SMTL ID : 3q3g.3 (3 other biounits)

Crystal Structure of A-domain in complex with antibody

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

hetero-1-1-1-mer

Ligands

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

EDO.1: 4 residues within 4Å: Chain A: S.33 Chain C: S.13, D.111, A.143 1 PLIP interactions: 1 interactions with chain C Water bridges: C:S.13

2 x NA: SODIUM ION(Non-functional Binders)

NA.2: 1 residues within 4Å: Chain B: V.130 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:V.130, B:V.130 NA.3: 2 residues within 4Å: Chain B: K.38, R.40 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:K.38, B:K.38, B:R.40

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

PEG.4: 8 residues within 4Å: Chain B: F.27, D.31, I.32, S.98, G.100, Y.102, D.110, Y.111 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:D.31, B:S.98, B:Y.102

1 x CA: CALCIUM ION(Non-covalent)

CA.5: 6 residues within 4Å: Chain B: D.105 Chain C: D.9, S.11, S.13, T.78, D.111 5 PLIP interactions: 2 interactions with chain C, 1 interactions with chain B, 2 Ligand-Water interactions Metal complexes: C:S.11, C:D.111, B:D.105, H2O.1, H2O.2

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mahalingam, B. et al., Stable Coordination of the Inhibitory Ca2+ Ion at the Metal Ion-Dependent Adhesion Site in Integrin CD11b/CD18 by an Antibody-Derived Ligand Aspartate: Implications for Integrin Regulation and Structure-Based Drug Design. J.Immunol. (2011)

Release Date

2011-11-30

Peptides

Antibody Light Chain: A
Antibody Heavy chain: B
Integrin alpha-M: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
F

B
H

C
I

Antibody Light Chain

Antibody Heavy chain

Integrin alpha-M

Related Entries With Identical Sequence