SMTL ID : 1ok9.1

Decay accelerating factor (CD55): The structure of an intact human complement regulator.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

homo-dimer

Ligands

4 x ACT: ACETATE ION(Non-functional Binders)

ACT.1: 8 residues within 4Å: Chain A: P.134, I.154, F.156, S.170, W.181, D.183, P.184, L.185 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:I.154, A:F.156, A:W.181 Hydrogen bonds: A:D.183, A:L.185 ACT.2: 3 residues within 4Å: Chain A: R.208, D.209, H.210 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:R.208, A:D.209 Hydrogen bonds: A:D.209, A:H.210, A:H.210 Salt bridges: A:R.208, A:H.210 ACT.7: 8 residues within 4Å: Chain B: P.134, I.154, F.156, S.170, W.181, D.183, P.184, L.185 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:I.154, B:F.156, B:W.181, B:L.185 Hydrogen bonds: B:D.183, B:L.185 ACT.8: 3 residues within 4Å: Chain B: L.72, N.73, S.74 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:N.73 Hydrogen bonds: B:N.73, B:S.74

2 x PT: PLATINUM (II) ION(Non-covalent)

PT.3: 5 residues within 4Å: Chain A: Y.219, M.227, H.231 Ligands: CL.4, CL.5 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:H.231 PT.9: 4 residues within 4Å: Chain B: M.227, H.231 Ligands: CL.10, CL.11 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:H.231

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

CL.4: 5 residues within 4Å: Chain A: H.231 Chain B: N.133, P.134 Ligands: PT.3, CL.5 Ligand excluded by PLIP CL.5: 5 residues within 4Å: Chain A: M.227, H.231 Chain B: V.144 Ligands: PT.3, CL.4 Ligand excluded by PLIP CL.10: 5 residues within 4Å: Chain B: M.227, G.229, H.231 Ligands: PT.9, CL.11 Ligand excluded by PLIP CL.11: 3 residues within 4Å: Chain B: H.231 Ligands: PT.9, CL.10 Ligand excluded by PLIP

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

SO4.6: 8 residues within 4Å: Chain A: Y.213, R.214, Y.234, T.236, V.237, N.238 Chain B: Y.213, R.214 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Salt bridges: B:R.214, A:R.214 Hydrogen bonds: A:V.237 SO4.12: 5 residues within 4Å: Chain B: S.36, F.37, V.38, S.65, E.67 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.36, B:F.37, B:E.67

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.13: 3 residues within 4Å: Chain A: R.208 Chain B: E.136, R.138 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:R.208, B:R.138 GOL.14: 4 residues within 4Å: Chain B: P.8, D.9, P.11, I.58 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.9, B:I.58

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lukacik, P. et al., Complement Regulation at the Molecular Level: The Structure of Decay-Accelerating Factor. Proc.Natl.Acad.Sci.USA (2004)

Release Date

2004-01-07

Peptides

COMPLEMENT DECAY-ACCELERATING FACTOR: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

COMPLEMENT DECAY-ACCELERATING FACTOR

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