SMTL ID : 4uo7.1

Structure of the A_Canine_Colorado_17864_06 H3 haemagglutinin in complex with 6SO4 Sialyl Lewis X

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

hetero-3-3-mer

Ligands

7 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: R.61, N.62, F.93 No protein-ligand interaction detected (PLIP) NAG-NAG.6: 3 residues within 4Å: Chain C: R.61, N.62, F.93 No protein-ligand interaction detected (PLIP) NAG-NAG.7: 3 residues within 4Å: Chain C: N.37, T.39 Ligands: NAG.18 No protein-ligand interaction detected (PLIP) NAG-NAG.9: 4 residues within 4Å: Chain C: N.284, V.296, N.297 Chain D: E.69 No protein-ligand interaction detected (PLIP) NAG-NAG.11: 2 residues within 4Å: Chain E: R.61, N.62 No protein-ligand interaction detected (PLIP) NAG-NAG.12: 3 residues within 4Å: Chain E: N.37, T.39, T.317 No protein-ligand interaction detected (PLIP) NAG-NAG.14: 2 residues within 4Å: Chain E: N.284, V.296 No protein-ligand interaction detected (PLIP)

2 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.2: 3 residues within 4Å: Chain A: N.37, A.38, T.39 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.4: 5 residues within 4Å: Chain A: S.44, N.284, N.295, V.296, N.297 No protein-ligand interaction detected (PLIP)

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

NAG-NAG-BMA-MAN-MAN.3: 6 residues within 4Å: Chain A: N.164, T.166, M.243 Chain E: S.218, P.220, L.221 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:L.221 NAG-NAG-BMA-MAN-MAN.8: 6 residues within 4Å: Chain A: S.218, P.220, L.221 Chain C: N.164, I.241, M.243 2 PLIP interactions: 1 interactions with chain C, 1 interactions with chain A Hydrophobic interactions: C:I.241 Hydrogen bonds: A:L.221 NAG-NAG-BMA-MAN-MAN.13: 9 residues within 4Å: Chain C: S.218, R.219, P.220, L.221 Chain E: N.164, T.166, I.241, M.243 Ligands: NGS-GAL-SIA-FUC.10 2 PLIP interactions: 1 interactions with chain E, 1 interactions with chain C Hydrophobic interactions: E:I.241 Hydrogen bonds: C:L.221

3 x NGS- GAL- SIA- FUC: N-acetyl-alpha-neuraminic acid-(2-3)-beta-D-galactopyranose-(1-4)-[alpha-L-fucopyranose-(1-3)]2-acetamido-2-deoxy-6-O-sulfo-beta-D-glucopyranose(Post Translational Modification)(Non-functional Binders)

NGS-GAL-SIA-FUC.5: 12 residues within 4Å: Chain A: Y.97, R.134, S.135, G.136, W.152, T.154, H.182, E.189, K.192, L.193, G.224, Q.225 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:E.189, A:Q.225, A:Q.225, A:Y.97, A:R.134, A:G.136, A:H.182, A:Q.225 Water bridges: A:K.192, A:K.192 Salt bridges: A:K.192 Hydrophobic interactions: A:L.193 NGS-GAL-SIA-FUC.10: 14 residues within 4Å: Chain C: Y.97, R.134, S.135, G.136, W.152, T.154, H.182, E.189, K.192, L.193, G.224, Q.225, G.227 Ligands: NAG-NAG-BMA-MAN-MAN.13 7 PLIP interactions: 7 interactions with chain C Hydrogen bonds: C:G.224, C:E.189, C:E.189, C:Q.225, C:Q.225, C:R.134, C:G.136, C:H.182, C:Q.225, C:Q.225, C:G.227 Salt bridges: C:K.192 Hydrophobic interactions: C:L.193 NGS-GAL-SIA-FUC.15: 12 residues within 4Å: Chain E: Y.97, R.134, S.135, G.136, W.152, T.154, H.182, E.189, L.193, L.221, G.224, Q.225 5 PLIP interactions: 5 interactions with chain E Hydrogen bonds: E:Q.225, E:Q.225, E:R.134, E:G.136, E:H.182, E:E.189 Salt bridges: E:K.192 Hydrophobic interactions: E:L.193

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

SO4.16: 2 residues within 4Å: Chain A: R.320 Chain B: A.7 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.320 SO4.17: 4 residues within 4Å: Chain B: W.14, E.15, G.16, R.25 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.15, B:G.16 Salt bridges: B:R.25 SO4.19: 2 residues within 4Å: Chain C: R.320 Chain D: A.7 1 PLIP interactions: 1 interactions with chain C Salt bridges: C:R.320 SO4.20: 3 residues within 4Å: Chain C: Q.131, N.132, R.134 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:N.132 Salt bridges: C:R.134 SO4.21: 4 residues within 4Å: Chain D: W.14, E.15, G.16, R.25 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:E.15, D:G.16 Salt bridges: D:R.25 SO4.22: 4 residues within 4Å: Chain F: W.14, E.15, G.16, R.25 5 PLIP interactions: 3 interactions with chain F, 2 interactions with chain E Hydrogen bonds: F:E.15, F:G.16, E:E.324, E:E.324 Salt bridges: F:R.25

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

NAG.18: 5 residues within 4Å: Chain C: N.21, T.23, N.37, A.38 Ligands: NAG-NAG.7 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:N.21, C:N.37

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Collins, P.J. et al., Recent Evolution of Equine Influenza and the Origin of Canine Influenza. Proc.Natl.Acad.Sci.USA (2014)

Release Date

2014-07-23

Peptides

HAEMAGGLUTININ HA1: ACE
HAEMAGGLUTININ HA2: BDF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

E
E

B
B

D
D

F
F

HAEMAGGLUTININ HA1

HAEMAGGLUTININ HA2

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