SMTL ID : 5w0d.1

Inferred precursor (UCA) of the human antibody lineage K03.12 in complex with influenza hemagglutinin H1 Solomon Islands/03/2006

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

hetero-1-1-1-mer

Ligands

2 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: N.9, K.37 Ligands: NAG-NAG-BMA.3 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 1 residues within 4Å: Chain A: N.80 No protein-ligand interaction detected (PLIP)

1 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: 8 residues within 4Å: Chain A: N.19, E.21, E.41, N.42, C.45, S.91, R.175 Ligands: NAG-NAG.1 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.175

2 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.4: 7 residues within 4Å: Chain A: A.51, D.52, Y.160, Y.184, W.185, T.186, L.187 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:W.185, A:L.187 Salt bridges: A:D.52 MES.5: 8 residues within 4Å: Chain B: Y.33, N.52, S.55, M.103, Y.104, G.113, V.114, Y.115 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:N.52, B:S.55 Water bridges: B:Y.33, B:Y.33

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 5 residues within 4Å: Chain C: D.87, Y.89, G.101, G.102, K.104 5 PLIP interactions: 1 interactions with chain B, 4 interactions with chain C Hydrogen bonds: B:G.42, C:D.87, C:Y.89, C:G.102 Water bridges: C:D.87

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

McCarthy, K.R. et al., Memory B Cells that Cross-React with Group 1 and Group 2 Influenza A Viruses Are Abundant in Adult Human Repertoires. Immunity (2018)

Release Date

2018-02-14

Peptides

Hemagglutinin HA1: A
Lineage K03.12 UCA antibody heavy chain: B
Lineage K03.12 UCA antibody light chain: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Hemagglutinin HA1

Lineage K03.12 UCA antibody heavy chain

Lineage K03.12 UCA antibody light chain

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