SMTL ID : 2ok5.1

Human Complement factor B

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

monomer

Ligands

1 x NAG- NAG- BMA- MAN- MAN- MAN- MAN: alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-3)]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-MAN-MAN.1: 7 residues within 4Å: Chain A: K.30, E.82, R.84, Y.105, N.107, Q.716, K.717 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.2: 2 residues within 4Å: Chain A: A.126, N.127 No protein-ligand interaction detected (PLIP)

2 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.3: 2 residues within 4Å: Chain A: N.270, N.328 No protein-ligand interaction detected (PLIP) NAG.4: 1 residues within 4Å: Chain A: N.363 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.404

13 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 8 residues within 4Å: Chain A: Y.209, D.210, T.211, P.212, V.440, K.441, N.445 Ligands: GOL.6 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.441, A:N.445 GOL.6: 8 residues within 4Å: Chain A: I.86, N.133, R.135, F.207, M.208, Y.209, K.441 Ligands: GOL.5 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.135, A:Y.209, A:Y.209 Water bridges: A:V.132, A:N.133 GOL.7: 5 residues within 4Å: Chain A: V.162, G.163, S.171, T.173, R.187 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.173, A:R.187 Water bridges: A:S.171 GOL.8: 3 residues within 4Å: Chain A: D.745, L.746, G.747 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:D.745, A:L.746, A:G.747 Water bridges: A:E.586, A:Q.742, A:D.745 GOL.9: 8 residues within 4Å: Chain A: C.600, Q.601, K.604, F.731, L.734, A.750, A.751, A.752 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:K.604, A:K.604, A:A.750 Water bridges: A:Q.601, A:Q.601 GOL.10: 6 residues within 4Å: Chain A: Y.52, I.86, H.87, D.205, F.207 Ligands: GOL.13 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:H.87, A:H.87, A:H.87, A:D.205 GOL.11: 6 residues within 4Å: Chain A: E.529, R.531, L.533, L.571, K.572, I.577 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.529, A:R.531, A:K.572 Water bridges: A:R.531 GOL.12: 6 residues within 4Å: Chain A: K.30, G.31, P.48, F.51, C.83, A.675 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:A.675, A:A.675 GOL.13: 6 residues within 4Å: Chain A: Y.52, Y.54, P.55, T.72, Q.73 Ligands: GOL.10 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.52, A:Q.73 GOL.14: 5 residues within 4Å: Chain A: D.644, Y.647, A.721, H.722, R.724 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.724 GOL.15: 3 residues within 4Å: Chain A: R.123, G.124, Q.139 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.124 Water bridges: A:G.124 GOL.16: 6 residues within 4Å: Chain A: G.146, G.148, Y.149, C.150, S.151, G.194 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.146, A:Y.149, A:S.151, A:G.194 Water bridges: A:N.152 GOL.17: 5 residues within 4Å: Chain A: Y.504, F.505, K.566, D.743, E.744 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.566

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Milder, F.J. et al., Factor B structure provides insights into activation of the central protease of the complement system. Nat.Struct.Mol.Biol. (2007)

Release Date

2007-02-27

Peptides

Complement factor B: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Complement factor B