SMTL ID : 1c8n.3 (4 other biounits)

TOBACCO NECROSIS VIRUS

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.25 Å

Oligo State

homo-18-mer

Ligands

30 x CA: CALCIUM ION(Non-covalent)

CA.1: 4 residues within 4Å: Chain A: T.219, N.275 Chain C: D.160, D.163 3 PLIP interactions: 1 interactions with chain A, 1 interactions with chain C, 1 Ligand-Water interactions Metal complexes: A:T.219, C:D.163, H2O.2 CA.2: 6 residues within 4Å: Chain A: S.173, Q.174, T.175, A.178 Chain D: N.93, S.94 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain D Metal complexes: A:S.173, A:T.175, D:S.94 CA.3: 5 residues within 4Å: Chain B: D.160, D.163 Chain C: S.218, T.219, N.275 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain C Metal complexes: B:D.160, B:D.163, C:T.219 CA.4: 5 residues within 4Å: Chain A: D.160, D.163 Chain B: S.218, T.219, N.275 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Metal complexes: B:T.219, A:D.160, A:D.163 CA.5: 3 residues within 4Å: Chain C: S.173, Q.174, T.175 2 PLIP interactions: 2 interactions with chain C Metal complexes: C:S.173, C:T.175 CA.6: 4 residues within 4Å: Chain D: T.219, N.275 Chain F: D.160, D.163 3 PLIP interactions: 1 interactions with chain F, 1 interactions with chain D, 1 Ligand-Water interactions Metal complexes: F:D.163, D:T.219, H2O.10 CA.7: 4 residues within 4Å: Chain D: S.173, Q.174, T.175, A.178 2 PLIP interactions: 2 interactions with chain D Metal complexes: D:S.173, D:T.175 CA.8: 5 residues within 4Å: Chain E: D.160, D.163 Chain F: S.218, T.219, N.275 3 PLIP interactions: 2 interactions with chain E, 1 interactions with chain F Metal complexes: E:D.160, E:D.163, F:T.219 CA.9: 5 residues within 4Å: Chain D: D.160, D.163 Chain E: S.218, T.219, N.275 3 PLIP interactions: 2 interactions with chain D, 1 interactions with chain E Metal complexes: D:D.160, D:D.163, E:T.219 CA.10: 5 residues within 4Å: Chain B: N.93, S.94 Chain F: S.173, Q.174, T.175 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain F Metal complexes: B:S.94, F:S.173, F:T.175 CA.11: 4 residues within 4Å: Chain G: T.219, N.275 Chain I: D.160, D.163 3 PLIP interactions: 1 interactions with chain G, 1 interactions with chain I, 1 Ligand-Water interactions Metal complexes: G:T.219, I:D.163, H2O.17 CA.12: 4 residues within 4Å: Chain G: S.173, Q.174, T.175, A.178 2 PLIP interactions: 2 interactions with chain G Metal complexes: G:S.173, G:T.175 CA.13: 5 residues within 4Å: Chain H: D.160, D.163 Chain I: S.218, T.219, N.275 3 PLIP interactions: 2 interactions with chain H, 1 interactions with chain I Metal complexes: H:D.160, H:D.163, I:T.219 CA.14: 5 residues within 4Å: Chain G: D.160, D.163 Chain H: S.218, T.219, N.275 3 PLIP interactions: 2 interactions with chain G, 1 interactions with chain H Metal complexes: G:D.160, G:D.163, H:T.219 CA.15: 5 residues within 4Å: Chain I: S.173, Q.174, T.175 Chain K: N.93, S.94 3 PLIP interactions: 2 interactions with chain I, 1 interactions with chain K Metal complexes: I:S.173, I:T.175, K:S.94 CA.16: 4 residues within 4Å: Chain J: T.219, N.275 Chain L: D.160, D.163 3 PLIP interactions: 1 interactions with chain J, 1 interactions with chain L, 1 Ligand-Water interactions Metal complexes: J:T.219, L:D.163, H2O.25 CA.17: 6 residues within 4Å: Chain G: N.93, S.94 Chain J: S.173, Q.174, T.175, A.178 3 PLIP interactions: 1 interactions with chain G, 2 interactions with chain J Metal complexes: G:S.94, J:S.173, J:T.175 CA.18: 5 residues within 4Å: Chain K: D.160, D.163 Chain L: S.218, T.219, N.275 3 PLIP interactions: 2 interactions with chain K, 1 interactions with chain L Metal complexes: K:D.160, K:D.163, L:T.219 CA.19: 5 residues within 4Å: Chain J: D.160, D.163 Chain K: S.218, T.219, N.275 3 PLIP interactions: 2 interactions with chain J, 1 interactions with chain K Metal complexes: J:D.160, J:D.163, K:T.219 CA.20: 3 residues within 4Å: Chain L: S.173, Q.174, T.175 2 PLIP interactions: 2 interactions with chain L Metal complexes: L:S.173, L:T.175 CA.21: 4 residues within 4Å: Chain M: T.219, N.275 Chain O: D.160, D.163 3 PLIP interactions: 1 interactions with chain O, 1 interactions with chain M, 1 Ligand-Water interactions Metal complexes: O:D.163, M:T.219, H2O.32 CA.22: 6 residues within 4Å: Chain M: S.173, Q.174, T.175, A.178 Chain P: N.93, S.94 3 PLIP interactions: 1 interactions with chain P, 2 interactions with chain M Metal complexes: P:S.94, M:S.173, M:T.175 CA.23: 5 residues within 4Å: Chain N: D.160, D.163 Chain O: S.218, T.219, N.275 3 PLIP interactions: 2 interactions with chain N, 1 interactions with chain O Metal complexes: N:D.160, N:D.163, O:T.219 CA.24: 5 residues within 4Å: Chain M: D.160, D.163 Chain N: S.218, T.219, N.275 3 PLIP interactions: 2 interactions with chain M, 1 interactions with chain N Metal complexes: M:D.160, M:D.163, N:T.219 CA.25: 3 residues within 4Å: Chain O: S.173, Q.174, T.175 2 PLIP interactions: 2 interactions with chain O Metal complexes: O:S.173, O:T.175 CA.26: 4 residues within 4Å: Chain P: T.219, N.275 Chain R: D.160, D.163 3 PLIP interactions: 1 interactions with chain P, 1 interactions with chain R, 1 Ligand-Water interactions Metal complexes: P:T.219, R:D.163, H2O.39 CA.27: 4 residues within 4Å: Chain P: S.173, Q.174, T.175, A.178 2 PLIP interactions: 2 interactions with chain P Metal complexes: P:S.173, P:T.175 CA.28: 5 residues within 4Å: Chain Q: D.160, D.163 Chain R: S.218, T.219, N.275 3 PLIP interactions: 2 interactions with chain Q, 1 interactions with chain R Metal complexes: Q:D.160, Q:D.163, R:T.219 CA.29: 5 residues within 4Å: Chain P: D.160, D.163 Chain Q: S.218, T.219, N.275 3 PLIP interactions: 1 interactions with chain Q, 2 interactions with chain P Metal complexes: Q:T.219, P:D.160, P:D.163 CA.30: 5 residues within 4Å: Chain N: N.93, S.94 Chain R: S.173, Q.174, T.175 3 PLIP interactions: 1 interactions with chain N, 2 interactions with chain R Metal complexes: N:S.94, R:S.173, R:T.175

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Oda, Y. et al., Crystal structure of tobacco necrosis virus at 2.25 A resolution. J.Mol.Biol. (2000)

Release Date

2000-08-30

Peptides

COAT PROTEIN: ABCDEFGHIJKLMNOPQR

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
A

E
B

F
C

G
A

H
B

I
C

J
A

K
B

L
C

M
A

N
B

O
C

P
A

Q
B

R
C

COAT PROTEIN

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