [. 7.1 2.6
ldl_recept_b 7/10 1385 1436 .. 1 47 [] 12.7 0.064
ldl_recept_b 8/10 1438 1460 .. 1 25 [. 5.5 6.4
ldl_recept_b 9/10 1467 1491 .. 22 47 .] 0.3 2e+02
ldl_recept_b 10/10 1493 1518 .. 1 29 [. 15.8 0.0083
CBM_19 1/1 1597 1608 .. 50 61 .] 4.5 9.8
PDCD2_C 1/1 1599 1626 .. 98 124 .. 3.1 6.4
EGF 15/25 1592 1632 .. 1 45 [] 9.2 0.68
EGF 16/25 1645 1673 .. 1 45 [] 11.5 0.16
EGF 17/25 1701 1712 .. 29 45 .] 6.1 5
EGF 18/25 1727 1756 .. 1 45 [] 7.4 2.1
EGF 19/25 1765 1796 .. 1 45 [] -5.2 7.6e+03
Stig1 1/1 1808 1813 .. 134 139 .] 2.2 6.1
EGF 20/25 1799 1833 .. 1 45 [] 31.4 3.6e-07
EGF 21/25 1878 1912 .. 1 45 [] 35.6 2.3e-08
EGF 22/25 1918 1949 .. 1 45 [] 29.6 1.1e-06
EGF 23/25 1955 1985 .. 1 45 [] 23.0 8.5e-05
A4_EXTRA 1/1 2006 2019 .. 33 46 .. -0.0 1.6
EGF 24/25 1993 2029 .. 1 45 [] 34.9 3.8e-08
EGF 25/25 2034 2065 .. 1 45 [] 8.6 1
Alignments of top-scoring domains:
EGF: domain 1 of 25, from 15 to 29: score 2.9, E = 40
*->Capnn.pCsngGtCvn<-*
C p++ +C n G C++
T21E3.3 15 CRPGYfNCGN-GLCIP 29
ldl_recept_a: domain 1 of 20, from 13 to 49: score 47.2, E = 8.6e-13
*->stCggpdeFqCgsgrrCIprswvCDGdpDCeDGSDEslenC<-*
+ C+ p+ F Cg+g CIp ++vC+ +DC++ DE nC
T21E3.3 13 RVCR-PGYFNCGNGL-CIPEQKVCNRINDCANFADE--SNC 49
EGF: domain 2 of 25, from 51 to 70: score 2.2, E = 62
*->Capnn.pCsngGtCvntpggssdnfggytC<-*
C++n C+ G C+++ +C
T21E3.3 51 CNENEfRCQS-GACIPSKA---------RC 70
ldl_recept_a: domain 2 of 20, from 50 to 87: score 41.7, E = 4e-11
*->tCggpdeFqCgsgrrCIprswvCDGdpDCeDGSDEslenCaa<-*
tC +eF+C sg CIp++ +C+ +DC D SDE +C+
T21E3.3 50 TCN-ENEFRCQSGA-CIPSKARCNHMQDCNDASDE--IGCPF 87
ldl_recept_a: domain 3 of 20, from 104 to 134: score 48.6, E = 3.2e-13
*->CgsgrrCIprswvCDGdpDCeDGSDEslenCaa<-*
C++ ++CI+ sw+CDG +DC DGSDE ++C
T21E3.3 104 CATTSQCIHPSWKCDGTNDCYDGSDE--KDCFV 134
EGF: domain 3 of 25, from 175 to 185: score 1.5, E = 99
*->eCppGdyylsytGkrC<-*
+C+ G + k+C
T21E3.3 175 DCADG-----SDEKNC 185
ldl_recept_a: domain 4 of 20, from 147 to 187: score 50.8, E = 6.9e-14
*->stCggpdeFqCgsgrrCIprswvCDGdpDCeDGSDEslenCaa<-*
+ C++ +F C r C p++w+CDG+pDC+DGSDE +nC a
T21E3.3 147 RSCDAKTQFACLATRTCMPKHWQCDGQPDCADGSDE--KNCDA 187
EGF: domain 4 of 25, from 215 to 225: score 0.8, E = 1.6e+02
*->eCppGdyylsytGkrC<-*
+Cp G + ++C
T21E3.3 215 DCPDG-----EDEHQC 225
ldl_recept_a: domain 5 of 20, from 188 to 227: score 45.6, E = 2.7e-12
*->stCggpdeFqCgsgrrCIprswvCDGdpDCeDGSDEslenCaa<-*
++C + eF+C+s++ CIp ++CDG +DC DG+DE +C
T21E3.3 188 KKCT-SFEFSCESSKKCIPLEQKCDGRRDCPDGEDE--HQCET 227
ldl_recept_a: domain 6 of 20, from 231 to 274: score 60.8, E = 5.8e-17
*->stCggpdeFqCgsgrrCIprswvCDGdpDCe.....DGSDEslenCa
s+ g + F+C ++r CIp+ w+CDG +DC+++ ++ GSDE ++Ca
T21E3.3 231 SKGG-NATFRCTNHR-CIPMAWRCDGTDDCMdnaksLGSDE--VDCA 273
a<-*
a
T21E3.3 274 A 274
[output cut off at A = 10 top alignments]