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4D69
Asym. Unit
Info
Asym.Unit (933 KB)
Biol.Unit 1 (86 KB)
Biol.Unit 10 (85 KB)
Biol.Unit 11 (85 KB)
Biol.Unit 12 (85 KB)
Biol.Unit 2 (87 KB)
Biol.Unit 3 (87 KB)
Biol.Unit 4 (86 KB)
Biol.Unit 5 (85 KB)
Biol.Unit 6 (85 KB)
Biol.Unit 7 (84 KB)
Biol.Unit 8 (86 KB)
Biol.Unit 9 (86 KB)
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(1)
Title
:
SOYBEAN AGGLUTININ FROM GLYCINE MAX IN COMPLEX WITH THE ANTIGEN TN
Authors
:
D. Madariaga, N. Martinez-Saez, V. J. Somovilla, H. Coelho, J. Valero- J. Castro-Lopez, J. L. Asensio, J. Jimenez-Barbero, J. H. Busto, A. Av F. Marcelo, R. Hurtado-Guerrero, F. Corzana, J. M. Peregrina
Date
:
10 Nov 14 (Deposition) - 19 Nov 14 (Release) - 15 Apr 15 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.70
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L,O,P,Q,R,S,T,U,V,W,X,Y,Z
Biol. Unit 1: I,O (1x)
Biol. Unit 2: A,P (1x)
Biol. Unit 3: J,Q (1x)
Biol. Unit 4: B,R (1x)
Biol. Unit 5: C,S (1x)
Biol. Unit 6: D,T (1x)
Biol. Unit 7: E,U (1x)
Biol. Unit 8: L,V (1x)
Biol. Unit 9: G,W (1x)
Biol. Unit 10: F,X (1x)
Biol. Unit 11: K,Y (1x)
Biol. Unit 12: H,Z (1x)
Keywords
:
Sugar-Binding Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
D. Madariaga, N. Martinez-Saez, V. J. Somovilla, H. Coelho, J. Valero-Gonzalez, J. Castro-Lopez, J. L. Asensio, J. Jimenez-Barbero, J. H. Busto, A. Avenoza, F. Marcelo, R. Hurtado-Guerrero, F. Corzana, J. M. Peregrina
Detection Of Tumor-Associated Glycopeptides By Lectins: The Peptide Context Modulates Carbohydrate Recognition.
Acs Chem. Biol. V. 10 747 2015
[
close entry info
]
Hetero Components
(3, 60)
Info
All Hetero Components
1a: N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE (A2Ga)
1b: N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE (A2Gb)
1c: N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE (A2Gc)
1d: N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE (A2Gd)
1e: N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE (A2Ge)
1f: N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE (A2Gf)
1g: N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE (A2Gg)
1h: N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE (A2Gh)
1i: N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE (A2Gi)
1j: N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE (A2Gj)
1k: N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE (A2Gk)
1l: N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE (A2Gl)
2a: MANGANESE (II) ION (MNa)
2b: MANGANESE (II) ION (MNb)
2c: MANGANESE (II) ION (MNc)
2d: MANGANESE (II) ION (MNd)
2e: MANGANESE (II) ION (MNe)
2f: MANGANESE (II) ION (MNf)
2g: MANGANESE (II) ION (MNg)
2h: MANGANESE (II) ION (MNh)
2i: MANGANESE (II) ION (MNi)
2j: MANGANESE (II) ION (MNj)
2k: MANGANESE (II) ION (MNk)
2l: MANGANESE (II) ION (MNl)
2m: MANGANESE (II) ION (MNm)
2n: MANGANESE (II) ION (MNn)
2o: MANGANESE (II) ION (MNo)
2p: MANGANESE (II) ION (MNp)
2q: MANGANESE (II) ION (MNq)
2r: MANGANESE (II) ION (MNr)
2s: MANGANESE (II) ION (MNs)
2t: MANGANESE (II) ION (MNt)
2u: MANGANESE (II) ION (MNu)
2v: MANGANESE (II) ION (MNv)
2w: MANGANESE (II) ION (MNw)
2x: MANGANESE (II) ION (MNx)
3a: N-ACETYL-D-GLUCOSAMINE (NAGa)
3b: N-ACETYL-D-GLUCOSAMINE (NAGb)
3c: N-ACETYL-D-GLUCOSAMINE (NAGc)
3d: N-ACETYL-D-GLUCOSAMINE (NAGd)
3e: N-ACETYL-D-GLUCOSAMINE (NAGe)
3f: N-ACETYL-D-GLUCOSAMINE (NAGf)
3g: N-ACETYL-D-GLUCOSAMINE (NAGg)
3h: N-ACETYL-D-GLUCOSAMINE (NAGh)
3i: N-ACETYL-D-GLUCOSAMINE (NAGi)
3j: N-ACETYL-D-GLUCOSAMINE (NAGj)
3k: N-ACETYL-D-GLUCOSAMINE (NAGk)
3l: N-ACETYL-D-GLUCOSAMINE (NAGl)
3m: N-ACETYL-D-GLUCOSAMINE (NAGm)
3n: N-ACETYL-D-GLUCOSAMINE (NAGn)
3o: N-ACETYL-D-GLUCOSAMINE (NAGo)
3p: N-ACETYL-D-GLUCOSAMINE (NAGp)
3q: N-ACETYL-D-GLUCOSAMINE (NAGq)
3r: N-ACETYL-D-GLUCOSAMINE (NAGr)
3s: N-ACETYL-D-GLUCOSAMINE (NAGs)
3t: N-ACETYL-D-GLUCOSAMINE (NAGt)
3u: N-ACETYL-D-GLUCOSAMINE (NAGu)
3v: N-ACETYL-D-GLUCOSAMINE (NAGv)
3w: N-ACETYL-D-GLUCOSAMINE (NAGw)
3x: N-ACETYL-D-GLUCOSAMINE (NAGx)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
A2G
12
Ligand/Ion
N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE
2
MN
24
Ligand/Ion
MANGANESE (II) ION
3
NAG
24
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
[
close Hetero Component info
]
Sites
(48, 48)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
26: CC8 (SOFTWARE)
27: CC9 (SOFTWARE)
28: DC1 (SOFTWARE)
29: DC2 (SOFTWARE)
30: DC3 (SOFTWARE)
31: DC4 (SOFTWARE)
32: DC5 (SOFTWARE)
33: DC6 (SOFTWARE)
34: DC7 (SOFTWARE)
35: DC8 (SOFTWARE)
36: DC9 (SOFTWARE)
37: EC1 (SOFTWARE)
38: EC2 (SOFTWARE)
39: EC3 (SOFTWARE)
40: EC4 (SOFTWARE)
41: EC5 (SOFTWARE)
42: EC6 (SOFTWARE)
43: EC7 (SOFTWARE)
44: EC8 (SOFTWARE)
45: EC9 (SOFTWARE)
46: FC1 (SOFTWARE)
47: FC2 (SOFTWARE)
48: FC3 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLU A:124 , ASP A:126 , ASP A:133 , HIS A:138
BINDING SITE FOR RESIDUE MN A1236
02
AC2
SOFTWARE
ASP A:126 , PHE A:128 , ASN A:130 , ASP A:133
BINDING SITE FOR RESIDUE MN A1237
03
AC3
SOFTWARE
GLU B:124 , ASP B:126 , ASP B:133 , HIS B:138 , HOH B:2004
BINDING SITE FOR RESIDUE MN B1235
04
AC4
SOFTWARE
ASP B:126 , PHE B:128 , ASN B:130 , ASP B:133 , HOH B:2003
BINDING SITE FOR RESIDUE MN B1236
05
AC5
SOFTWARE
GLU C:124 , ASP C:126 , ASP C:133 , HIS C:138 , SER C:148
BINDING SITE FOR RESIDUE MN C1236
06
AC6
SOFTWARE
ASP C:126 , PHE C:128 , ASN C:130 , ASP C:133
BINDING SITE FOR RESIDUE MN C1237
07
AC7
SOFTWARE
GLU D:124 , ASP D:126 , ASP D:133 , HIS D:138 , HOH D:2007
BINDING SITE FOR RESIDUE MN D1236
08
AC8
SOFTWARE
ASP D:126 , PHE D:128 , ASN D:130 , ASP D:133
BINDING SITE FOR RESIDUE MN D1237
09
AC9
SOFTWARE
GLU E:124 , ASP E:126 , ASP E:133 , HIS E:138
BINDING SITE FOR RESIDUE MN E1236
10
BC1
SOFTWARE
ASP E:126 , PHE E:128 , ASN E:130 , ASP E:133 , HOH E:2003
BINDING SITE FOR RESIDUE MN E1237
11
BC2
SOFTWARE
GLU F:124 , ASP F:126 , ASP F:133 , HIS F:138 , SER F:148 , HOH F:2005
BINDING SITE FOR RESIDUE MN F1237
12
BC3
SOFTWARE
ASP F:126 , PHE F:128 , ASN F:130 , ASP F:133
BINDING SITE FOR RESIDUE MN F1238
13
BC4
SOFTWARE
GLU G:124 , ASP G:126 , ASP G:133 , HIS G:138 , HOH G:2003
BINDING SITE FOR RESIDUE MN G1236
14
BC5
SOFTWARE
ASP G:126 , PHE G:128 , ASN G:130 , ASP G:133
BINDING SITE FOR RESIDUE MN G1237
15
BC6
SOFTWARE
GLU H:124 , ASP H:126 , ASP H:133 , HIS H:138 , SER H:148
BINDING SITE FOR RESIDUE MN H1236
16
BC7
SOFTWARE
ASP H:126 , PHE H:128 , ASN H:130 , ASP H:133 , HOH H:2009
BINDING SITE FOR RESIDUE MN H1237
17
BC8
SOFTWARE
GLU I:124 , ASP I:126 , ASP I:133 , HIS I:138
BINDING SITE FOR RESIDUE MN I1236
18
BC9
SOFTWARE
ASP I:126 , PHE I:128 , ASN I:130 , ASP I:133 , HOH I:2004 , HOH I:2005
BINDING SITE FOR RESIDUE MN I1237
19
CC1
SOFTWARE
GLU J:124 , ASP J:126 , ASP J:133 , HIS J:138 , SER J:148
BINDING SITE FOR RESIDUE MN J1236
20
CC2
SOFTWARE
ASP J:126 , PHE J:128 , ASN J:130 , ASP J:133 , HOH J:2003
BINDING SITE FOR RESIDUE MN J1237
21
CC3
SOFTWARE
GLU K:124 , ASP K:126 , ASP K:133 , HIS K:138 , HOH K:2006
BINDING SITE FOR RESIDUE MN K1236
22
CC4
SOFTWARE
ASP K:126 , PHE K:128 , ASN K:130 , ASP K:133 , HOH K:2005
BINDING SITE FOR RESIDUE MN K1237
23
CC5
SOFTWARE
GLU L:124 , ASP L:126 , ASP L:133 , HIS L:138 , HOH L:2006
BINDING SITE FOR RESIDUE MN L1236
24
CC6
SOFTWARE
ASP L:126 , PHE L:128 , ASN L:130 , ASP L:133 , HOH L:2005
BINDING SITE FOR RESIDUE MN L1237
25
CC7
SOFTWARE
ASN A:9 , ASN A:75 , VAL A:161 , LEU A:224 , SER A:225
BINDING SITE FOR POLY-SACCHARIDE RESIDUES NAG A1238 THROUGH NAG A1239 BOUND TO ASN A 75
26
CC8
SOFTWARE
ASN B:9 , LYS B:10 , ASN B:75 , VAL B:161 , PRO B:182 , LEU B:224 , SER B:225
BINDING SITE FOR POLY-SACCHARIDE RESIDUES NAG B1237 THROUGH NAG B1238 BOUND TO ASN B 75
27
CC9
SOFTWARE
SER B:171 , THR B:172 , ASN C:9 , LYS C:10 , ASN C:75 , LEU C:224 , SER C:225
BINDING SITE FOR POLY-SACCHARIDE RESIDUES NAG C1238 THROUGH NAG C1239 BOUND TO ASN C 75
28
DC1
SOFTWARE
ASN D:9 , ASN D:75 , VAL D:161 , LEU D:224 , SER D:225
BINDING SITE FOR POLY-SACCHARIDE RESIDUES NAG D1238 THROUGH NAG D1239 BOUND TO ASN D 75
29
DC2
SOFTWARE
ASN E:9 , ASN E:75 , LEU E:224 , SER E:225
BINDING SITE FOR POLY-SACCHARIDE RESIDUES NAG E1238 THROUGH NAG E1239 BOUND TO ASN E 75
30
DC3
SOFTWARE
ASN F:9 , ASN F:75 , LEU F:224 , SER F:225
BINDING SITE FOR POLY-SACCHARIDE RESIDUES NAG F1235 THROUGH NAG F1236 BOUND TO ASN F 75
31
DC4
SOFTWARE
ASN G:9 , LYS G:10 , ASN G:75 , SER G:225
BINDING SITE FOR POLY-SACCHARIDE RESIDUES NAG G1238 THROUGH NAG G1239 BOUND TO ASN G 75
32
DC5
SOFTWARE
ASN H:9 , LYS H:10 , ASN H:75 , VAL H:161 , LEU H:224 , SER H:225
BINDING SITE FOR POLY-SACCHARIDE RESIDUES NAG H1238 THROUGH NAG H1239 BOUND TO ASN H 75
33
DC6
SOFTWARE
ASN I:9 , ASN I:75 , SER I:225
BINDING SITE FOR POLY-SACCHARIDE RESIDUES NAG I1238 THROUGH NAG I1239 BOUND TO ASN I 75
34
DC7
SOFTWARE
ASN J:9 , LYS J:10 , ASN J:75 , LEU J:224 , SER J:225
BINDING SITE FOR POLY-SACCHARIDE RESIDUES NAG J1238 THROUGH NAG J1239 BOUND TO ASN J 75
35
DC8
SOFTWARE
ASN K:9 , ASN K:75 , LEU K:224 , SER K:225
BINDING SITE FOR POLY-SACCHARIDE RESIDUES NAG K1238 THROUGH NAG K1239 BOUND TO ASN K 75
36
DC9
SOFTWARE
ASN L:9 , ASN L:75 , LEU L:224 , SER L:225
BINDING SITE FOR POLY-SACCHARIDE RESIDUES NAG L1238 THROUGH NAG L1239 BOUND TO ASN L 75
37
EC1
SOFTWARE
ASP I:88 , ALA I:105 , GLY I:106 , PHE I:128 , ASN I:130 , GLY I:213 , LEU I:214 , ASP I:215 , ILE I:216 , HOH I:2003 , ASP O:3 , THR O:4
BINDING SITE FOR MONO-SACCHARIDE A2G I1235 BOUND TO THR O 4
38
EC2
SOFTWARE
ASP A:88 , PHE A:128 , ASN A:130 , LEU A:214 , ASP A:215 , ILE A:216 , ASP P:11 , THR P:12
BINDING SITE FOR MONO-SACCHARIDE A2G A1235 BOUND TO THR P 12
39
EC3
SOFTWARE
ASP J:88 , ALA J:105 , GLY J:106 , PHE J:128 , ASN J:130 , GLY J:213 , LEU J:214 , ASP J:215 , ILE J:216 , ASP Q:3 , THR Q:4
BINDING SITE FOR MONO-SACCHARIDE A2G J1235 BOUND TO THR Q 4
40
EC4
SOFTWARE
ASP B:88 , ALA B:105 , GLY B:106 , PHE B:128 , ASN B:130 , GLY B:213 , LEU B:214 , ASP B:215 , ILE B:216 , ASP R:3 , THR R:4
BINDING SITE FOR MONO-SACCHARIDE A2G B1234 BOUND TO THR R 4
41
EC5
SOFTWARE
ASP C:88 , ALA C:105 , GLY C:106 , ASN C:130 , LEU C:214 , ASP C:215 , THR S:4
BINDING SITE FOR MONO-SACCHARIDE A2G C1235 BOUND TO THR S 4
42
EC6
SOFTWARE
ASP D:88 , ALA D:105 , GLY D:106 , ASN D:130 , GLY D:213 , LEU D:214 , ASP D:215 , ASP T:3 , THR T:4
BINDING SITE FOR MONO-SACCHARIDE A2G D1235 BOUND TO THR T 4
43
EC7
SOFTWARE
ASP E:88 , ALA E:105 , GLY E:106 , ASN E:130 , GLY E:213 , LEU E:214 , ASP E:215 , ILE E:216 , ASP U:3 , THR U:4
BINDING SITE FOR MONO-SACCHARIDE A2G E1235 BOUND TO THR U 4
44
EC8
SOFTWARE
ASP L:88 , ALA L:105 , GLY L:106 , PHE L:128 , ASN L:130 , GLY L:213 , LEU L:214 , ASP L:215 , ILE L:216 , ASP V:3 , THR V:4
BINDING SITE FOR MONO-SACCHARIDE A2G L1235 BOUND TO THR V 4
45
EC9
SOFTWARE
ASP G:88 , GLY G:106 , PHE G:128 , ASN G:130 , GLY G:213 , LEU G:214 , ASP G:215 , ASP W:3 , THR W:4
BINDING SITE FOR MONO-SACCHARIDE A2G G1235 BOUND TO THR W 4
46
FC1
SOFTWARE
ASP F:88 , ALA F:105 , GLY F:106 , PHE F:128 , ASN F:130 , LEU F:214 , ASP F:215 , ASP X:3 , THR X:4 , ARG X:5
BINDING SITE FOR MONO-SACCHARIDE A2G F1239 BOUND TO THR X 4
47
FC2
SOFTWARE
ASP K:88 , ALA K:105 , GLY K:106 , PHE K:128 , ASN K:130 , GLY K:213 , LEU K:214 , ASP K:215 , ILE K:216 , ASP Y:3 , THR Y:4
BINDING SITE FOR MONO-SACCHARIDE A2G K1235 BOUND TO THR Y 4
48
FC3
SOFTWARE
ASP H:88 , ALA H:105 , GLY H:106 , PHE H:128 , ASN H:130 , LEU H:214 , ASP H:215 , ASP Z:3 , THR Z:4
BINDING SITE FOR MONO-SACCHARIDE A2G H1235 BOUND TO THR Z 4
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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[
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PROSITE Patterns/Profiles
(2, 24)
Info
All PROSITE Patterns/Profiles
1: LECTIN_LEGUME_BETA (A:121-127,B:121-127,C:121-127,D:12...)
2: LECTIN_LEGUME_ALPHA (A:200-209,B:200-209,C:200-209,D:20...)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
LECTIN_LEGUME_BETA
PS00307
Legume lectins beta-chain signature.
LEC_SOYBN
153-159
12
A:121-127
B:121-127
C:121-127
D:121-127
E:121-127
F:121-127
G:121-127
H:121-127
I:121-127
J:121-127
K:121-127
L:121-127
2
LECTIN_LEGUME_ALPHA
PS00308
Legume lectins alpha-chain signature.
LEC_SOYBN
232-241
12
A:200-209
B:200-209
C:200-209
D:200-209
E:200-209
F:200-209
G:200-209
H:200-209
I:200-209
J:200-209
K:200-209
L:200-209
[
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Exons
(0, 0)
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All Exons
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Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
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CATH Domains
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all CATH domains
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Pfam Domains
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all PFAM domains
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Asym.Unit (933 KB)
Header - Asym.Unit
Biol.Unit 1 (86 KB)
Header - Biol.Unit 1
Biol.Unit 10 (85 KB)
Header - Biol.Unit 10
Biol.Unit 11 (85 KB)
Header - Biol.Unit 11
Biol.Unit 12 (85 KB)
Header - Biol.Unit 12
Biol.Unit 2 (87 KB)
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Biol.Unit 3 (87 KB)
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Biol.Unit 4 (86 KB)
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Biol.Unit 5 (85 KB)
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Biol.Unit 6 (85 KB)
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Biol.Unit 8 (86 KB)
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