WORKLIST ENTRIES (1):
GLIADIN View alignment Alpha/beta gliadin family signature
Type of fingerprint: COMPOUND with 9 elements
Links:
PRINTS; PR00208 GLIADGLUTEN; PR00211 GLUTELIN; PR00210 GLUTENIN
INTERPRO; IPR001376
Creation date 21-OCT-1992; UPDATE 19-JUN-1999
1. SHEWRY, P. AND MORGAN, M.
Gluten - proteins that put the springiness into bread and are implicated
in food intolerance syndromes such as coeliac disease.
IN PROTEIN POWER AFRC NEWS SUPPLEMENT (1992).
2. OKITA T.W., CHEESBROUGH V. AND REEVES C.D.
Evolution and heterogeneity of the alpha-type, beta-type, and gamma-type
gliadin DNA sequences.
J.BIOL.CHEM. 260(13) 8203-8213 (1985).
3. RAFALSKI J.A.
Structure of wheat gamma-gliadin genes.
GENE 43(3) 221-229 (1986).
Gluten is the protein component of wheat flour. It consists of numerous
proteins, which are of 2 different types responsible for different physical
properties of dough [1]: the glutenins, which are primarily responsible for
the elasticity, and the gliadins, which contribute to the extensibility.
The gliadins themselves are of different types (e.g., alpha/beta or gamma)
and, like the glutenins, contain repetitive sequences [2] that form loose
helical structures, but they are usually associated with more extensive
non-repetitive regions, which are compact and globular [3].
GLIADIN is a 9-element fingerprint that provides a signature for the
alpha/beta gliadins. The fingerprint was derived from an initial align-
ment of 5 sequences: motifs 2 and 3 encode the Gln/Pro-rich tandem repeats.
Two iterations on OWL18.0 were required to reach convergence, at which
point a true set comprising 14 sequences was identified. Several partial
matches were also found: 3 of these are alpha/beta gliadin fragments:
GDA1_WHEAT and B22364 both lack the C-terminal part of the sequence bearing
the last 2 motifs, and GDA8_WHEAT lacks the N-terminal part of the sequence
bearing the first 3 motifs.
In addition to the alpha/beta gliadin fragments, a number of other partial
matches were identified: these included gamma-gliadins, low molecular
weight glutenins, avenins, secalins, and so on. Most of these fail to
match, or at least match only poorly, those motifs that encode the tandem
repeats - clearly they are characterised by their own distinctive
signatures in this region. The fingerprint thus provides reasonable
discrimination between the alpha/beta type gliadins and the gamma type and
related proteins.
An update on SPTR37_9f identified a true set of 16 sequences, and 25
partial matches.
SUMMARY INFORMATION
16 codes involving 9 elements
0 codes involving 8 elements
1 codes involving 7 elements
0 codes involving 6 elements
0 codes involving 5 elements
10 codes involving 4 elements
9 codes involving 3 elements
5 codes involving 2 elements
COMPOSITE FINGERPRINT INDEX
9| 16 16 16 16 16 16 16 16 16
8| 0 0 0 0 0 0 0 0 0
7| 1 1 1 1 1 1 1 0 0
6| 0 0 0 0 0 0 0 0 0
5| 0 0 0 0 0 0 0 0 0
4| 5 1 1 10 9 0 4 10 0
3| 8 0 0 9 1 0 0 9 0
2| 3 0 0 5 0 0 0 2 0
--+----------------------------------------------
| 1 2 3 4 5 6 7 8 9
True positives..
GDA9_WHEAT GDA6_WHEAT Q41509 Q41531
GDA0_WHEAT Q41546 GDA7_WHEAT GDA2_WHEAT
Q41632 Q41530 Q41529 GDA5_WHEAT
Q41545 Q41528 GDA4_WHEAT GDA3_WHEAT
Subfamily: Codes involving 7 elements
Subfamily True positives..
GDA1_WHEAT
Subfamily: Codes involving 4 elements
Subfamily True positives..
Q09071 AVE3_AVESA GDB2_WHEAT Q38794
GDBB_WHEAT HOR1_HORVU Q09072 HOG3_HORVU
GDBX_WHEAT HOG1_HORVU
Subfamily: Codes involving 3 elements
Subfamily True positives..
Q09114 Q40021 Q40026 GDB1_WHEAT
P93792 GLTA_WHEAT P93790 GLTC_WHEAT
P93794
Subfamily: Codes involving 2 elements
Subfamily True positives..
GLTB_WHEAT O22108 O22116 P93791
P93793
PROTEIN TITLES
GDA9_WHEAT ALPHA/BETA-GLIADIN MM1 PRECURSOR (PROLAMIN) - TRITICUM AESTI
GDA6_WHEAT ALPHA/BETA-GLIADIN CLONE PW1215 PRECURSOR (PROLAMIN) - TRITI
Q41509 ALPHA-GLIADIN - TRITICUM AESTIVUM (WHEAT).
Q41531 ALPHA-GLIADIN STORAGE PROTEIN - TRITICUM AESTIVUM (WHEAT).
GDA0_WHEAT ALPHA/BETA-GLIADIN PRECURSOR (PROLAMIN) - TRITICUM AESTIVUM
Q41546 ALPHA/BETA-GLIADIN STORAGE PROTEIN PRECURSOR - TRITICUM AEST
GDA7_WHEAT ALPHA/BETA-GLIADIN CLONE PW8142 PRECURSOR (PROLAMIN) - TRITI
GDA2_WHEAT ALPHA/BETA-GLIADIN A-II PRECURSOR (PROLAMIN) - TRITICUM AEST
Q41632 ALPHA/BETA-TYPE GLIADIN - TRITICUM URARTU.
Q41530 ALPHA-GLIADIN STORAGE PROTEIN - TRITICUM AESTIVUM (WHEAT).
Q41529 ALPHA-GLIADIN STORAGE PROTEIN - TRITICUM AESTIVUM (WHEAT).
GDA5_WHEAT ALPHA/BETA-GLIADIN A-V PRECURSOR (PROLAMIN) - TRITICUM AESTI
Q41545 (T. AESTIVUM) ALPHA-TYPE GLIADIN PRECURSOR - TRITICUM AESTIV
Q41528 ALPHA-GLIADIN - TRITICUM AESTIVUM (WHEAT).
GDA4_WHEAT ALPHA/BETA-GLIADIN A-IV PRECURSOR (PROLAMIN) - TRITICUM AEST
GDA3_WHEAT ALPHA/BETA-GLIADIN A-III PRECURSOR (PROLAMIN) - TRITICUM AES
GDA1_WHEAT ALPHA/BETA-GLIADIN A-I PRECURSOR (PROLAMIN) - TRITICUM AESTI
Q09071 AVENIN PRECURSOR (PROLAMIN) (CLONE PAV10) - AVENA SATIVA (OA
AVE3_AVESA AVENIN-3 PRECURSOR (PROLAMIN) - AVENA SATIVA (OAT).
GDB2_WHEAT GAMMA-GLIADIN PRECURSOR - TRITICUM AESTIVUM (WHEAT).
Q38794 SEED STORAGE PROTEIN - AVENA SATIVA (OAT).
GDBB_WHEAT GAMMA-GLIADIN B PRECURSOR - TRITICUM AESTIVUM (WHEAT).
HOR1_HORVU B1-HORDEIN PRECURSOR - HORDEUM VULGARE (BARLEY).
Q09072 AVENIN PRECURSOR (PROLAMIN) (CLONE PAV122) - AVENA SATIVA (O
HOG3_HORVU GAMMA-HORDEIN 3 - HORDEUM VULGARE (BARLEY).
GDBX_WHEAT GAMMA-GLIADIN PRECURSOR - TRITICUM AESTIVUM (WHEAT).
HOG1_HORVU GAMMA-HORDEIN 1 PRECURSOR - HORDEUM VULGARE (BARLEY).
Q09114 AVENIN N9 (PROLAMIN) - AVENA SATIVA (OAT).
Q40021 B1 HORDEIN - HORDEUM VULGARE (BARLEY).
Q40026 B HORDEIN PRECURSOR - HORDEUM VULGARE (BARLEY).
GDB1_WHEAT GAMMA-GLIADIN B-I PRECURSOR - TRITICUM AESTIVUM (WHEAT).
P93792 LOW-MOLECULAR-WEIGHT GLUTENIN STORAGE PROTEIN - TRITICUM AES
GLTA_WHEAT GLUTENIN, LOW MOLECULAR WEIGHT SUBUNIT PRECURSOR - TRITICUM
P93790 LOW-MOLECULAR-WEIGHT GLUTENIN STORAGE PROTEIN - TRITICUM AES
GLTC_WHEAT GLUTENIN, LOW MOLECULAR WEIGHT SUBUNIT PTDUCD1 PRECURSOR - T
P93794 LOW-MOLECULAR-WEIGHT GLUTENIN STORAGE PROTEIN - TRITICUM AES
GLTB_WHEAT GLUTENIN, LOW MOLECULAR WEIGHT SUBUNIT 1D1 PRECURSOR - TRITI
O22108 LMW GLUTENIN - TRITICUM AESTIVUM (WHEAT).
O22116 LMW GLUTENIN - TRITICUM AESTIVUM (WHEAT).
P93791 LOW-MOLECULAR-WEIGHT GLUTENIN STORAGE PROTEIN - TRITICUM AES
P93793 LOW-MOLECULAR-WEIGHT GLUTENIN STORAGE PROTEIN - TRITICUM AES
SCAN HISTORY
OWL18_0 2 100 NSINGLE
OWL19_1 1 100 NSINGLE
OWL26_0 1 100 NSINGLE
SPTR37_9f 2 50 NSINGLE
INITIAL MOTIF SETS
GLIADIN1 Length of motif = 15 Motif number = 1
Gliadin motif I - 1
PCODE ST INT
TFLILALLAIVATTA GDA3_WHEAT 2 2
TFLILALLAIVATTA GDA5_WHEAT 2 2
TFLILVLLAIVATTA GDA0_WHEAT 2 2
TFPILALLAIVATTA GDA2_WHEAT 2 2
TFLILALRAIVATTA GDA4_WHEAT 2 2
GLIADIN2 Length of motif = 19 Motif number = 2
Gliadin motif II - 1
PCODE ST INT
FPGQQEQFPPQQPYPHQQP GDA3_WHEAT 50 33
FPGQQQQFPPQQPYPQPQP GDA5_WHEAT 49 32
FLGQQQPFPPQQPYPQPQP GDA0_WHEAT 49 32
FQGQQQPFPPQQPYPQPQP GDA2_WHEAT 49 32
FPGQQQPFPPQQPYPQQQP GDA4_WHEAT 49 32
GLIADIN3 Length of motif = 14 Motif number = 3
Gliadin motif III - 1
PCODE ST INT
FPSQQPYPQPQPFP GDA3_WHEAT 69 0
FPSQQPYLQLQPFP GDA5_WHEAT 68 0
FPSQLPYLQLQPFP GDA0_WHEAT 68 0
FPSQQPYLQLQPFP GDA2_WHEAT 68 0
FPSQQPYMQLQPFP GDA4_WHEAT 68 0
GLIADIN4 Length of motif = 18 Motif number = 4
Gliadin motif IV - 1
PCODE ST INT
QLQQLCCQQLFQIPEQSR GDA3_WHEAT 164 81
LLQQLCCQQLLQIPEQSQ GDA5_WHEAT 176 94
LLQELCCQHLWQIPEQSQ GDA0_WHEAT 170 88
LVQQLCCQQLWQIPEQSR GDA2_WHEAT 167 85
LVQQFCCQQLWQIPEQSR GDA4_WHEAT 174 92
GLIADIN5 Length of motif = 14 Motif number = 5
Gliadin motif V - 1
PCODE ST INT
AIHNVVHAIILHHH GDA3_WHEAT 184 2
AIHNVAHAIIMHQQ GDA5_WHEAT 196 2
AIHNVVHAIILHQQ GDA0_WHEAT 190 2
AIHNVVHAIILHQQ GDA2_WHEAT 187 2
AIHNVVHAIILHQQ GDA4_WHEAT 194 2
GLIADIN6 Length of motif = 21 Motif number = 6
Gliadin motif VI - 1
PCODE ST INT
PSSQVSYQQPQEQYPSGQVSF GDA3_WHEAT 204 6
PSSQVSFQQPQQQYPSSQVSF GDA5_WHEAT 241 31
PSSQVSFQQPLQQYPLGQGSF GDA0_WHEAT 210 6
PLSQVSFQQPQQQYPSGQGFF GDA2_WHEAT 215 14
PLSQVCFQQSQQQYPSGQGSF GDA4_WHEAT 221 13
GLIADIN7 Length of motif = 21 Motif number = 7
Gliadin motif VII - 1
PCODE ST INT
PQAQGSVQPQQLPQFQEIRNL GDA3_WHEAT 231 6
PQAQGSVQPQQLPQFAEIRNL GDA5_WHEAT 268 6
PQAQGSVQPQQLPQFEEIRNL GDA0_WHEAT 237 6
PQAQGSFQPQQLPQFEEIRNL GDA2_WHEAT 242 6
PQAQGSVQPQQLPQFEEIRNL GDA4_WHEAT 248 6
GLIADIN8 Length of motif = 14 Motif number = 8
Gliadin motif VIII - 1
PCODE ST INT
TLPAMCNVYIPPYC GDA3_WHEAT 255 3
TLPAMCNVYIPPHC GDA5_WHEAT 292 3
TLPAMCNVYIPPYC GDA0_WHEAT 261 3
TLPAMCNVYIPPYC GDA2_WHEAT 266 3
TLPAMCNVYIPPYC GDA4_WHEAT 272 3
GLIADIN9 Length of motif = 10 Motif number = 9
Gliadin motif IX - 1
PCODE ST INT
TIAPFGIFGT GDA3_WHEAT 271 2
TIAPFGISGT GDA5_WHEAT 308 2
TIAPFGIFGT GDA0_WHEAT 275 0
TIAPFGIFGT GDA2_WHEAT 280 0
TIAPVGIFGT GDA4_WHEAT 286 0
FINAL MOTIF SETS
GLIADIN1 Length of motif = 15 Motif number = 1
Gliadin motif I - 2
PCODE ST INT
TFLILALLAIVATTA GDA9_WHEAT 3 3
TFLILALLAIVATTA GDA6_WHEAT 3 3
TFLILALLAIVATTA Q41509 3 3
TFLILALLAIVATTA Q41531 3 3
TFLILVLLAIVATTA GDA0_WHEAT 3 3
TFLILALVATTATTA GDA7_WHEAT 3 3
TFLILALVATTATTA Q41546 3 3
TFPILALLAIVATTA GDA2_WHEAT 3 3
TFLILALLAIVATTA Q41632 3 3
TFLILALLAIVATTA Q41530 3 3
TFLILALVATTATTA Q41529 3 3
TFLILALLAIVATTA GDA5_WHEAT 3 3
TFLILALLAIVATTA Q41545 3 3
TFLILVLLAIVATTA Q41528 3 3
TFLILALRAIVATTA GDA4_WHEAT 3 3
TFLILALLAIVATTA GDA3_WHEAT 3 3
GLIADIN2 Length of motif = 19 Motif number = 2
Gliadin motif II - 2
PCODE ST INT
FPGQQQPFPPQQPYPQPQP GDA9_WHEAT 50 32
FPGQQQQFPPQQPYPQPQP GDA6_WHEAT 50 32
FLGQQQPFPPQQPYPQPQP Q41509 50 32
FLGQQQPFPPQQPYPQLQP Q41531 50 32
FLGQQQPFPPQQPYPQPQP GDA0_WHEAT 50 32
FPGQQQQFPPQQPYPQPQP GDA7_WHEAT 47 29
FPGQQQQFPPQQPYPQPQP Q41546 47 29
FQGQQQPFPPQQPYPQPQP GDA2_WHEAT 50 32
FPGQQQQFPPQQPYPQPQP Q41632 50 32
FLGQQQPFPPQQPYPQPQP Q41530 50 32
FPGQQQQFPPQQPYPQPQP Q41529 47 29
FPGQQQQFPPQQPYPQPQP GDA5_WHEAT 50 32
FPGQQQQFPPQQPYPQPQP Q41545 50 32
FLGQQQPFPPQQPYPQPQF Q41528 50 32
FPGQQQPFPPQQPYPQQQP GDA4_WHEAT 50 32
FPGQQEQFPPQQPYPHQQP GDA3_WHEAT 51 33
GLIADIN3 Length of motif = 14 Motif number = 3
Gliadin motif III - 2
PCODE ST INT
FPSQQPYLQLQPFP GDA9_WHEAT 69 0
FPSQQPYLQLQPFP GDA6_WHEAT 69 0
FPSQQPYLQLQPFL Q41509 69 0
FPSQQPYLQLQPFP Q41531 69 0
FPSQLPYLQLQPFP GDA0_WHEAT 69 0
FPSQQPYLQLQPFP GDA7_WHEAT 66 0
FPSQQPYLQLQPFP Q41546 66 0
FPSQQPYLQLQPFP GDA2_WHEAT 69 0
FPSQQPYLQLQPFP Q41632 69 0
FPSQQPYLQLQPFS Q41530 69 0
FPSQQPYLQLQPFP Q41529 66 0
FPSQQPYLQLQPFP GDA5_WHEAT 69 0
FPSQQPYLQLQPFP Q41545 69 0
FPSQLPYLQLQPFP Q41528 68 -1
FPSQQPYMQLQPFP GDA4_WHEAT 69 0
FPSQQPYPQPQPFP GDA3_WHEAT 70 0
GLIADIN4 Length of motif = 18 Motif number = 4
Gliadin motif IV - 2
PCODE ST INT
LVQQLCCQQLWQIPEQSR GDA9_WHEAT 188 105
PLQQLCCQQLWQIPEQSR GDA6_WHEAT 180 97
LLQELCCQHLWQIPEQSQ Q41509 172 89
LLRELCCQHLWQIPEQSQ Q41531 174 91
LLQELCCQHLWQIPEQSQ GDA0_WHEAT 171 88
LLQQLCCQQLLQIPEQSR GDA7_WHEAT 176 96
LLQQLCCQQLLQIPEQSR Q41546 176 96
LVQQLCCQQLWQIPEQSR GDA2_WHEAT 168 85
PLQQLCCQQLWQIPEQSR Q41632 180 97
LLQELCCQHLWQIPEKLQ Q41530 173 90
LLQQLCCQQLLQIPEQSR Q41529 176 96
LLQQLCCQQLLQIPEQSQ GDA5_WHEAT 177 94
LLQQLCCQQLLQIPEQSQ Q41545 176 93
LLRELCCQHLWQIPEQSQ Q41528 171 89
LVQQFCCQQLWQIPEQSR GDA4_WHEAT 175 92
QLQQLCCQQLFQIPEQSR GDA3_WHEAT 165 81
GLIADIN5 Length of motif = 14 Motif number = 5
Gliadin motif V - 2
PCODE ST INT
AIHNVVHAIILHQQ GDA9_WHEAT 208 2
AIHNVVHAIILHQQ GDA6_WHEAT 200 2
AIHNVVHAIILHQQ Q41509 192 2
AIHNVVHAIILHQQ Q41531 194 2
AIHNVVHAIILHQQ GDA0_WHEAT 191 2
AIHNVVHAIIMHQQ GDA7_WHEAT 196 2
AIHNVVHAIIMHQQ Q41546 196 2
AIHNVVHAIILHQQ GDA2_WHEAT 188 2
AIHNVVHAIILHQQ Q41632 200 2
AIHNVVHAIILHQQ Q41530 193 2
AIHNVVHAIIMHQQ Q41529 196 2
AIHNVAHAIIMHQQ GDA5_WHEAT 197 2
AIHNVAHAIIMHQQ Q41545 196 2
AIHNVVHAIILHQQ Q41528 191 2
AIHNVVHAIILHQQ GDA4_WHEAT 195 2
AIHNVVHAIILHHH GDA3_WHEAT 185 2
GLIADIN6 Length of motif = 21 Motif number = 6
Gliadin motif VI - 2
PCODE ST INT
PLSQVSFQQPQQQYPSGQGSF GDA9_WHEAT 232 10
PSSQVSLQQPQQQYPSGQGFF GDA6_WHEAT 219 5
PSSQVSFQQPLQQYPLGQGSF Q41509 212 6
PSSQVSFQQPLQQYPLGQGSF Q41531 214 6
PSSQVSFQQPLQQYPLGQGSF GDA0_WHEAT 211 6
PSSQVSFQQPQQQYPSSQGSF GDA7_WHEAT 236 26
PSSQVSFQQPQQQYPSSQGSF Q41546 236 26
PLSQVSFQQPQQQYPSGQGFF GDA2_WHEAT 216 14
PSSQVSLQQPQQQYPSGQGFF Q41632 219 5
PSSQVSFQQPQQQYPLGQGSF Q41530 213 6
PSSQVSFQQPQQQYPSSQVSF Q41529 236 26
PSSQVSFQQPQQQYPSSQVSF GDA5_WHEAT 242 31
PSSQVSFQQPQQQYPSSQVSF Q41545 241 31
PSSQVSFQQPLQQYPLGQGSF Q41528 212 7
PLSQVCFQQSQQQYPSGQGSF GDA4_WHEAT 222 13
PSSQVSYQQPQEQYPSGQVSF GDA3_WHEAT 205 6
GLIADIN7 Length of motif = 21 Motif number = 7
Gliadin motif VII - 2
PCODE ST INT
PQAQGSVQPQQLPQFEEIRNL GDA9_WHEAT 259 6
PQAQGSVQPQQLPQFEEIRNL GDA6_WHEAT 246 6
PQAQGSVQPQQLPQFEEIRNL Q41509 239 6
PQAQGSVQPQQLPQFEEIRNL Q41531 241 6
PQAQGSVQPQQLPQFEEIRNL GDA0_WHEAT 238 6
PQAQGSVQPQQLPQFAEIRNL GDA7_WHEAT 263 6
PQAQGSVQPQQLPQFAEIRNL Q41546 263 6
PQAQGSFQPQQLPQFEEIRNL GDA2_WHEAT 243 6
PQAQGSVQPQQLPQFEEIRNL Q41632 246 6
PQAQGSVQPQQLPQFEEIRNL Q41530 240 6
PQAQGSVQPQQLPQFAEIRNL Q41529 263 6
PQAQGSVQPQQLPQFAEIRNL GDA5_WHEAT 269 6
PQAQGSVQPQQLPQFAEIRNL Q41545 268 6
PQTQGSVQPQQLPQFEEIRNL Q41528 239 6
PQAQGSVQPQQLPQFEEIRNL GDA4_WHEAT 249 6
PQAQGSVQPQQLPQFQEIRNL GDA3_WHEAT 232 6
GLIADIN8 Length of motif = 14 Motif number = 8
Gliadin motif VIII - 2
PCODE ST INT
TLPAMCNVYIPPYC GDA9_WHEAT 283 3
TLPRMCNVYIPPYC GDA6_WHEAT 270 3
TLPAMCNVYIPPYC Q41509 263 3
TLPAMCNVYIPPYC Q41531 265 3
TLPAMCNVYIPPYC GDA0_WHEAT 262 3
TLPAMCNVYIPPHC GDA7_WHEAT 287 3
TLPAMCNVYIPPHC Q41546 287 3
TLPAMCNVYIPPYC GDA2_WHEAT 267 3
TLPRMCNVYIPPYC Q41632 270 3
TLPAMCNVYIPPYC Q41530 264 3
TLPAMCNVYIPPHC Q41529 287 3
TLPAMCNVYIPPHC GDA5_WHEAT 293 3
TLPAMCNVYIPPHC Q41545 292 3
TLPSMCNVYIPPYC Q41528 263 3
TLPAMCNVYIPPYC GDA4_WHEAT 273 3
TLPAMCNVYIPPYC GDA3_WHEAT 256 3
GLIADIN9 Length of motif = 10 Motif number = 9
Gliadin motif IX - 2
PCODE ST INT
TIAPVGIFGT GDA9_WHEAT 297 0
TIAPFGIFGT GDA6_WHEAT 286 2
TIAPFGIFGT Q41509 277 0
TIAPFGIFGT Q41531 279 0
TIAPFGIFGT GDA0_WHEAT 276 0
TIAPFGIFGT GDA7_WHEAT 303 2
TIAPFGIFGT Q41546 303 2
TIAPFGIFGT GDA2_WHEAT 281 0
TTAPFGIFGT Q41632 286 2
TIAPFGIFGT Q41530 278 0
TIAPFGIFGT Q41529 303 2
TIAPFGISGT GDA5_WHEAT 309 2
TIAPFGISGT Q41545 308 2
TIAPFGIFGT Q41528 277 0
TIAPVGIFGT GDA4_WHEAT 287 0
TIAPFGIFGT GDA3_WHEAT 272 2
User query: Display/Full Code "GLIADIN"