SMTL ID : 4cqp.1

Crystal Structure of H5 (VN1194) Ser227Asn/Gln196Arg Mutant Haemagglutinin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.65 Å

Oligo State

hetero-3-3-mer

Ligands

3 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 3 residues within 4Å: Chain A: Q.15, K.22, N.23 No protein-ligand interaction detected (PLIP) NAG-NAG.8: 3 residues within 4Å: Chain C: Q.15, K.22, N.23 No protein-ligand interaction detected (PLIP) NAG-NAG.15: 3 residues within 4Å: Chain E: Q.15, K.22, N.23 No protein-ligand interaction detected (PLIP)

3 x NAG- NAG- MAN- BMA- MAN: beta-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-MAN-BMA-MAN.2: 4 residues within 4Å: Chain A: N.165, N.236, D.237, A.238 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.236 NAG-NAG-MAN-BMA-MAN.9: 4 residues within 4Å: Chain C: N.165, N.236, D.237, A.238 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.236 NAG-NAG-MAN-BMA-MAN.16: 4 residues within 4Å: Chain E: N.165, N.236, D.237, A.238 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:N.236

3 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA.3: 4 residues within 4Å: Chain B: E.147, E.150, N.154, T.156 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.10: 4 residues within 4Å: Chain D: E.147, E.150, N.154, T.156 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.17: 4 residues within 4Å: Chain F: E.147, E.150, N.154, T.156 No protein-ligand interaction detected (PLIP)

6 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.4: 1 residues within 4Å: Chain A: N.11 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.11 NAG.5: 1 residues within 4Å: Chain A: N.286 No protein-ligand interaction detected (PLIP) NAG.11: 1 residues within 4Å: Chain C: N.11 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.11 NAG.12: 1 residues within 4Å: Chain C: N.286 No protein-ligand interaction detected (PLIP) NAG.18: 1 residues within 4Å: Chain E: N.11 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:N.11 NAG.19: 1 residues within 4Å: Chain E: N.286 No protein-ligand interaction detected (PLIP)

6 x MPO: 3[N-MORPHOLINO]PROPANE SULFONIC ACID(Non-covalent)

MPO.6: 8 residues within 4Å: Chain A: L.129, V.131, S.132, S.133, A.134, I.151, L.190, Q.222 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.133, A:S.133, A:A.134, A:Q.222 MPO.7: 6 residues within 4Å: Chain A: C.4 Chain B: W.14, H.25, Y.34, N.135, C.137 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:H.25 MPO.13: 8 residues within 4Å: Chain C: L.129, V.131, S.132, S.133, A.134, I.151, L.190, Q.222 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:S.133, C:S.133, C:A.134, C:Q.222 MPO.14: 6 residues within 4Å: Chain C: C.4 Chain D: W.14, H.25, Y.34, N.135, C.137 1 PLIP interactions: 1 interactions with chain D Salt bridges: D:H.25 MPO.20: 8 residues within 4Å: Chain E: L.129, V.131, S.132, S.133, A.134, I.151, L.190, Q.222 4 PLIP interactions: 4 interactions with chain E Hydrogen bonds: E:S.133, E:S.133, E:A.134, E:Q.222 MPO.21: 6 residues within 4Å: Chain E: C.4 Chain F: W.14, H.25, Y.34, N.135, C.137 1 PLIP interactions: 1 interactions with chain F Salt bridges: F:H.25

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xiong, X. et al., Enhanced Human Receptor Binding by H5 Haemagglutinins. Virology (2014)

Release Date

2014-05-28

Peptides

Hemagglutinin HA1: ACE
Hemagglutinin HA2: BDF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

E
A

B
B

D
B

F
B

Hemagglutinin HA1

Hemagglutinin HA2

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