SMTL ID : 3j27.3 (3 other biounits)

CryoEM structure of Dengue virus

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-18-18-mer

Ligands

18 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 6 residues within 4Å: Chain A: H.149, G.152, N.153, T.155, G.156 Chain M: G.102 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 4 residues within 4Å: Chain C: A.150, N.153, T.155, H.158 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 5 residues within 4Å: Chain C: G.102 Chain E: H.149, A.150, N.153, G.156 No protein-ligand interaction detected (PLIP) NAG-NAG.7: 6 residues within 4Å: Chain G: H.149, G.152, N.153, T.155, G.156 Chain Y: G.102 No protein-ligand interaction detected (PLIP) NAG-NAG.8: 4 residues within 4Å: Chain I: A.150, N.153, T.155, H.158 No protein-ligand interaction detected (PLIP) NAG-NAG.9: 5 residues within 4Å: Chain I: G.102 Chain K: H.149, A.150, N.153, G.156 No protein-ligand interaction detected (PLIP) NAG-NAG.13: 6 residues within 4Å: Chain A: G.102 Chain M: H.149, G.152, N.153, T.155, G.156 No protein-ligand interaction detected (PLIP) NAG-NAG.14: 4 residues within 4Å: Chain O: A.150, N.153, T.155, H.158 No protein-ligand interaction detected (PLIP) NAG-NAG.15: 5 residues within 4Å: Chain O: G.102 Chain Q: H.149, A.150, N.153, G.156 No protein-ligand interaction detected (PLIP) NAG-NAG.19: 6 residues within 4Å: Chain 4: G.102 Chain S: H.149, G.152, N.153, T.155, G.156 No protein-ligand interaction detected (PLIP) NAG-NAG.20: 4 residues within 4Å: Chain U: A.150, N.153, T.155, H.158 No protein-ligand interaction detected (PLIP) NAG-NAG.21: 5 residues within 4Å: Chain U: G.102 Chain W: H.149, A.150, N.153, G.156 No protein-ligand interaction detected (PLIP) NAG-NAG.25: 6 residues within 4Å: Chain G: G.102 Chain Y: H.149, G.152, N.153, T.155, G.156 No protein-ligand interaction detected (PLIP) NAG-NAG.26: 4 residues within 4Å: Chain 0: A.150, N.153, T.155, H.158 No protein-ligand interaction detected (PLIP) NAG-NAG.27: 5 residues within 4Å: Chain 0: G.102 Chain 2: H.149, A.150, N.153, G.156 No protein-ligand interaction detected (PLIP) NAG-NAG.31: 6 residues within 4Å: Chain 4: H.149, G.152, N.153, T.155, G.156 Chain S: G.102 No protein-ligand interaction detected (PLIP) NAG-NAG.32: 4 residues within 4Å: Chain 6: A.150, N.153, T.155, H.158 No protein-ligand interaction detected (PLIP) NAG-NAG.33: 5 residues within 4Å: Chain 6: G.102 Chain 8: H.149, A.150, N.153, G.156 No protein-ligand interaction detected (PLIP)

18 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.4: 1 residues within 4Å: Chain A: N.67 Ligand excluded by PLIP NAG.5: 1 residues within 4Å: Chain C: N.67 Ligand excluded by PLIP NAG.6: 2 residues within 4Å: Chain E: T.66, N.67 Ligand excluded by PLIP NAG.10: 1 residues within 4Å: Chain G: N.67 Ligand excluded by PLIP NAG.11: 1 residues within 4Å: Chain I: N.67 Ligand excluded by PLIP NAG.12: 2 residues within 4Å: Chain K: T.66, N.67 Ligand excluded by PLIP NAG.16: 1 residues within 4Å: Chain M: N.67 Ligand excluded by PLIP NAG.17: 1 residues within 4Å: Chain O: N.67 Ligand excluded by PLIP NAG.18: 2 residues within 4Å: Chain Q: T.66, N.67 Ligand excluded by PLIP NAG.22: 1 residues within 4Å: Chain S: N.67 Ligand excluded by PLIP NAG.23: 1 residues within 4Å: Chain U: N.67 Ligand excluded by PLIP NAG.24: 2 residues within 4Å: Chain W: T.66, N.67 Ligand excluded by PLIP NAG.28: 1 residues within 4Å: Chain Y: N.67 Ligand excluded by PLIP NAG.29: 1 residues within 4Å: Chain 0: N.67 Ligand excluded by PLIP NAG.30: 2 residues within 4Å: Chain 2: T.66, N.67 Ligand excluded by PLIP NAG.34: 1 residues within 4Å: Chain 4: N.67 Ligand excluded by PLIP NAG.35: 1 residues within 4Å: Chain 6: N.67 Ligand excluded by PLIP NAG.36: 2 residues within 4Å: Chain 8: T.66, N.67 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, X. et al., Cryo-EM structure of the mature dengue virus at 3.5-A resolution. Nat.Struct.Mol.Biol. (2012)

Release Date

2012-12-19

Peptides

Envelope protein E: ACEGIKMOQSUWY02468
Small envelope protein M: BDFHJLNPRTVXZ13579

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

E
E

G
A

I
C

K
E

M
A

O
C

Q
E

S
A

U
C

W
E

Y
A

0
C

2
E

4
A

6
C

8
E

B
B

D
D

F
F

H
B

J
D

L
F

N
B

P
D

R
F

T
B

V
D

X
F

Z
B

1
D

3
F

5
B

7
D

9
F

Envelope protein E

Small envelope protein M

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