SMTL ID : 9mer.1

Structure of H1H5:FluA20 Chimeric Influenza HA Complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose

NAG.1: 10 residues within 4Å: Chain A: N.17, E.19, E.39, N.40, C.43, S.87, C.88, S.89, R.173 Ligands: EDO.15 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:E.19 Hydrogen bonds: A:N.17, A:N.40, A:R.173, A:R.173 Water bridges: A:G.41

23 x EDO: 1,2-ETHANEDIOL

EDO.2: 5 residues within 4Å: Chain A: W.13, I.14, R.66, N.99, F.207 Ligand excluded by PLIP EDO.3: 5 residues within 4Å: Chain A: H.133, F.162, T.163 Ligands: EDO.4, K.18 Ligand excluded by PLIP EDO.4: 5 residues within 4Å: Chain A: H.133, R.165, R.169, N.180 Ligands: EDO.3 Ligand excluded by PLIP EDO.5: 5 residues within 4Å: Chain A: V.154, S.155, S.156, D.190, T.191 Ligand excluded by PLIP EDO.6: 4 residues within 4Å: Chain A: D.50, Y.158, W.183, T.184 Ligand excluded by PLIP EDO.7: 6 residues within 4Å: Chain A: V.154, S.155, S.156, H.157, Y.158, S.159 Ligand excluded by PLIP EDO.8: 4 residues within 4Å: Chain A: R.66, F.67, E.68, Y.205 Ligand excluded by PLIP EDO.9: 3 residues within 4Å: Chain A: H.157, L.185, E.187 Ligand excluded by PLIP EDO.10: 4 residues within 4Å: Chain A: H.90, E.93, S.94, S.95 Ligand excluded by PLIP EDO.11: 1 residues within 4Å: Chain A: N.7 Ligand excluded by PLIP EDO.14: 5 residues within 4Å: Chain A: K.72, W.76, H.79, E.80, A.81 Ligand excluded by PLIP EDO.15: 6 residues within 4Å: Chain A: S.86, S.87, C.88, S.89, R.173 Ligands: NAG.1 Ligand excluded by PLIP EDO.16: 5 residues within 4Å: Chain A: E.68, P.71, K.72, E.73, S.74 Ligand excluded by PLIP EDO.22: 10 residues within 4Å: Chain A: R.169, S.170, R.178 Chain B: Y.35, G.100, T.101, D.103, C.112, N.114 Chain C: Y.49 Ligand excluded by PLIP EDO.23: 7 residues within 4Å: Chain B: Y.158, E.161, P.162, V.163, P.180, A.181, L.191 Ligand excluded by PLIP EDO.24: 6 residues within 4Å: Chain B: L.154, V.182, S.190, L.191, S.192 Chain C: T.178 Ligand excluded by PLIP EDO.26: 6 residues within 4Å: Chain B: V.176, H.177 Chain C: T.164, E.165, D.167 Ligands: EDO.28 Ligand excluded by PLIP EDO.27: 3 residues within 4Å: Chain C: R.108, T.109, V.110 Ligand excluded by PLIP EDO.28: 5 residues within 4Å: Chain C: E.165, Q.166, D.167, S.168 Ligands: EDO.26 Ligand excluded by PLIP EDO.29: 6 residues within 4Å: Chain B: P.180, A.181, V.182 Chain C: E.161, S.162, V.163 Ligand excluded by PLIP EDO.30: 5 residues within 4Å: Chain B: Q.41 Chain C: H.38, P.40, T.85, Y.87 Ligand excluded by PLIP EDO.31: 7 residues within 4Å: Chain C: P.80, F.83, I.106, Q.166, D.167, S.168, S.171 Ligand excluded by PLIP EDO.32: 5 residues within 4Å: Chain C: L.125, Y.186, N.210, R.211, G.212 Ligand excluded by PLIP

3 x PEG: DI(HYDROXYETHYL)ETHER

PEG.12: 5 residues within 4Å: Chain A: S.9, E.39, G.41, T.42, R.173 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:S.9, A:S.9, A:G.41, A:T.42, A:R.173 Water bridges: A:R.173 PEG.13: 4 residues within 4Å: Chain A: S.116, Y.117, A.118, N.120 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.116, A:A.118, A:N.120 Water bridges: A:N.120, A:N.120 PEG.25: 5 residues within 4Å: Chain B: R.40, P.42, K.45, E.48, A.90 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.45 Water bridges: B:S.64

7 x K: POTASSIUM ION

K.17: 3 residues within 4Å: Chain A: H.47, F.48 Ligands: K.20 No protein-ligand interaction detected (PLIP) K.18: 3 residues within 4Å: Chain A: T.163, R.165 Ligands: EDO.3 No protein-ligand interaction detected (PLIP) K.19: 2 residues within 4Å: Chain A: V.85, Q.175 No protein-ligand interaction detected (PLIP) K.20: 2 residues within 4Å: Chain A: F.48 Ligands: K.17 No protein-ligand interaction detected (PLIP) K.21: 2 residues within 4Å: Chain A: K.171 Chain C: L.54 No protein-ligand interaction detected (PLIP) K.33: 1 residues within 4Å: Chain C: T.197 No protein-ligand interaction detected (PLIP) K.34: 4 residues within 4Å: Chain B: F.135 Chain C: P.120, S.121, Q.124 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Castro, K.M. et al., Structure-based Design of Chimeric Influenza Hemagglutinins to Elicit Cross-group Immunity. Biorxiv (2025)

Release Date

2025-03-19

Peptides

H1H5 HA: A
FluA20 Heavy Chain Fab: B
FluA20 Light Chain Fab: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
H

C
L

H1H5 HA

FluA20 Heavy Chain Fab

FluA20 Light Chain Fab

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