SMTL ID : 1v9u.2 (3 other biounits)

Human Rhinovirus 2 bound to a fragment of its cellular receptor protein

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.60 Å

Oligo State

hetero-5-5-5-5-5-mer

Ligands

5 x DAO: LAURIC ACID(Non-covalent)

DAO.1: 10 residues within 4Å: Chain A: I.99, N.100, L.101, Q.102, I.123, Y.145, F.180, Y.191, M.193, N.211 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:L.101, A:L.101, A:I.123, A:I.123, A:Y.145, A:F.180, A:Y.191, A:N.211 Hydrogen bonds: A:L.101, A:Q.102, A:Q.102, A:N.211 Salt bridges: A:H.259 DAO.3: 10 residues within 4Å: Chain F: I.99, N.100, L.101, Q.102, I.123, Y.145, F.180, Y.191, M.193, N.211 13 PLIP interactions: 13 interactions with chain F Hydrophobic interactions: F:L.101, F:L.101, F:I.123, F:I.123, F:Y.145, F:F.180, F:Y.191, F:N.211 Hydrogen bonds: F:L.101, F:Q.102, F:Q.102, F:N.211 Salt bridges: F:H.259 DAO.5: 10 residues within 4Å: Chain K: I.99, N.100, L.101, Q.102, I.123, Y.145, F.180, Y.191, M.193, N.211 13 PLIP interactions: 13 interactions with chain K Hydrophobic interactions: K:L.101, K:L.101, K:I.123, K:I.123, K:Y.145, K:F.180, K:Y.191, K:N.211 Hydrogen bonds: K:L.101, K:Q.102, K:Q.102, K:N.211 Salt bridges: K:H.259 DAO.7: 10 residues within 4Å: Chain P: I.99, N.100, L.101, Q.102, I.123, Y.145, F.180, Y.191, M.193, N.211 13 PLIP interactions: 13 interactions with chain P Hydrophobic interactions: P:L.101, P:L.101, P:I.123, P:I.123, P:Y.145, P:F.180, P:Y.191, P:N.211 Hydrogen bonds: P:L.101, P:Q.102, P:Q.102, P:N.211 Salt bridges: P:H.259 DAO.9: 10 residues within 4Å: Chain U: I.99, N.100, L.101, Q.102, I.123, Y.145, F.180, Y.191, M.193, N.211 13 PLIP interactions: 13 interactions with chain U Hydrophobic interactions: U:L.101, U:L.101, U:I.123, U:I.123, U:Y.145, U:F.180, U:Y.191, U:N.211 Hydrogen bonds: U:L.101, U:Q.102, U:Q.102, U:N.211 Salt bridges: U:H.259

5 x CA: CALCIUM ION(Non-covalent)

CA.2: 6 residues within 4Å: Chain E: W.22, D.25, E.27, D.29, D.35, E.36 4 PLIP interactions: 4 interactions with chain E Metal complexes: E:D.25, E:E.27, E:D.35, E:E.36 CA.4: 6 residues within 4Å: Chain J: W.22, D.25, E.27, D.29, D.35, E.36 4 PLIP interactions: 4 interactions with chain J Metal complexes: J:D.25, J:E.27, J:D.35, J:E.36 CA.6: 6 residues within 4Å: Chain O: W.22, D.25, E.27, D.29, D.35, E.36 4 PLIP interactions: 4 interactions with chain O Metal complexes: O:D.25, O:E.27, O:D.35, O:E.36 CA.8: 6 residues within 4Å: Chain T: W.22, D.25, E.27, D.29, D.35, E.36 4 PLIP interactions: 4 interactions with chain T Metal complexes: T:D.25, T:E.27, T:D.35, T:E.36 CA.10: 6 residues within 4Å: Chain Y: W.22, D.25, E.27, D.29, D.35, E.36 4 PLIP interactions: 4 interactions with chain Y Metal complexes: Y:D.25, Y:E.27, Y:D.35, Y:E.36

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Verdaguer, N. et al., X-ray structure of a minor group human rhinovirus bound to a fragment of its cellular receptor protein. NAT.STRUCT.MOL.BIOL. (2004)

Release Date

2004-05-04

Peptides

Coat protein VP1: AFKPU
Coat protein VP2: BGLQV
Coat protein VP3: CHMRW
Coat protein VP4: DINSX
LDL-receptor class A 3: EJOTY

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
1

F
1

K
1

P
1

U
1

B
2

G
2

L
2

Q
2

V
2

C
3

H
3

M
3

R
3

W
3

D
4

I
4

N
4

S
4

X
4

E
5

J
5

O
5

T
5

Y
5

Coat protein VP1

Coat protein VP2

Coat protein VP3

Coat protein VP4

LDL-receptor class A 3

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