SMTL ID : 2boi.1

1.1A Structure of Chromobacterium Violaceum Lectin CV2L in Complex with alpha-methyl-fucoside

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.10 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, MFU.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, MFU.3 4 PLIP interactions: 1 interactions with chain B, 3 interactions with chain A Metal complexes: B:G.113, A:N.21, 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, MFU.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, MFU.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, MFU.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, MFU.9 4 PLIP interactions: 3 interactions with chain C, 1 interactions with chain D Metal complexes: C:N.21, 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, MFU.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, MFU.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 MFU: methyl alpha-L-fucopyranoside(Non-covalent)

MFU.3: 12 residues within 4Å: Chain A: N.21, S.22, A.23, T.45, E.94, D.95, D.98, D.100, D.103 Chain B: G.113 Ligands: CA.1, CA.2 8 PLIP interactions: 7 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:A.23, A:T.45 Hydrogen bonds: A:A.23, A:D.95, A:D.103, B:G.113 Water bridges: A:T.97, A:D.98 MFU.6: 13 residues within 4Å: Chain A: G.113 Chain B: N.21, S.22, A.23, T.45, E.94, D.95, G.96, D.98, D.100, D.103 Ligands: CA.4, CA.5 7 PLIP interactions: 6 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:A.23, B:T.45 Hydrogen bonds: B:A.23, B:D.95, A:G.113 Water bridges: B:T.97, B:D.98 MFU.9: 12 residues within 4Å: Chain C: N.21, S.22, A.23, T.45, E.94, D.95, D.98, D.100, D.103 Chain D: G.113 Ligands: CA.7, CA.8 8 PLIP interactions: 7 interactions with chain C, 1 interactions with chain D Hydrophobic interactions: C:A.23, C:T.45 Hydrogen bonds: C:A.23, C:D.95, C:D.103, D:G.113 Water bridges: C:T.97, C:D.98 MFU.12: 13 residues within 4Å: Chain C: G.113 Chain D: N.21, S.22, A.23, T.45, E.94, D.95, G.96, D.98, D.100, D.103 Ligands: CA.10, CA.11 7 PLIP interactions: 6 interactions with chain D, 1 interactions with chain C Hydrophobic interactions: D:A.23, D:T.45 Hydrogen bonds: D:A.23, D:D.95, C:G.113 Water bridges: D:T.97, D:D.98

Links

RCSB   PDBe   PDBj   PDBsum   CATH   PLIP

Citation

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

Release Date

2006-05-25

Peptides

CV-IIL LECTIN: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

CV-IIL LECTIN

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