SMTL ID : 1oar.3 (3 other biounits)

Fv IgE SPE-7 in complex with Alizarin Red

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.23 Å

Oligo State

hetero-oligomer

Ligands

1 x CAC: CACODYLATE ION(Non-covalent)

CAC.1: 3 residues within 4Å: Chain A: G.113, T.115 Chain B: H.44 2 PLIP interactions: 2 interactions with chain A Water bridges: A:G.113, A:T.115

12 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.2: 4 residues within 4Å: Chain A: R.50, D.52, G.57, T.58 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.50, A:R.50 Salt bridges: A:D.52 DMS.3: 2 residues within 4Å: Chain A: Y.60, K.65 No protein-ligand interaction detected (PLIP) DMS.4: 6 residues within 4Å: Chain A: P.41, S.91, A.92, T.115, L.116 Ligands: DMS.6 No protein-ligand interaction detected (PLIP) DMS.5: 2 residues within 4Å: Chain A: S.17, Q.82 No protein-ligand interaction detected (PLIP) DMS.6: 3 residues within 4Å: Chain A: P.41 Ligands: DMS.4, EDO.9 1 PLIP interactions: 1 interactions with chain A Water bridges: A:R.43 DMS.7: 1 residues within 4Å: Chain A: Y.102 No protein-ligand interaction detected (PLIP) DMS.8: 1 residues within 4Å: Chain A: S.85 No protein-ligand interaction detected (PLIP) DMS.13: 4 residues within 4Å: Chain B: N.54, N.55, R.56 Ligands: DMS.17 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.56 DMS.14: 3 residues within 4Å: Chain B: Q.39, K.41, P.61 No protein-ligand interaction detected (PLIP) DMS.15: 4 residues within 4Å: Chain B: V.4, F.100, G.101, G.102 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:V.4 DMS.16: 6 residues within 4Å: Chain A: G.103, T.104 Chain B: G.52, T.53, N.54, N.55 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.54, B:N.55 DMS.17: 5 residues within 4Å: Chain B: R.56, A.57, P.58, V.60 Ligands: DMS.13 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.56

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

EDO.9: 1 residues within 4Å: Ligands: DMS.6 No protein-ligand interaction detected (PLIP)

1 x AZN: ALIZARIN RED(Non-covalent)

AZN.10: 9 residues within 4Å: Chain A: W.33, H.35, R.50, K.59, M.99, Y.105 Chain B: Y.34, N.36, W.93 13 PLIP interactions: 7 interactions with chain A, 6 interactions with chain B Hydrophobic interactions: A:W.33, A:Y.105, A:Y.105, A:Y.105, B:Y.34, B:W.93, B:W.93 Hydrogen bonds: A:R.50, A:Y.105 Salt bridges: A:K.59 pi-Stacking: B:W.93, B:W.93, B:W.93

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

NA.11: 5 residues within 4Å: Chain B: Q.6, E.7, S.8, G.102, G.103 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:G.103 Water bridges: B:G.102 NA.18: 2 residues within 4Å: Chain B: F.89 Ligands: CL.20 2 PLIP interactions: 2 interactions with chain A Water bridges: A:Q.39, A:G.42

3 x CL: CHLORIDE ION(Non-functional Binders)

CL.12: 4 residues within 4Å: Chain A: S.17, V.18, K.19, Q.82 Ligand excluded by PLIP CL.19: 5 residues within 4Å: Chain A: E.46, W.47 Chain B: L.98, V.99, F.100 Ligand excluded by PLIP CL.20: 4 residues within 4Å: Chain B: I.87, G.102, G.103 Ligands: NA.18 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

James, L.C. et al., Antibody Multispecificity Mediated by Conformational Diversity. Science (2003)

Release Date

2004-01-15

Peptides

IMMUNOGLOBULIN E: A
IMMUNOGLOBULING E: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
J

B
N

IMMUNOGLOBULIN E

IMMUNOGLOBULING E

Related Entries With Identical Sequence