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Asym. Unit
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Asym.Unit (61 KB)
Biol.Unit 1 (56 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF WHEAT GERM AGGLUTININ ISOLECTIN 3 IN COMPLEX WITH A SYNTHETIC DIVALENT CARBOHYDRATE LIGAND
Authors
:
D. Schwefel, C. Maierhofer, V. Wittmann, K. Diederichs, W. Welte
Date
:
05 Feb 10 (Deposition) - 23 Feb 10 (Release) - 30 Jun 10 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.70
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Chitin-Binding, Sugar Binding Protein, Protein-Carbohydrate Interaction
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
D. Schwefel, C. Maierhofer, J. G. Beck, S. Seeberger, K. Diederichs, H. M. Moller, W. Welte, V. Wittmann
Structural Basis Of Multivalent Binding To Wheat Germ Agglutinin.
J. Am. Chem. Soc. V. 132 8704 2010
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Hetero Components
(3, 6)
Info
All Hetero Components
1a: GLYCEROL (GOLa)
2a: BIS-(2-ACETAMIDO-2-DEOXY-ALPHA-D-G... (GYTa)
2b: BIS-(2-ACETAMIDO-2-DEOXY-ALPHA-D-G... (GYTb)
2c: BIS-(2-ACETAMIDO-2-DEOXY-ALPHA-D-G... (GYTc)
2d: BIS-(2-ACETAMIDO-2-DEOXY-ALPHA-D-G... (GYTd)
3a: PYROGLUTAMIC ACID (PCAa)
View:
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Label:
No.
Name
Count
Type
Full Name
1
GOL
1
Ligand/Ion
GLYCEROL
2
GYT
4
Ligand/Ion
BIS-(2-ACETAMIDO-2-DEOXY-ALPHA-D-GLUCOPYRANOSYLOXYCARBONYL)-4,7,10-TRIOXA-1,13-TRIDECANEDIAMINE
3
PCA
1
Mod. Amino Acid
PYROGLUTAMIC ACID
[
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Sites
(5, 5)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
View:
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ARG A:2 , GLN A:6 , GLN A:20 , TYR A:21 , SER A:62 , TYR A:64 , HIS A:66 , ALA A:71 , GLU A:72 , TYR A:73 , ASP A:135 , ALA A:136 , GLY A:137 , ARG A:139 , GYT A:1173 , HOH A:2012 , HOH A:2035 , HOH A:2097 , HOH A:2098 , HOH A:2099 , HOH A:2100 , ASP B:86 , SER B:105 , TRP B:107 , TYR B:109 , SER B:114 , GLU B:115 , PHE B:116 , HOH B:2048
BINDING SITE FOR RESIDUE GYT A1172
2
AC2
SOFTWARE
SER A:19 , TYR A:23 , GLY A:28 , ASP A:29 , TYR A:30 , GYT A:1172 , ASP B:129 , SER B:148 , TRP B:150 , SER B:152 , PRO B:157 , GLY B:158 , TYR B:159 , HOH B:2059
BINDING SITE FOR RESIDUE GYT A1173
3
AC3
SOFTWARE
ASP A:86 , SER A:105 , TRP A:107 , TYR A:109 , SER A:114 , GLU A:115 , SER B:62 , TYR B:64 , HIS B:66 , ALA B:71 , GLU B:72 , TYR B:73 , GLY B:137 , HOH B:2018 , HOH B:2073 , HOH B:2074 , HOH B:2075
BINDING SITE FOR RESIDUE GYT B1172
4
AC4
SOFTWARE
ASP A:129 , SER A:148 , TRP A:150 , SER A:152 , PRO A:157 , GLY A:158 , TYR A:159 , SER B:19 , TYR B:21 , TYR B:23 , GLY B:28 , ASP B:29 , TYR B:30 , LYS B:149 , ALA B:162 , GLY B:163 , HOH B:2069 , HOH B:2076 , HOH B:2077
BINDING SITE FOR RESIDUE GYT B1173
5
AC5
SOFTWARE
MET A:26 , GLY A:27 , ALA B:125 , CYS B:126 , ASP B:129 , TYR B:145 , CYS B:153
BINDING SITE FOR RESIDUE GOL B1174
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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Sorry, no Info available
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PROSITE Patterns/Profiles
(2, 15)
Info
All PROSITE Patterns/Profiles
1: CHIT_BIND_I_2 (A:2-42|A:43-85,B:43-85|A:86-128,B:...)
2: CHIT_BIND_I_1 (A:12-31,B:12-31|A:55-74,B:55-74|A:...)
;
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PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
CHIT_BIND_I_2
PS50941
Chitin-binding type-1 domain profile.
AGI3_WHEAT
1-42
43-85
86-128
129-171
7
A:2-42
A:43-85
B:43-85
A:86-128
B:86-128
A:129-171
B:129-171
2
CHIT_BIND_I_1
PS00026
Chitin recognition or binding domain signature.
AGI3_WHEAT
12-31
55-74
98-117
141-160
8
A:12-31
B:12-31
A:55-74
B:55-74
A:98-117
B:98-117
A:141-160
B:141-160
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Exons
(0, 0)
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(1, 8)
Info
All SCOP Domains
1a: SCOP_d2x52a1 (A:1-52)
1b: SCOP_d2x52a2 (A:53-86)
1c: SCOP_d2x52a3 (A:87-129)
1d: SCOP_d2x52a4 (A:130-171)
1e: SCOP_d2x52b1 (B:2-52)
1f: SCOP_d2x52b2 (B:53-86)
1g: SCOP_d2x52b3 (B:87-129)
1h: SCOP_d2x52b4 (B:130-171)
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Protein Domains
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(
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Class
:
Small proteins
(3458)
Fold
:
Knottins (small inhibitors, toxins, lectins)
(761)
Superfamily
:
Plant lectins/antimicrobial peptides
(31)
Family
:
automated matches
(2)
Protein domain
:
automated matches
(2)
Wheat (Triticum aestivum) [TaxId: 4565]
(1)
1a
d2x52a1
A:1-52
1b
d2x52a2
A:53-86
1c
d2x52a3
A:87-129
1d
d2x52a4
A:130-171
1e
d2x52b1
B:2-52
1f
d2x52b2
B:53-86
1g
d2x52b3
B:87-129
1h
d2x52b4
B:130-171
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CATH Domains
(1, 8)
Info
all CATH domains
1a: CATH_2x52A04 (A:129-171)
1b: CATH_2x52A02 (A:43-85)
1c: CATH_2x52B02 (B:43-85)
1d: CATH_2x52B04 (B:129-171)
1e: CATH_2x52A03 (A:86-128)
1f: CATH_2x52B03 (B:86-128)
1g: CATH_2x52A01 (A:2-42)
1h: CATH_2x52B01 (B:2-42)
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Organisms
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)
(
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Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Wheat Germ Agglutinin (Isolectin 2); domain 1
(140)
Homologous Superfamily
:
[code=3.30.60.10, no name defined]
(23)
Bread wheat (Triticum aestivum)
(10)
1a
2x52A04
A:129-171
1b
2x52A02
A:43-85
1c
2x52B02
B:43-85
1d
2x52B04
B:129-171
1e
2x52A03
A:86-128
1f
2x52B03
B:86-128
1g
2x52A01
A:2-42
1h
2x52B01
B:2-42
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Pfam Domains
(1, 8)
Info
all PFAM domains
1a: PFAM_Chitin_bind_1_2x52B01 (B:129-169)
1b: PFAM_Chitin_bind_1_2x52B02 (B:129-169)
1c: PFAM_Chitin_bind_1_2x52B03 (B:129-169)
1d: PFAM_Chitin_bind_1_2x52B04 (B:129-169)
1e: PFAM_Chitin_bind_1_2x52B05 (B:129-169)
1f: PFAM_Chitin_bind_1_2x52B06 (B:129-169)
1g: PFAM_Chitin_bind_1_2x52B07 (B:129-169)
1h: PFAM_Chitin_bind_1_2x52B08 (B:129-169)
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)
Clan
:
no clan defined [family: Chitin_bind_1]
(17)
Family
:
Chitin_bind_1
(17)
Triticum aestivum (Wheat)
(8)
1a
Chitin_bind_1-2x52B01
B:129-169
1b
Chitin_bind_1-2x52B02
B:129-169
1c
Chitin_bind_1-2x52B03
B:129-169
1d
Chitin_bind_1-2x52B04
B:129-169
1e
Chitin_bind_1-2x52B05
B:129-169
1f
Chitin_bind_1-2x52B06
B:129-169
1g
Chitin_bind_1-2x52B07
B:129-169
1h
Chitin_bind_1-2x52B08
B:129-169
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