SMTL ID : 6n5a.1

Crystal structure of an equine H7 hemagglutinin from A/equine/NY/49/73 (H7N7)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.30 Å

Oligo State

hetero-3-3-mer

Ligands

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

NAG.1: 1 residues within 4Å: Chain A: N.235 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.235 NAG.10: 5 residues within 4Å: Chain B: E.72, K.75, G.78, N.79, N.82 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.75 NAG.11: 1 residues within 4Å: Chain C: N.235 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.235 NAG.20: 5 residues within 4Å: Chain D: E.72, K.75, G.78, N.79, N.82 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:K.75 NAG.21: 1 residues within 4Å: Chain E: N.235 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:N.235 NAG.30: 5 residues within 4Å: Chain F: E.72, K.75, G.78, N.79, N.82 1 PLIP interactions: 1 interactions with chain F Hydrogen bonds: F:K.75

3 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.2: 7 residues within 4Å: Chain A: D.97, N.98, Y.204, Q.206, W.229 Chain D: E.74, K.75 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.204, A:Y.204, A:W.229 PGE.12: 7 residues within 4Å: Chain C: D.97, N.98, Y.204, Q.206, W.229 Chain F: E.74, K.75 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:Y.204, C:Y.204, C:W.229 PGE.22: 7 residues within 4Å: Chain B: E.74, K.75 Chain E: D.97, N.98, Y.204, Q.206, W.229 3 PLIP interactions: 3 interactions with chain E Hydrogen bonds: E:Y.204, E:Y.204, E:W.229

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

PEG.3: 6 residues within 4Å: Chain A: G.123, S.149, N.150, T.151, G.154, V.155 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.150, A:V.155 PEG.13: 6 residues within 4Å: Chain C: G.123, S.149, N.150, T.151, G.154, V.155 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:N.150, C:V.155 PEG.23: 6 residues within 4Å: Chain E: G.123, S.149, N.150, T.151, G.154, V.155 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:N.150, E:V.155

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

EDO.4: 3 residues within 4Å: Chain A: T.166, K.167, R.168 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.166 EDO.5: 4 residues within 4Å: Chain A: S.182, T.183, A.184, P.214 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.183, A:T.183, A:A.184 EDO.6: 4 residues within 4Å: Chain A: Q.217, I.218, N.219, G.220 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.219, A:G.220 EDO.14: 3 residues within 4Å: Chain C: T.166, K.167, R.168 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:T.166 EDO.15: 4 residues within 4Å: Chain C: S.182, T.183, A.184, P.214 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:T.183, C:T.183, C:A.184 EDO.16: 4 residues within 4Å: Chain C: Q.217, I.218, N.219, G.220 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:N.219, C:G.220 EDO.24: 3 residues within 4Å: Chain E: T.166, K.167, R.168 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:T.166 EDO.25: 4 residues within 4Å: Chain E: S.182, T.183, A.184, P.214 3 PLIP interactions: 3 interactions with chain E Hydrogen bonds: E:T.183, E:T.183, E:A.184 EDO.26: 4 residues within 4Å: Chain E: Q.217, I.218, N.219, G.220 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:N.219, E:G.220

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

PG4.7: 6 residues within 4Å: Chain A: D.97, N.98, E.99, E.100 Chain B: I.73 Chain D: Q.76 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain D Hydrogen bonds: A:N.98, A:N.98, A:E.99, A:E.100, D:Q.76 PG4.17: 6 residues within 4Å: Chain C: D.97, N.98, E.99, E.100 Chain D: I.73 Chain F: Q.76 5 PLIP interactions: 4 interactions with chain C, 1 interactions with chain F Hydrogen bonds: C:N.98, C:N.98, C:E.99, C:E.100, F:Q.76 PG4.27: 6 residues within 4Å: Chain B: Q.76 Chain E: D.97, N.98, E.99, E.100 Chain F: I.73 5 PLIP interactions: 4 interactions with chain E, 1 interactions with chain B Hydrogen bonds: E:N.98, E:N.98, E:E.99, E:E.100, B:Q.76

6 x SO4: SULFATE ION(Non-functional Binders)

SO4.8: 4 residues within 4Å: Chain A: T.130, S.131, S.138, Q.221 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.130, A:S.131, A:S.138, A:Q.221 SO4.9: 4 residues within 4Å: Chain A: Q.217, G.220, Q.221, S.222 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.222, A:S.222 SO4.18: 4 residues within 4Å: Chain C: T.130, S.131, S.138, Q.221 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:T.130, C:S.131, C:S.138, C:Q.221 SO4.19: 4 residues within 4Å: Chain C: Q.217, G.220, Q.221, S.222 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:S.222, C:S.222 SO4.28: 4 residues within 4Å: Chain E: T.130, S.131, S.138, Q.221 4 PLIP interactions: 4 interactions with chain E Hydrogen bonds: E:T.130, E:S.131, E:S.138, E:Q.221 SO4.29: 4 residues within 4Å: Chain E: Q.217, G.220, Q.221, S.222 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:S.222, E:S.222

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Broszeit, F. et al., N-Glycolylneuraminic Acid as a Receptor for Influenza A Viruses. Cell Rep (2019)

Release Date

2019-06-26

Peptides

HEMAGGLUTININ HA1 SUBUNIT: ACE
HEMAGGLUTININ HA2 SUBUNIT: BDF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

E
A

B
B

D
B

F
B

HEMAGGLUTININ HA1 SUBUNIT

HEMAGGLUTININ HA2 SUBUNIT

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