SMTL ID : 8i4t.1

Structure of the asymmetric unit of SFTSV virion

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-12-12-mer

Ligands

6 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: 5 residues within 4Å: Chain B: I.38, S.59, N.63, H.64, W.103 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:P.39 NAG-NAG.2: 4 residues within 4Å: Chain P: H.40, R.62, N.63, W.103 1 PLIP interactions: 1 interactions with chain P Hydrogen bonds: P:H.40 NAG-NAG.3: 3 residues within 4Å: Chain R: H.40, N.63, W.103 1 PLIP interactions: 1 interactions with chain R Hydrophobic interactions: R:W.103 NAG-NAG.4: 2 residues within 4Å: Chain T: H.40, N.63 No protein-ligand interaction detected (PLIP) NAG-NAG.5: 4 residues within 4Å: Chain U: H.40, S.59, W.60, N.63 No protein-ligand interaction detected (PLIP) NAG-NAG.6: 3 residues within 4Å: Chain W: H.40, N.63, W.103 1 PLIP interactions: 1 interactions with chain W Hydrophobic interactions: W:H.40

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

NAG.7: 1 residues within 4Å: Chain A: N.354 Ligand excluded by PLIP NAG.8: 1 residues within 4Å: Chain A: N.376 Ligand excluded by PLIP NAG.9: 1 residues within 4Å: Chain A: N.293 Ligand excluded by PLIP NAG.10: 2 residues within 4Å: Chain B: N.33, K.34 Ligand excluded by PLIP NAG.11: 3 residues within 4Å: Chain C: N.33, S.35, N.37 Ligand excluded by PLIP NAG.12: 4 residues within 4Å: Chain C: S.59, N.63, H.64, W.103 Ligand excluded by PLIP NAG.13: 1 residues within 4Å: Chain D: N.354 Ligand excluded by PLIP NAG.14: 2 residues within 4Å: Chain D: K.243, N.293 Ligand excluded by PLIP NAG.15: 1 residues within 4Å: Chain D: N.376 Ligand excluded by PLIP NAG.16: 3 residues within 4Å: Chain E: N.33, S.35, N.37 Ligand excluded by PLIP NAG.17: 4 residues within 4Å: Chain E: S.59, N.63, H.64, W.103 Ligand excluded by PLIP NAG.18: 1 residues within 4Å: Chain F: N.354 Ligand excluded by PLIP NAG.19: 3 residues within 4Å: Chain F: K.243, A.292, N.293 Ligand excluded by PLIP NAG.20: 1 residues within 4Å: Chain F: N.376 Ligand excluded by PLIP NAG.21: 2 residues within 4Å: Chain G: N.33, S.35 Ligand excluded by PLIP NAG.22: 4 residues within 4Å: Chain G: S.59, N.63, H.64, W.103 Ligand excluded by PLIP NAG.23: 1 residues within 4Å: Chain H: N.354 Ligand excluded by PLIP NAG.24: 3 residues within 4Å: Chain H: K.243, A.292, N.293 Ligand excluded by PLIP NAG.25: 1 residues within 4Å: Chain H: N.376 Ligand excluded by PLIP NAG.26: 3 residues within 4Å: Chain I: N.33, S.35, N.37 Ligand excluded by PLIP NAG.27: 4 residues within 4Å: Chain I: S.59, N.63, H.64, W.103 Ligand excluded by PLIP NAG.28: 2 residues within 4Å: Chain J: N.354, K.370 Ligand excluded by PLIP NAG.29: 3 residues within 4Å: Chain J: K.243, A.292, N.293 Ligand excluded by PLIP NAG.30: 1 residues within 4Å: Chain J: N.376 Ligand excluded by PLIP NAG.31: 3 residues within 4Å: Chain K: N.33, S.35, N.37 Ligand excluded by PLIP NAG.32: 4 residues within 4Å: Chain K: S.59, N.63, H.64, W.103 Ligand excluded by PLIP NAG.33: 1 residues within 4Å: Chain L: N.354 Ligand excluded by PLIP NAG.34: 3 residues within 4Å: Chain L: K.243, A.292, N.293 Ligand excluded by PLIP NAG.35: 1 residues within 4Å: Chain L: N.376 Ligand excluded by PLIP NAG.36: 1 residues within 4Å: Chain M: N.33 Ligand excluded by PLIP NAG.37: 5 residues within 4Å: Chain M: S.59, W.60, N.63, H.64, W.103 Ligand excluded by PLIP NAG.38: 1 residues within 4Å: Chain N: N.354 Ligand excluded by PLIP NAG.39: 3 residues within 4Å: Chain N: K.243, A.292, N.293 Ligand excluded by PLIP NAG.40: 1 residues within 4Å: Chain N: N.376 Ligand excluded by PLIP NAG.41: 2 residues within 4Å: Chain O: A.292, N.293 Ligand excluded by PLIP NAG.42: 2 residues within 4Å: Chain O: T.353, N.354 Ligand excluded by PLIP NAG.43: 1 residues within 4Å: Chain O: N.376 Ligand excluded by PLIP NAG.44: 1 residues within 4Å: Chain P: N.33 Ligand excluded by PLIP NAG.45: 3 residues within 4Å: Chain Q: P.232, A.292, N.293 Ligand excluded by PLIP NAG.46: 1 residues within 4Å: Chain Q: N.354 Ligand excluded by PLIP NAG.47: 2 residues within 4Å: Chain Q: N.376, E.394 Ligand excluded by PLIP NAG.48: 5 residues within 4Å: Chain R: H.31, S.32, N.33, S.35, A.36 Ligand excluded by PLIP NAG.49: 2 residues within 4Å: Chain S: A.292, N.293 Ligand excluded by PLIP NAG.50: 2 residues within 4Å: Chain S: T.353, N.354 Ligand excluded by PLIP NAG.51: 3 residues within 4Å: Chain S: S.374, K.375, N.376 Ligand excluded by PLIP NAG.52: 4 residues within 4Å: Chain T: N.33, K.34, S.35, A.36 Ligand excluded by PLIP NAG.53: 2 residues within 4Å: Chain U: N.33, S.35 Ligand excluded by PLIP NAG.54: 2 residues within 4Å: Chain V: A.292, N.293 Ligand excluded by PLIP NAG.55: 1 residues within 4Å: Chain V: N.354 Ligand excluded by PLIP NAG.56: 1 residues within 4Å: Chain V: N.376 Ligand excluded by PLIP NAG.57: 3 residues within 4Å: Chain W: N.33, K.34, S.35 Ligand excluded by PLIP NAG.58: 3 residues within 4Å: Chain X: P.232, A.292, N.293 Ligand excluded by PLIP NAG.59: 3 residues within 4Å: Chain G: H.353 Chain X: T.353, N.354 Ligand excluded by PLIP NAG.60: 1 residues within 4Å: Chain X: N.376 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Du, S. et al., Cryo-EM structure of severe fever with thrombocytopenia syndrome virus. Nat Commun (2023)

Release Date

2023-09-13

Peptides

Envelopment polyprotein: ADFHJLNOQSVX
Envelopment polyprotein: BCEGIKMPRTUW

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
G

D
B

F
H

H
I

J
J

L
K

N
L

O
T

Q
O

S
V

V
P

X
W

B
F

C
A

E
C

G
D

I
E

K
U

M
X

P
M

R
Q

T
R

U
N

W
S

Envelopment polyprotein

Envelopment polyprotein

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