SMTL ID : 6h2y.1

human Fab 1E6 bound to fHbp variant 3 from Neisseria meningitidis serogroup B

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.65 Å

Oligo State

hetero-1-1-1-mer

Ligands

12 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.1: 1 residues within 4Å: Chain B: G.42 No protein-ligand interaction detected (PLIP) EDO.2: 1 residues within 4Å: Chain B: K.123 No protein-ligand interaction detected (PLIP) EDO.3: 2 residues within 4Å: Chain B: S.126, V.127 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:V.127 EDO.4: 3 residues within 4Å: Chain B: K.19, T.78, S.80 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:K.19, B:T.78, B:S.80 EDO.5: 4 residues within 4Å: Chain B: Q.39, A.40, P.41, I.93 No protein-ligand interaction detected (PLIP) EDO.6: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) EDO.7: 3 residues within 4Å: Chain B: V.5, Q.6, K.23 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:V.5 EDO.8: 2 residues within 4Å: Chain B: E.154, A.174 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.154 EDO.10: 4 residues within 4Å: Chain B: H.170, T.189 Chain C: S.118, S.141 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain C Hydrogen bonds: B:H.170, C:S.118, C:S.141 EDO.11: 3 residues within 4Å: Chain C: D.155, S.156, E.207 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:S.156, C:S.196, C:E.207 EDO.12: 1 residues within 4Å: Chain C: E.202 No protein-ligand interaction detected (PLIP) EDO.13: 2 residues within 4Å: Chain C: P.186, K.190 No protein-ligand interaction detected (PLIP)

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.9: 3 residues within 4Å: Chain B: L.114, E.154, P.155 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.154

1 x P33: 3,6,9,12,15,18-HEXAOXAICOSANE-1,20-DIOL(Non-covalent)

P33.14: 12 residues within 4Å: Chain B: G.42, Q.43 Chain C: P.10, P.41, D.86, Y.88, G.103, G.104, K.106, L.107, T.108, K.170 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:K.106

1 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.15: 9 residues within 4Å: Chain C: A.154, S.157, P.158, V.159, A.161, L.184, Q.188, H.192, Y.195 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:Q.188, C:Y.195

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bianchi, F. et al., Cocrystal structure of meningococcal factor H binding protein variant 3 reveals a new crossprotective epitope recognized by human mAb 1E6. Faseb J. (2019)

Release Date

2019-08-14

Peptides

Lipoprotein GNA1870: A
Heavy chain: B
Light chain: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

B
H

C
L

Lipoprotein GNA1870

Heavy chain

Light chain