SMTL ID : 4d9q.1 (2 other biounits)

Inhibiting Alternative Pathway Complement Activation by Targeting the Exosite on Factor D

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.28 Å

Oligo State

hetero-1-1-1-mer

Ligands

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 9 residues within 4Å: Chain A: D.116, V.117, V.148, L.149, D.150, R.151, M.169, C.170 Chain B: Y.54 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:V.117, A:V.117, A:R.151, A:C.170, B:Y.54 GOL.2: 7 residues within 4Å: Chain A: N.206, K.208, K.209 Chain C: D.30, D.31, D.32 Ligands: ZN.9 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.206, A:K.209, A:K.209 GOL.6: 7 residues within 4Å: Chain B: P.9, V.93, Q.107, G.108, T.109, L.110, P.151 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:L.110 Water bridges: B:Y.95, B:Q.107, B:Q.107

4 x ZN: ZINC ION(Non-covalent)

ZN.3: 2 residues within 4Å: Chain A: H.41, D.45 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:H.41, A:D.45 ZN.7: 2 residues within 4Å: Chain B: H.166 Chain C: N.138 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:H.166 ZN.8: 1 residues within 4Å: Chain C: D.28 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:D.28 ZN.9: 3 residues within 4Å: Chain C: D.31, D.32 Ligands: GOL.2 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:D.32

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

SO4.4: 4 residues within 4Å: Chain A: R.136, P.138, D.139, R.140 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:D.139, A:R.140 Water bridges: A:E.6, A:Q.142 Salt bridges: A:R.136, A:R.140 SO4.5: 7 residues within 4Å: Chain A: S.178, C.179, K.180, S.183, T.198, G.200, R.202 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:C.179 Water bridges: A:K.180, A:R.202 Salt bridges: A:R.202

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Katschke, K.J. et al., Inhibiting alternative pathway complement activation by targeting the factor d exosite. J.Biol.Chem. (2012)

Release Date

2012-02-22

Peptides

Factor D: A
Anti-Factor D, heavy chain: B
Anti-Factor D, light chain: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
H

C
L

Factor D

Anti-Factor D, heavy chain

Anti-Factor D, light chain

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