SMTL ID : 2bv4.1

1.0A Structure of Chromobacterium Violaceum Lectin in Complex with alpha-methyl-mannoside

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.00 Å

Oligo State

homo-tetramer

Ligands

8 x CA: CALCIUM ION(Non-covalent)

CA.1: 6 residues within 4Å: Chain A: E.94, D.98, D.100, D.103 Ligands: CA.2, MMA.3 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:E.94, A:E.94, A:D.98, A:D.100, A:D.103 CA.2: 7 residues within 4Å: Chain A: N.21, D.100, N.102, D.103 Chain B: G.113 Ligands: CA.1, MMA.3 5 PLIP interactions: 1 interactions with chain B, 4 interactions with chain A Metal complexes: B:G.113, A:N.21, A:D.100, A:D.100, A:D.103 CA.4: 6 residues within 4Å: Chain B: E.94, D.98, D.100, D.103 Ligands: CA.5, MMA.6 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:E.94, B:E.94, B:D.98, B:D.100, B:D.103 CA.5: 7 residues within 4Å: Chain A: G.113 Chain B: N.21, D.100, N.102, D.103 Ligands: CA.4, MMA.6 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Metal complexes: B:N.21, B:D.100, B:D.103, A:G.113 CA.7: 6 residues within 4Å: Chain C: E.94, D.98, D.100, D.103 Ligands: CA.8, MMA.9 5 PLIP interactions: 5 interactions with chain C Metal complexes: C:E.94, C:E.94, C:D.98, C:D.100, C:D.103 CA.8: 7 residues within 4Å: Chain C: N.21, D.100, N.102, D.103 Chain D: G.113 Ligands: CA.7, MMA.9 5 PLIP interactions: 4 interactions with chain C, 1 interactions with chain D Metal complexes: C:N.21, C:D.100, C:D.100, C:D.103, D:G.113 CA.10: 6 residues within 4Å: Chain D: E.94, D.98, D.100, D.103 Ligands: CA.11, MMA.12 5 PLIP interactions: 5 interactions with chain D Metal complexes: D:E.94, D:E.94, D:D.98, D:D.100, D:D.103 CA.11: 7 residues within 4Å: Chain C: G.113 Chain D: N.21, D.100, N.102, D.103 Ligands: CA.10, MMA.12 4 PLIP interactions: 1 interactions with chain C, 3 interactions with chain D Metal complexes: C:G.113, D:N.21, D:D.100, D:D.103

4 x MMA: methyl alpha-D-mannopyranoside(Non-covalent)

MMA.3: 12 residues within 4Å: Chain A: N.21, S.22, A.23, A.24, E.94, D.95, D.98, D.100, D.103 Chain B: G.113 Ligands: CA.1, CA.2 7 PLIP interactions: 6 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:A.23, A:A.24, A:D.98, A:D.103, B:G.113 Water bridges: A:A.23, A:D.98 MMA.6: 12 residues within 4Å: Chain A: G.113 Chain B: N.21, S.22, A.23, A.24, E.94, D.95, D.98, D.100, D.103 Ligands: CA.4, CA.5 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:A.23, B:A.24, B:D.98, B:D.103, A:G.113 Water bridges: B:D.98 MMA.9: 12 residues within 4Å: Chain C: N.21, S.22, A.23, A.24, E.94, D.95, D.98, D.100, D.103 Chain D: G.113 Ligands: CA.7, CA.8 7 PLIP interactions: 6 interactions with chain C, 1 interactions with chain D Hydrogen bonds: C:A.23, C:A.24, C:D.98, C:D.103, D:G.113 Water bridges: C:A.23, C:D.98 MMA.12: 12 residues within 4Å: Chain C: G.113 Chain D: N.21, S.22, A.23, A.24, E.94, D.95, D.98, D.100, D.103 Ligands: CA.10, CA.11 6 PLIP interactions: 5 interactions with chain D, 1 interactions with chain C Hydrogen bonds: D:A.23, D:A.24, D:D.98, D:D.103, C:G.113 Water bridges: D:D.98

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pokorna, M. et al., Unusual Entropy Driven Affinity of Chromobacterium Violaceum Lectin Cv-Iil Towards Fucose and Mannose. Biochemistry (2006)

Release Date

2006-05-25

Peptides

LECTIN CV-IIL: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

LECTIN CV-IIL

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