SMTL ID : 1lgc.2 (1 other biounit)

INTERACTION OF A LEGUME LECTIN WITH THE N2 FRAGMENT OF HUMAN LACTOTRANSFERRIN OR WITH THE ISOLATED BIANTENNARY GLYCOPEPTIDE: ROLE OF THE FUCOSE MOIETY

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

hetero-2-2-mer

Ligands

2 x ASN- GLN: DIPEPTIDE(Non-covalent)

ASN-GLN.1: 2 residues within 4Å: Chain A: N.78 Ligands: NAG-NAG-BMA-MAN-NAG-GAL-SIA-MAN-FUC.2 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.78, A:N.78, A:N.78 ASN-GLN.6: 2 residues within 4Å: Chain C: N.78 Ligands: NAG-NAG-BMA-MAN-NAG-GAL-SIA-MAN-FUC.7 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:N.78, C:N.78, C:N.78

2 x NAG- NAG- BMA- MAN- NAG- GAL- SIA- MAN- FUC: N-acetyl-alpha-neuraminic acid-(2-6)-beta-D-galactopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-NAG-GAL-SIA-MAN-FUC.2: 14 residues within 4Å: Chain A: N.39, Y.77, N.78, A.80, D.81, T.96, G.98, G.99, F.123, N.125 Chain B: G.29, A.30, E.31 Ligands: ASN-GLN.1 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:E.31, A:N.39, B:A.30, A:N.39 Water bridges: A:Y.124, A:Y.124, A:N.39, A:N.39, A:N.39 Hydrophobic interactions: A:T.96 NAG-NAG-BMA-MAN-NAG-GAL-SIA-MAN-FUC.7: 14 residues within 4Å: Chain C: N.39, Y.77, N.78, A.80, D.81, T.96, G.98, G.99, F.123, N.125 Chain D: G.29, A.30, E.31 Ligands: ASN-GLN.6 3 PLIP interactions: 2 interactions with chain C, 1 interactions with chain D Water bridges: C:Y.124, C:Y.124, C:N.39, C:N.39, C:N.39 Hydrogen bonds: D:E.31, C:N.39, D:A.30, C:N.39 Hydrophobic interactions: C:T.96

2 x CA: CALCIUM ION(Non-covalent)

CA.3: 5 residues within 4Å: Chain A: D.81, D.121, F.123, N.125, D.129 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.81, A:D.121, A:D.121, A:F.123 CA.8: 5 residues within 4Å: Chain C: D.81, D.121, F.123, N.125, D.129 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:D.81, C:D.121, C:D.121, C:F.123

2 x MN: MANGANESE (II) ION(Non-covalent)

MN.4: 4 residues within 4Å: Chain A: E.119, D.121, D.129, H.136 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.119, A:D.121, A:D.129, A:H.136, H2O.1 MN.9: 4 residues within 4Å: Chain C: E.119, D.121, D.129, H.136 5 PLIP interactions: 4 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:E.119, C:D.121, C:D.129, C:H.136, H2O.4

2 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.5: 4 residues within 4Å: Chain A: S.146, I.147, N.148, T.149 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:T.149 Hydrogen bonds: A:N.148, A:T.149 MPD.10: 4 residues within 4Å: Chain C: S.146, I.147, N.148, T.149 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:T.149 Hydrogen bonds: C:N.148, C:T.149

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bourne, Y. et al., Structures of a legume lectin complexed with the human lactotransferrin N2 fragment, and with an isolated biantennary glycopeptide: role of the fucose moiety. Structure (1994)

Release Date

1994-08-31

Peptides

LEGUME ISOLECTIN II (ALPHA CHAIN): AC
LEGUME ISOLECTIN II (BETA CHAIN): BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

C
E

B
F

D
F

LEGUME ISOLECTIN II (ALPHA CHAIN)

LEGUME ISOLECTIN II (BETA CHAIN)

Related Entries With Identical Sequence