SMTL ID : 9j1c.1

Structure of ConA/NAP-Man

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.43 Å

Oligo State

homo-tetramer

Ligands

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

MN.1: 5 residues within 4Å: Chain A: E.8, D.10, D.19, H.24, S.34 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:E.8, A:D.10, A:D.19, A:H.24 MN.3: 5 residues within 4Å: Chain B: E.8, D.10, D.19, H.24, S.34 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:E.8, B:D.10, B:D.19, B:H.24 MN.6: 4 residues within 4Å: Chain C: E.8, D.10, D.19, H.24 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:E.8, C:D.10, C:H.24 MN.9: 4 residues within 4Å: Chain D: E.8, D.10, D.19, H.24 3 PLIP interactions: 3 interactions with chain D Metal complexes: D:E.8, D:D.10, D:H.24

4 x CA: CALCIUM ION(Non-covalent)

CA.2: 4 residues within 4Å: Chain A: D.10, Y.12, N.14, D.19 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.10, A:D.10, A:Y.12, A:D.19 CA.4: 4 residues within 4Å: Chain B: D.10, Y.12, N.14, D.19 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:D.10, B:D.10, B:Y.12, B:D.19 CA.7: 4 residues within 4Å: Chain C: D.10, Y.12, N.14, D.19 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:D.10, C:Y.12, C:D.19 CA.10: 4 residues within 4Å: Chain D: D.10, Y.12, N.14, D.19 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:D.10, D:D.10, D:Y.12, D:D.19

2 x 01: ~{N}2,~{N}6-bis[2-[2-[(2~{S},3~{S},4~{S},5~{S},6~{R})-6-(hydroxymethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]oxyethoxy]ethyl]naphthalene-2,6-dicarboxamide

01.5: 10 residues within 4Å: Chain C: Y.12, N.14, G.98, L.99, Y.100, G.167, S.168, A.207, D.208, R.228 11 PLIP interactions: 11 interactions with chain C Hydrophobic interactions: C:L.99, C:L.99 Hydrogen bonds: C:N.14, C:N.14, C:G.98, C:L.99, C:Y.100, C:Y.100, C:G.167, C:G.167, C:R.228 01.8: 11 residues within 4Å: Chain D: Y.12, P.13, N.14, G.98, L.99, Y.100, H.205, A.207, D.208, G.227, R.228 8 PLIP interactions: 8 interactions with chain D Hydrogen bonds: D:Y.12, D:P.13, D:G.98, D:L.99, D:Y.100, D:Y.100, D:R.228 pi-Stacking: D:H.205

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, L. et al., Structure of ConA/NAP-Man. To Be Published

Release Date

2024-12-04

Peptides

Concanavalin-A: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
D

C
B

D
C

Concanavalin-A

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