SMTL ID : 6ppo.3 (3 other biounits)

Rhinovirus C15 complexed with domain I of receptor CDHR3

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-6-6-6-6-6-mer

Ligands

18 x CA: CALCIUM ION(Non-covalent)

CA.1: 5 residues within 4Å: Chain E: E.25, E.87, D.117, V.118, N.119 2 PLIP interactions: 2 interactions with chain E Metal complexes: E:E.87, E:D.117 CA.2: 2 residues within 4Å: Chain E: E.25, E.87 3 PLIP interactions: 3 interactions with chain E Metal complexes: E:E.25, E:E.87, E:E.87 CA.3: 2 residues within 4Å: Chain E: V.118, N.119 No protein-ligand interaction detected (PLIP) CA.4: 5 residues within 4Å: Chain J: E.25, E.87, D.117, V.118, N.119 2 PLIP interactions: 2 interactions with chain J Metal complexes: J:E.87, J:D.117 CA.5: 2 residues within 4Å: Chain J: E.25, E.87 3 PLIP interactions: 3 interactions with chain J Metal complexes: J:E.25, J:E.87, J:E.87 CA.6: 2 residues within 4Å: Chain J: V.118, N.119 No protein-ligand interaction detected (PLIP) CA.7: 5 residues within 4Å: Chain O: E.25, E.87, D.117, V.118, N.119 2 PLIP interactions: 2 interactions with chain O Metal complexes: O:E.87, O:D.117 CA.8: 2 residues within 4Å: Chain O: E.25, E.87 3 PLIP interactions: 3 interactions with chain O Metal complexes: O:E.25, O:E.87, O:E.87 CA.9: 2 residues within 4Å: Chain O: V.118, N.119 No protein-ligand interaction detected (PLIP) CA.10: 5 residues within 4Å: Chain T: E.25, E.87, D.117, V.118, N.119 2 PLIP interactions: 2 interactions with chain T Metal complexes: T:E.87, T:D.117 CA.11: 2 residues within 4Å: Chain T: E.25, E.87 3 PLIP interactions: 3 interactions with chain T Metal complexes: T:E.25, T:E.87, T:E.87 CA.12: 2 residues within 4Å: Chain T: V.118, N.119 No protein-ligand interaction detected (PLIP) CA.13: 5 residues within 4Å: Chain Y: E.25, E.87, D.117, V.118, N.119 2 PLIP interactions: 2 interactions with chain Y Metal complexes: Y:E.87, Y:D.117 CA.14: 2 residues within 4Å: Chain Y: E.25, E.87 3 PLIP interactions: 3 interactions with chain Y Metal complexes: Y:E.25, Y:E.87, Y:E.87 CA.15: 2 residues within 4Å: Chain Y: V.118, N.119 No protein-ligand interaction detected (PLIP) CA.16: 5 residues within 4Å: Chain 3: E.25, E.87, D.117, V.118, N.119 2 PLIP interactions: 2 interactions with chain 3 Metal complexes: 3:E.87, 3:D.117 CA.17: 2 residues within 4Å: Chain 3: E.25, E.87 3 PLIP interactions: 3 interactions with chain 3 Metal complexes: 3:E.25, 3:E.87, 3:E.87 CA.18: 2 residues within 4Å: Chain 3: V.118, N.119 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sun, Y. et al., Cryo-EM structure of rhinovirus C15a bound to its cadherin-related protein 3 receptor. Proc.Natl.Acad.Sci.USA (2020)

Release Date

2020-03-11

Peptides

Capsid protein VP1: AFKPUZ
Capsid protein VP3: BGLQV0
Capsid protein VP2: CHMRW1
Capsid protein VP4: DINSX2
Cadherin-related family member 3: EJOTY3

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

F
A

K
A

P
A

U
A

Z
A

B
B

G
B

L
B

Q
B

V
B

0
B

C
C

H
C

M
C

R
C

W
C

1
C

D
D

I
D

N
D

S
D

X
D

2
D

E
U

J
U

O
U

T
U

Y
U

3
U

Capsid protein VP1

Capsid protein VP3

Capsid protein VP2

Capsid protein VP4

Cadherin-related family member 3

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