SMTL ID : 3gbm.2 (1 other biounit)

Crystal Structure of Fab CR6261 in Complex with a H5N1 influenza virus hemagglutinin.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

hetero-3-3-3-3-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: 5 residues within 4Å: Chain A: N.169, N.240, D.241, A.242 Chain I: S.221 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.240 NAG-NAG.6: 5 residues within 4Å: Chain A: S.221 Chain E: N.169, N.240, D.241, A.242 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:N.240 NAG-NAG.11: 5 residues within 4Å: Chain E: S.221 Chain I: N.169, N.240, D.241, A.242 1 PLIP interactions: 1 interactions with chain I Hydrogen bonds: I:N.240

3 x BMA: beta-D-mannopyranose(Non-functional Binders)

BMA.2: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) BMA.7: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) BMA.12: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

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

NAG.3: 2 residues within 4Å: Chain A: Q.19, N.27 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.19 NAG.5: 5 residues within 4Å: Chain B: E.147, E.150, N.154, T.156 Chain D: Y.33 5 PLIP interactions: 4 interactions with chain B, 1 interactions with chain D Hydrogen bonds: B:E.147, B:E.150, B:N.154, B:T.156, D:Y.33 NAG.8: 2 residues within 4Å: Chain E: Q.19, N.27 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:Q.19 NAG.10: 5 residues within 4Å: Chain F: E.147, E.150, N.154, T.156 Chain H: Y.33 4 PLIP interactions: 3 interactions with chain F, 1 interactions with chain H Hydrogen bonds: F:E.147, F:N.154, F:T.156, H:Y.33 NAG.13: 2 residues within 4Å: Chain I: Q.19, N.27 1 PLIP interactions: 1 interactions with chain I Hydrogen bonds: I:Q.19 NAG.15: 5 residues within 4Å: Chain J: E.147, E.150, N.154, T.156 Chain L: Y.33 4 PLIP interactions: 3 interactions with chain J, 1 interactions with chain L Hydrogen bonds: J:E.147, J:E.150, J:N.154, L:Y.33

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

EDO.4: 7 residues within 4Å: Chain A: V.20, D.21, R.314, L.315, V.316 Chain B: V.100, N.104 5 PLIP interactions: 1 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:N.104, A:D.21, A:D.21, A:R.314, A:V.316 EDO.9: 7 residues within 4Å: Chain E: V.20, D.21, R.314, L.315, V.316 Chain F: V.100, N.104 5 PLIP interactions: 4 interactions with chain E, 1 interactions with chain F Hydrogen bonds: E:D.21, E:D.21, E:R.314, E:V.316, F:N.104 EDO.14: 7 residues within 4Å: Chain I: V.20, D.21, R.314, L.315, V.316 Chain J: V.100, N.104 5 PLIP interactions: 4 interactions with chain I, 1 interactions with chain J Hydrogen bonds: I:D.21, I:D.21, I:R.314, I:V.316, J:N.104

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ekiert, D.C. et al., Antibody recognition of a highly conserved influenza virus epitope. Science (2009)

Release Date

2009-03-10

Peptides

Hemagglutinin: AEI
Hemagglutinin: BFJ
antibody (Fab): CGK
antibody (Fab): DHL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

E
C

I
C

B
D

F
D

J
D

C
I

G
I

K
I

D
M

H
M

L
M

Hemagglutinin

Hemagglutinin

antibody (Fab)

antibody (Fab)

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