SMTL ID : 1jw6.2 (1 other biounit)

Crystal Structure of the Complex of Concanavalin A and Hexapeptide

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.93 Å

Oligo State

homo-tetramer

Ligands

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

MN.1: 4 residues within 4Å: Chain A: E.8, D.10, D.19, H.24 6 PLIP interactions: 4 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.8, A:D.10, A:D.19, A:H.24, H2O.2, H2O.2 MN.5: 4 residues within 4Å: Chain B: E.8, D.10, D.19, H.24 6 PLIP interactions: 4 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:E.8, B:D.10, B:D.19, B:H.24, H2O.5, H2O.5 MN.9: 4 residues within 4Å: Chain C: E.8, D.10, D.19, H.24 6 PLIP interactions: 4 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:E.8, C:D.10, C:D.19, C:H.24, H2O.9, H2O.9 MN.13: 4 residues within 4Å: Chain D: E.8, D.10, D.19, H.24 6 PLIP interactions: 4 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:E.8, D:D.10, D:D.19, D:H.24, H2O.12, H2O.12

4 x CA: CALCIUM ION(Non-covalent)

CA.2: 4 residues within 4Å: Chain A: D.10, Y.12, N.14, D.19 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.10, A:Y.12, A:D.19, H2O.2, H2O.2 CA.6: 4 residues within 4Å: Chain B: D.10, Y.12, N.14, D.19 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.10, B:Y.12, B:D.19, H2O.5, H2O.6 CA.10: 4 residues within 4Å: Chain C: D.10, Y.12, N.14, D.19 5 PLIP interactions: 3 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:D.10, C:Y.12, C:D.19, H2O.9, H2O.9 CA.14: 4 residues within 4Å: Chain D: D.10, Y.12, N.14, D.19 5 PLIP interactions: 3 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:D.10, D:Y.12, D:D.19, H2O.12, H2O.12

4 x PTD: PENTANEDIAL(Non-covalent)

PTD.3: 2 residues within 4Å: Chain A: Y.22, K.39 No protein-ligand interaction detected (PLIP) PTD.7: 2 residues within 4Å: Chain B: Y.22, K.39 No protein-ligand interaction detected (PLIP) PTD.11: 2 residues within 4Å: Chain C: Y.22, K.39 No protein-ligand interaction detected (PLIP) PTD.15: 2 residues within 4Å: Chain D: Y.22, K.39 No protein-ligand interaction detected (PLIP)

4 x IPA: ISOPROPYL ALCOHOL(Non-functional Binders)

IPA.4: 2 residues within 4Å: Chain A: P.86, E.87 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:P.86 Hydrogen bonds: A:E.87, A:E.87 IPA.8: 2 residues within 4Å: Chain B: P.86, E.87 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:P.86 Hydrogen bonds: B:E.87, B:E.87 IPA.12: 2 residues within 4Å: Chain C: P.86, E.87 4 PLIP interactions: 4 interactions with chain C Hydrophobic interactions: C:P.86 Hydrogen bonds: C:E.87, C:E.87, C:E.87 IPA.16: 2 residues within 4Å: Chain D: P.86, E.87 4 PLIP interactions: 4 interactions with chain D Hydrophobic interactions: D:P.86 Hydrogen bonds: D:E.87, D:E.87, D:E.87

4 x MET- TYR- TRP- TYR- PRO- TYR: PROTEIN (6-MER)(Non-covalent)

MET-TYR-TRP-TYR-PRO-TYR.17: 12 residues within 4Å: Chain B: E.87, W.182, E.183, S.184 Chain C: Q.132, F.133, S.134, K.135, D.136, G.149, D.151, G.152 9 PLIP interactions: 8 interactions with chain C, 1 interactions with chain B Hydrophobic interactions: C:K.135, C:D.136, B:W.182 Hydrogen bonds: C:Q.132, C:K.135, C:K.135, C:D.151, C:D.151 pi-Cation interactions: C:K.135 MET-TYR-TRP-TYR-PRO-TYR.18: 12 residues within 4Å: Chain A: E.87, W.182, E.183, S.184 Chain D: Q.132, F.133, S.134, K.135, D.136, G.149, D.151, G.152 9 PLIP interactions: 8 interactions with chain D, 1 interactions with chain A Hydrophobic interactions: D:K.135, D:D.136, A:W.182 Hydrogen bonds: D:Q.132, D:K.135, D:K.135, D:D.151, D:D.151 pi-Cation interactions: D:K.135 MET-TYR-TRP-TYR-PRO-TYR.19: 12 residues within 4Å: Chain A: Q.132, F.133, S.134, K.135, D.136, G.149, D.151, G.152 Chain D: E.87, W.182, E.183, S.184 10 PLIP interactions: 8 interactions with chain A, 2 interactions with chain D Hydrophobic interactions: A:K.135, A:D.136, D:W.182 Hydrogen bonds: A:Q.132, A:K.135, A:K.135, A:D.151, A:D.151, D:E.183 pi-Cation interactions: A:K.135 MET-TYR-TRP-TYR-PRO-TYR.20: 12 residues within 4Å: Chain B: Q.132, F.133, S.134, K.135, D.136, G.149, D.151, G.152 Chain C: E.87, W.182, E.183, S.184 10 PLIP interactions: 2 interactions with chain C, 8 interactions with chain B Hydrophobic interactions: C:W.182, B:K.135, B:D.136 Hydrogen bonds: C:E.183, B:Q.132, B:K.135, B:K.135, B:D.151, B:D.151 pi-Cation interactions: B:K.135

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, Z. et al., Crystal structure of the complex of concanavalin A and hexapeptide. J.Protein Chem. (2001)

Release Date

2001-09-26

Peptides

Concanavalin A: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Concanavalin A

Related Entries With Identical Sequence