SMTL ID : 6mrl.3 (3 other biounits)

Cucumber Leaf Spot Virus

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

homo-18-mer

Ligands

18 x CA: CALCIUM ION(Non-covalent)

CA.1: 5 residues within 4Å: Chain A: D.146, Q.260 Chain C: D.174, D.176, D.179 4 PLIP interactions: 3 interactions with chain C, 1 interactions with chain A Metal complexes: C:D.174, C:D.174, C:D.179, A:D.146 CA.2: 5 residues within 4Å: Chain A: D.174, D.176, D.179 Chain B: D.146, Q.260 4 PLIP interactions: 1 interactions with chain B, 3 interactions with chain A Metal complexes: B:D.146, A:D.174, A:D.174, A:D.179 CA.3: 5 residues within 4Å: Chain B: D.176, D.179 Chain C: D.146, D.218, Q.260 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain C Metal complexes: B:D.176, B:D.179, B:D.179, C:D.146, C:D.218 CA.4: 5 residues within 4Å: Chain D: D.146, Q.260 Chain F: D.174, D.176, D.179 4 PLIP interactions: 3 interactions with chain F, 1 interactions with chain D Metal complexes: F:D.174, F:D.174, F:D.179, D:D.146 CA.5: 5 residues within 4Å: Chain D: D.174, D.176, D.179 Chain E: D.146, Q.260 4 PLIP interactions: 3 interactions with chain D, 1 interactions with chain E Metal complexes: D:D.174, D:D.174, D:D.179, E:D.146 CA.6: 5 residues within 4Å: Chain E: D.176, D.179 Chain F: D.146, D.218, Q.260 5 PLIP interactions: 3 interactions with chain E, 2 interactions with chain F Metal complexes: E:D.176, E:D.179, E:D.179, F:D.146, F:D.218 CA.7: 5 residues within 4Å: Chain G: D.146, Q.260 Chain I: D.174, D.176, D.179 4 PLIP interactions: 3 interactions with chain I, 1 interactions with chain G Metal complexes: I:D.174, I:D.174, I:D.179, G:D.146 CA.8: 5 residues within 4Å: Chain G: D.174, D.176, D.179 Chain H: D.146, Q.260 4 PLIP interactions: 3 interactions with chain G, 1 interactions with chain H Metal complexes: G:D.174, G:D.174, G:D.179, H:D.146 CA.9: 5 residues within 4Å: Chain H: D.176, D.179 Chain I: D.146, D.218, Q.260 5 PLIP interactions: 3 interactions with chain H, 2 interactions with chain I Metal complexes: H:D.176, H:D.179, H:D.179, I:D.146, I:D.218 CA.10: 5 residues within 4Å: Chain J: D.146, Q.260 Chain L: D.174, D.176, D.179 4 PLIP interactions: 1 interactions with chain J, 3 interactions with chain L Metal complexes: J:D.146, L:D.174, L:D.174, L:D.179 CA.11: 5 residues within 4Å: Chain J: D.174, D.176, D.179 Chain K: D.146, Q.260 4 PLIP interactions: 3 interactions with chain J, 1 interactions with chain K Metal complexes: J:D.174, J:D.174, J:D.179, K:D.146 CA.12: 5 residues within 4Å: Chain K: D.176, D.179 Chain L: D.146, D.218, Q.260 5 PLIP interactions: 3 interactions with chain K, 2 interactions with chain L Metal complexes: K:D.176, K:D.179, K:D.179, L:D.146, L:D.218 CA.13: 5 residues within 4Å: Chain M: D.146, Q.260 Chain O: D.174, D.176, D.179 4 PLIP interactions: 3 interactions with chain O, 1 interactions with chain M Metal complexes: O:D.174, O:D.174, O:D.179, M:D.146 CA.14: 5 residues within 4Å: Chain M: D.174, D.176, D.179 Chain N: D.146, Q.260 4 PLIP interactions: 3 interactions with chain M, 1 interactions with chain N Metal complexes: M:D.174, M:D.174, M:D.179, N:D.146 CA.15: 5 residues within 4Å: Chain N: D.176, D.179 Chain O: D.146, D.218, Q.260 5 PLIP interactions: 3 interactions with chain N, 2 interactions with chain O Metal complexes: N:D.176, N:D.179, N:D.179, O:D.146, O:D.218 CA.16: 5 residues within 4Å: Chain P: D.146, Q.260 Chain R: D.174, D.176, D.179 4 PLIP interactions: 3 interactions with chain R, 1 interactions with chain P Metal complexes: R:D.174, R:D.174, R:D.179, P:D.146 CA.17: 5 residues within 4Å: Chain P: D.174, D.176, D.179 Chain Q: D.146, Q.260 4 PLIP interactions: 3 interactions with chain P, 1 interactions with chain Q Metal complexes: P:D.174, P:D.174, P:D.179, Q:D.146 CA.18: 5 residues within 4Å: Chain Q: D.176, D.179 Chain R: D.146, D.218, Q.260 5 PLIP interactions: 3 interactions with chain Q, 2 interactions with chain R Metal complexes: Q:D.176, Q:D.179, Q:D.179, R:D.146, R:D.218

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sherman, M.B. et al., Near-Atomic-Resolution Cryo-Electron Microscopy Structures of Cucumber Leaf Spot Virus and Red Clover Necrotic Mosaic Virus: Evolutionary Divergence at the Icosahedral Three-Fold Axes. J.Virol. (2020)

Release Date

2019-10-16

Peptides

p41: ABCDEFGHIJKLMNOPQR

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
D

D
A

E
B

F
D

G
A

H
B

I
D

J
A

K
B

L
D

M
A

N
B

O
D

P
A

Q
B

R
D

p41

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