SMTL ID : 1uh1.4 (3 other biounits)

Crystal structure of jacalin- GalNAc-beta(1-3)-Gal-alpha-O-Me complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

hetero-6-6-mer

Ligands

4 x AMG- NGA: 2-acetamido-2-deoxy-beta-D-galactopyranose-(1-3)-methyl alpha-D-galactopyranoside(Non-covalent)

AMG-NGA.1: 8 residues within 4Å: Chain A: G.1, Y.78, V.80, G.121, Y.122, W.123, D.125 Chain B: A.17 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.1, A:G.1, A:G.121, A:Y.122, A:W.123, A:W.123, A:G.1 Water bridges: A:V.79, A:V.79 AMG-NGA.2: 7 residues within 4Å: Chain C: G.1, Y.78, V.80, G.121, Y.122, W.123, D.125 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:G.1, C:G.1, C:G.121, C:Y.122, C:W.123, C:W.123, C:G.1 Water bridges: C:V.79 AMG-NGA.3: 7 residues within 4Å: Chain G: G.1, Y.78, V.80, G.121, Y.122, W.123, D.125 2 PLIP interactions: 2 interactions with chain G Hydrogen bonds: G:G.1, G:G.1, G:G.121, G:Y.122, G:W.123, G:W.123, G:G.1 Water bridges: G:V.79 AMG-NGA.5: 8 residues within 4Å: Chain A: K.90 Chain K: G.1, Y.78, V.80, G.121, Y.122, W.123, D.125 4 PLIP interactions: 2 interactions with chain K, 2 interactions with chain A Hydrogen bonds: K:G.1, K:G.1, K:G.121, K:Y.122, K:W.123, K:W.123, K:G.1, A:K.90 Water bridges: K:V.79 Hydrophobic interactions: A:K.90

2 x MGC: methyl 2-acetamido-2-deoxy-alpha-D-galactopyranoside(Non-covalent)

MGC.4: 10 residues within 4Å: Chain E: G.1, F.47, Y.78, V.80, G.121, Y.122, W.123, D.125 Chain K: V.98, T.99 9 PLIP interactions: 5 interactions with chain E, 4 interactions with chain K Hydrogen bonds: E:G.1, E:G.121, E:Y.122, E:W.123, E:D.125, K:T.99, K:T.99, K:T.99 Hydrophobic interactions: K:V.98 MGC.6: 10 residues within 4Å: Chain G: V.98, T.99 Chain I: G.1, F.47, Y.78, V.80, G.121, Y.122, W.123, D.125 9 PLIP interactions: 5 interactions with chain I, 4 interactions with chain G Hydrogen bonds: I:G.1, I:G.121, I:Y.122, I:W.123, I:D.125, G:T.99, G:T.99, G:T.99 Hydrophobic interactions: G:V.98

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jeyaprakash, A.A. et al., Structural Basis of the Carbohydrate Specificities of Jacalin: An X-ray and Modeling Study. J.MOL.BIOL. (2003)

Release Date

2003-09-23

Peptides

Agglutinin alpha chain: ACEGIK
Agglutinin beta-3 chain: BDFHJL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

C
G

E
A

G
C

I
A

K
C

B
F

D
H

F
B

H
D

J
B

L
D

Agglutinin alpha chain

Agglutinin beta-3 chain

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