SMTL ID : 5w1x.3 (2 other biounits)

Crystal Structure of Humanpapillomavirus18 (HPV18) Capsid L1 Pentamers Bound to Heparin Oligosaccharides

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.37 Å

Oligo State

homo-pentamer

Ligands

6 x JHM- IDS: 2-O-sulfo-alpha-L-idopyranuronic acid-(1-4)-2-deoxy-6-O-sulfo-alpha-D-glucopyranose(Non-covalent)(Non-functional Binders)

JHM-IDS.1: 3 residues within 4Å: Chain A: K.40 Chain B: R.159 Ligands: JHM-IDS.2 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Salt bridges: A:K.40, B:R.159, A:K.40 JHM-IDS.2: 1 residues within 4Å: Ligands: JHM-IDS.1 No protein-ligand interaction detected (PLIP) JHM-IDS.3: 4 residues within 4Å: Chain B: A.155, S.156, K.157, P.160 No protein-ligand interaction detected (PLIP) JHM-IDS.5: 7 residues within 4Å: Chain D: V.33, P.34, G.37, G.38 Chain E: G.249, T.251 Ligands: JHM-IDS-JHM-IDS.4 4 PLIP interactions: 2 interactions with chain E, 2 interactions with chain D Hydrogen bonds: E:G.249, E:T.251, D:G.37, D:G.38 JHM-IDS.6: 7 residues within 4Å: Chain D: T.329, Q.330, S.331, P.332, V.333, P.334 Ligands: JHM-IDS.7 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:S.331, D:S.331, D:S.331 JHM-IDS.7: 2 residues within 4Å: Chain E: P.160 Ligands: JHM-IDS.6 No protein-ligand interaction detected (PLIP)

1 x JHM- IDS- JHM- IDS: 2-O-sulfo-alpha-L-idopyranuronic acid-(1-4)-2-deoxy-6-O-sulfo-alpha-D-glucopyranose-(1-4)-2-O-sulfo-alpha-L-idopyranuronic acid-(1-4)-2-deoxy-6-O-sulfo-alpha-D-glucopyranose

JHM-IDS-JHM-IDS.4: 5 residues within 4Å: Chain C: V.333, G.335 Chain E: Q.254, S.255 Ligands: JHM-IDS.5 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dasgupta, J. et al., Structural basis of oligosaccharide receptor recognition by human papillomavirus. J. Biol. Chem. (2011)

Release Date

2018-12-12

Peptides

Major capsid protein L1: ABCDE

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
K

B
L

C
M

D
N

E
O

Major capsid protein L1

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