SMTL ID : 8y3h.2 (2 other biounits)

Cryo-EM structure of dengue virus serotype 2 strain D2Y98P-PP1 N153Q mutant in complex with human antibody 2D22 Fab at 37 deg C

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-15-15-15-15-mer

Ligands

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

NAG.1: 3 residues within 4Å: Chain A: N.67, F.90, M.118 Ligand excluded by PLIP NAG.2: 6 residues within 4Å: Chain C: N.67, R.89, F.90, M.118 Chain K: D.73, T.76 Ligand excluded by PLIP NAG.3: 4 residues within 4Å: Chain E: N.67, R.89, F.90, M.118 Ligand excluded by PLIP NAG.4: 3 residues within 4Å: Chain M: N.67, F.90, M.118 Ligand excluded by PLIP NAG.5: 6 residues within 4Å: Chain O: N.67, R.89, F.90, M.118 Chain W: D.73, T.76 Ligand excluded by PLIP NAG.6: 4 residues within 4Å: Chain Q: N.67, R.89, F.90, M.118 Ligand excluded by PLIP NAG.7: 3 residues within 4Å: Chain Y: N.67, F.90, M.118 Ligand excluded by PLIP NAG.8: 6 residues within 4Å: Chain 0: N.67, R.89, F.90, M.118 Chain 8: D.73, T.76 Ligand excluded by PLIP NAG.9: 4 residues within 4Å: Chain 2: N.67, R.89, F.90, M.118 Ligand excluded by PLIP NAG.10: 3 residues within 4Å: Chain a: N.67, F.90, M.118 Ligand excluded by PLIP NAG.11: 6 residues within 4Å: Chain c: N.67, R.89, F.90, M.118 Chain k: D.73, T.76 Ligand excluded by PLIP NAG.12: 4 residues within 4Å: Chain e: N.67, R.89, F.90, M.118 Ligand excluded by PLIP NAG.13: 3 residues within 4Å: Chain m: N.67, F.90, M.118 Ligand excluded by PLIP NAG.14: 6 residues within 4Å: Chain o: N.67, R.89, F.90, M.118 Chain w: D.73, T.76 Ligand excluded by PLIP NAG.15: 4 residues within 4Å: Chain q: N.67, R.89, F.90, M.118 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fibriansah, G. et al., Role of N-glycosylation at asparagine 153 of dengue envelope protein in immune response. To Be Published

Release Date

2025-01-29

Peptides

Envelope protein: ACEMOQY02acemoq
Membrane polyprotein: BDFNPRZ13bdfnpr
Human antibody 2D22 Fab heavy chain: GIKSUW468giksuw
Human antibody 2D22 Fab light chain: HJLTVX579hjltvx

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

E
E

M
A

O
C

Q
E

Y
A

0
C

2
E

a
A

c
C

e
E

m
A

o
C

q
E

B
B

D
D

F
F

N
B

P
D

R
F

Z
B

1
D

3
F

b
B

d
D

f
F

n
B

p
D

r
F

G
G

I
I

K
K

S
G

U
I

W
K

4
G

6
I

8
K

g
G

i
I

k
K

s
G

u
I

w
K

H
H

J
J

L
L

T
H

V
J

X
L

5
H

7
J

9
L

h
H

j
J

l
L

t
H

v
J

x
L

Envelope protein

Membrane polyprotein

Human antibody 2D22 Fab heavy chain

Human antibody 2D22 Fab light chain

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