SMTL ID : 1rs0.1

Crystal Structure Analysis of the Bb segment of Factor B complexed with Di-isopropyl-phosphate (DIP)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

monomer

Ligands

2 x IOD: IODIDE ION(Non-functional Binders)

IOD.1: 4 residues within 4Å: Chain A: H.289, V.481, P.483, W.484 Ligand excluded by PLIP IOD.2: 3 residues within 4Å: Chain A: H.224, Q.323 Ligands: NA.9 Ligand excluded by PLIP

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

NA.3: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) NA.4: 1 residues within 4Å: Chain A: W.67 No protein-ligand interaction detected (PLIP) NA.5: 2 residues within 4Å: Chain A: E.204, S.205 No protein-ligand interaction detected (PLIP) NA.6: 3 residues within 4Å: Chain A: K.352, N.477, Q.480 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.477, A:Q.480 NA.7: 2 residues within 4Å: Chain A: R.338, P.344 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.338 NA.8: 2 residues within 4Å: Chain A: G.145, R.148 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.145 NA.9: 1 residues within 4Å: Ligands: IOD.2 No protein-ligand interaction detected (PLIP)

1 x MG: MAGNESIUM ION(Non-covalent)

MG.10: 4 residues within 4Å: Chain A: S.11, S.13, T.86, L.124 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:S.11, A:S.13, A:T.86, H2O.8, H2O.8

1 x DFP: DIISOPROPYL PHOSPHONATE(Covalent)

DFP.11: 11 residues within 4Å: Chain A: E.242, H.259, T.427, C.428, R.429, G.430, D.431, S.432, I.450, S.451, W.452 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:I.450 Hydrogen bonds: A:G.430, A:S.432 Salt bridges: A:H.259

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ponnuraj, K. et al., Structural analysis of engineered Bb fragment of complement factor B: insights into the activation mechanism of the alternative pathway C3-convertase. Mol.Cell (2004)

Release Date

2004-12-14

Peptides

Complement factor B: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Complement factor B

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