SMTL ID : 8yvz.1

Semliki Forest virus viron

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-4-4-4-4-4-mer

Ligands

12 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA.1: 3 residues within 4Å: Chain A: R.134, M.136, N.141 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.2: 5 residues within 4Å: Chain A: H.116, N.264 Chain B: L.256, D.257, N.258 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.264 NAG-NAG-BMA.3: 4 residues within 4Å: Chain A: C.63, F.95 Chain B: N.196, T.198 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.4: 3 residues within 4Å: Chain E: R.134, M.136, N.141 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.5: 1 residues within 4Å: Chain F: N.141 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.6: 3 residues within 4Å: Chain G: R.134, M.136, N.141 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.7: 6 residues within 4Å: Chain E: H.116, E.209, N.264 Chain H: L.256, D.257, N.258 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:E.209, E:E.209 NAG-NAG-BMA.8: 2 residues within 4Å: Chain H: N.196, V.204 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.9: 5 residues within 4Å: Chain F: R.115, H.116 Chain I: L.256, D.257, N.258 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.10: 6 residues within 4Å: Chain F: C.63, F.95, E.99 Chain I: N.196, T.198, V.204 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.11: 6 residues within 4Å: Chain G: H.116, E.209, N.264 Chain J: L.256, D.257, N.258 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.12: 4 residues within 4Å: Chain G: C.63, F.95 Chain J: N.196, V.204 No protein-ligand interaction detected (PLIP)

4 x CA: CALCIUM ION(Non-covalent)

CA.13: 6 residues within 4Å: Chain Q: W.25, D.28, E.30, D.32, D.38, E.39 5 PLIP interactions: 5 interactions with chain Q Metal complexes: Q:W.25, Q:E.30, Q:D.32, Q:D.38, Q:E.39 CA.14: 6 residues within 4Å: Chain R: W.25, D.28, E.30, D.32, D.38, E.39 5 PLIP interactions: 5 interactions with chain R Metal complexes: R:D.28, R:D.28, R:D.32, R:D.38, R:E.39 CA.15: 6 residues within 4Å: Chain S: W.25, D.28, E.30, D.32, D.38, E.39 5 PLIP interactions: 5 interactions with chain S Metal complexes: S:W.25, S:D.28, S:D.32, S:D.38, S:E.39 CA.16: 6 residues within 4Å: Chain T: W.25, D.28, E.30, D.32, D.38, E.39 5 PLIP interactions: 5 interactions with chain T Metal complexes: T:W.25, T:D.28, T:E.30, T:D.38, T:E.39

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zheng, T., Structure of Semliki Forest virus at 3.02 Angstroms resolution. To Be Published

Release Date

2024-12-11

Peptides

Spike glycoprotein E1: AEFG
Spike glycoprotein E2: BHIJ
Spike glycoprotein E3: CKLM
capsid protein, partial: DNOP
Very low-density lipoprotein receptor: QRST

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

E
F

F
G

G
H

B
B

H
I

I
J

J
K

C
C

K
L

L
M

M
N

D
D

N
O

O
P

P
Q

Q
E

R
R

S
S

T
T

Membrane

We predict this structure to be a membrane protein.
Show / Hide

Spike glycoprotein E1

Spike glycoprotein E2

Spike glycoprotein E3

capsid protein, partial

Very low-density lipoprotein receptor

Related Entries With Identical Sequence