SMTL ID : 1f8v.3 (3 other biounits)

THE STRUCTURE OF PARIACOTO VIRUS REVEALS A DODECAHEDRAL CAGE OF DUPLEX RNA

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

hetero-18-18-mer

Ligands

6 x CA: CALCIUM ION(Non-covalent)

CA.1: 6 residues within 4Å: Chain B: D.243, E.245 Chain D: D.243, E.245 Chain F: D.243, E.245 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain F Metal complexes: B:D.243, F:D.243 CA.3: 6 residues within 4Å: Chain I: D.243, E.245 Chain K: D.243, E.245 Chain M: D.243, E.245 2 PLIP interactions: 1 interactions with chain M, 1 interactions with chain I Metal complexes: M:D.243, I:D.243 CA.5: 6 residues within 4Å: Chain P: D.243, E.245 Chain R: D.243, E.245 Chain T: D.243, E.245 2 PLIP interactions: 1 interactions with chain T, 1 interactions with chain P Metal complexes: T:D.243, P:D.243 CA.7: 6 residues within 4Å: Chain 0: D.243, E.245 Chain W: D.243, E.245 Chain Y: D.243, E.245 2 PLIP interactions: 1 interactions with chain W, 1 interactions with chain 0 Metal complexes: W:D.243, 0:D.243 CA.9: 6 residues within 4Å: Chain 3: D.243, E.245 Chain 5: D.243, E.245 Chain 7: D.243, E.245 2 PLIP interactions: 1 interactions with chain 3, 1 interactions with chain 7 Metal complexes: 3:D.243, 7:D.243 CA.11: 6 residues within 4Å: Chain a: D.243, E.245 Chain c: D.243, E.245 Chain e: D.243, E.245 2 PLIP interactions: 1 interactions with chain a, 1 interactions with chain e Metal complexes: a:D.243, e:D.243

6 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 4 residues within 4Å: Chain B: D.243 Chain C: M.40 Chain D: D.243 Chain F: D.243 No protein-ligand interaction detected (PLIP) SO4.4: 4 residues within 4Å: Chain I: D.243 Chain J: M.40 Chain K: D.243 Chain M: D.243 No protein-ligand interaction detected (PLIP) SO4.6: 4 residues within 4Å: Chain P: D.243 Chain Q: M.40 Chain R: D.243 Chain T: D.243 2 PLIP interactions: 1 interactions with chain R, 1 interactions with chain Q Hydrogen bonds: R:D.243 Water bridges: Q:Y.39 SO4.8: 4 residues within 4Å: Chain 0: D.243 Chain W: D.243 Chain X: M.40 Chain Y: D.243 No protein-ligand interaction detected (PLIP) SO4.10: 4 residues within 4Å: Chain 3: D.243 Chain 4: M.40 Chain 5: D.243 Chain 7: D.243 2 PLIP interactions: 1 interactions with chain 5, 1 interactions with chain 4 Hydrogen bonds: 5:D.243 Water bridges: 4:Y.39 SO4.12: 4 residues within 4Å: Chain a: D.243 Chain b: M.40 Chain c: D.243 Chain e: D.243 1 PLIP interactions: 1 interactions with chain b Water bridges: b:Y.39

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tang, L. et al., The structure of pariacoto virus reveals a dodecahedral cage of duplex RNA. Nat.Struct.Biol. (2001)

Release Date

2000-12-06

Peptides

MATURE CAPSID PROTEIN BETA: BDFIKMPRTWY0357ace
MATURE CAPSID PROTEIN GAMMA: CEGJLNQSUXZ1468bdf

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

B
A

D
B

F
C

I
A

K
B

M
C

P
A

R
B

T
C

W
A

Y
B

0
C

3
A

5
B

7
C

a
A

c
B

e
C

C
D

E
E

G
F

J
D

L
E

N
F

Q
D

S
E

U
F

X
D

Z
E

1
F

4
D

6
E

8
F

b
D

d
E

f
F

MATURE CAPSID PROTEIN BETA

MATURE CAPSID PROTEIN GAMMA

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