SMTL ID : 2wqr.1

The high resolution crystal structure of IgE Fc

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

2 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

NAG-NAG-BMA-MAN-MAN.1: 9 residues within 4Å: Chain A: Y.116, L.136, V.138, D.139, Q.169, N.171, T.173, Q.271 Chain B: R.85 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.116, A:Y.116 NAG-NAG-BMA-MAN-MAN.2: 10 residues within 4Å: Chain B: S.114, Y.116, S.118, L.136, V.138, D.139, Q.169, N.171, T.173, T.175 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:S.118, B:S.118, B:S.114, B:S.114 Hydrophobic interactions: B:V.138, B:T.175 Water bridges: B:Q.169

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

SO4.3: 5 residues within 4Å: Chain A: T.270, Q.271, R.273 Chain B: T.270, R.273 8 PLIP interactions: 4 interactions with chain B, 4 interactions with chain A Water bridges: B:T.270, B:Q.271, B:R.273, A:R.273 Salt bridges: B:R.273, A:R.273 Hydrogen bonds: A:Q.271, A:Q.271 SO4.4: 3 residues within 4Å: Chain A: G.183, T.184, R.185 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.184, A:R.185 Water bridges: A:R.185, A:R.185, A:D.186 SO4.5: 3 residues within 4Å: Chain A: R.273, K.274 Chain B: R.85 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:K.274 Water bridges: A:K.274, B:S.268 Salt bridges: A:K.274 SO4.10: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 3 residues within 4Å: Chain A: R.196 Chain B: G.20, H.22 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.196, A:R.196 GOL.8: 5 residues within 4Å: Chain A: D.18, G.19, G.20 Chain B: S.101, R.170 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:G.19, B:S.101, B:R.170

1 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.7: 4 residues within 4Å: Chain A: S.121, I.251, S.252, V.253 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.121, A:S.121, A:V.253, A:V.253 Water bridges: A:I.251

1 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.9: 11 residues within 4Å: Chain A: K.11, L.13, L.30, L.32, Q.71, E.73 Chain B: K.11, L.30, L.32, Q.71, E.73 8 PLIP interactions: 5 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:K.11, A:K.11, A:Q.71, B:K.11, B:Q.71, B:E.73 Water bridges: A:S.34, A:E.73

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Holdom, M.D. et al., Conformational Changes in Ige Contribute to its Uniquely Slow Dissociation Rate from Receptor Fceri. Nat.Struct.Mol.Biol. (2011)

Release Date

2010-11-03

Peptides

IG EPSILON CHAIN C REGION: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

IG EPSILON CHAIN C REGION

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