SMTL ID : 5fo8.1

Crystal Structure of Human Complement C3b in Complex with MCP (CCP1-4)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

hetero-1-1-1-mer

Ligands

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.1: 7 residues within 4Å: Chain A: T.19, N.63, L.478, L.479, K.480, A.481 Ligands: EDO.4 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Non-functional Binders)

NAG-NAG-BMA.2: 2 residues within 4Å: Chain B: N.191, M.599 No protein-ligand interaction detected (PLIP)

32 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 3 residues within 4Å: Chain A: H.334, T.336, R.417 Ligand excluded by PLIP EDO.4: 5 residues within 4Å: Chain A: M.61, G.62, N.63, A.481 Ligands: NAG-NAG.1 Ligand excluded by PLIP EDO.5: 5 residues within 4Å: Chain A: G.138, Q.161, N.162, Q.163, L.164 Ligand excluded by PLIP EDO.6: 2 residues within 4Å: Chain A: G.371, T.374 Ligand excluded by PLIP EDO.7: 5 residues within 4Å: Chain B: L.435, Q.436, V.441, K.461, T.465 Ligand excluded by PLIP EDO.8: 6 residues within 4Å: Chain B: E.473, D.474, P.475, G.476, Q.478, N.481 Ligand excluded by PLIP EDO.9: 3 residues within 4Å: Chain B: N.460, L.463, F.500 Ligand excluded by PLIP EDO.10: 8 residues within 4Å: Chain B: T.258, P.259, S.260, E.265, N.266, I.268, G.269 Ligands: EDO.19 Ligand excluded by PLIP EDO.11: 5 residues within 4Å: Chain B: G.290, L.291, E.292, K.293 Ligands: EDO.12 Ligand excluded by PLIP EDO.12: 4 residues within 4Å: Chain B: E.287, K.288, G.290 Ligands: EDO.11 Ligand excluded by PLIP EDO.13: 8 residues within 4Å: Chain A: P.41, G.42, K.43 Chain B: R.294, L.298, N.343, L.344 Chain C: F.208 Ligand excluded by PLIP EDO.14: 5 residues within 4Å: Chain B: L.608, N.611, K.612, E.738, E.739 Ligand excluded by PLIP EDO.15: 5 residues within 4Å: Chain B: N.509, E.510, R.512, Y.514 Ligands: EDO.34 Ligand excluded by PLIP EDO.16: 6 residues within 4Å: Chain B: Q.313, V.322, K.323, R.324, A.325, P.326 Ligand excluded by PLIP EDO.17: 3 residues within 4Å: Chain B: R.324, D.373, A.374 Ligand excluded by PLIP EDO.18: 5 residues within 4Å: Chain B: K.293, G.296, A.297, L.300 Ligands: EDO.32 Ligand excluded by PLIP EDO.19: 3 residues within 4Å: Chain B: E.265, I.268 Ligands: EDO.10 Ligand excluded by PLIP EDO.20: 2 residues within 4Å: Chain B: M.433, N.434 Ligand excluded by PLIP EDO.21: 6 residues within 4Å: Chain B: E.390, M.393, N.431, N.434, L.435 Ligands: EDO.22 Ligand excluded by PLIP EDO.22: 3 residues within 4Å: Chain B: D.392, F.427 Ligands: EDO.21 Ligand excluded by PLIP EDO.23: 5 residues within 4Å: Chain B: K.798, Q.819, W.883, G.902, T.905 Ligand excluded by PLIP EDO.24: 6 residues within 4Å: Chain B: K.798, H.853, W.883, P.884, E.885, E.886 Ligand excluded by PLIP EDO.25: 4 residues within 4Å: Chain B: T.198, D.200, R.203, Q.591 Ligand excluded by PLIP EDO.26: 5 residues within 4Å: Chain A: F.40 Chain B: E.284, Q.285, W.286, E.287 Ligand excluded by PLIP EDO.27: 6 residues within 4Å: Chain B: W.329, E.372, P.375, V.376, Q.379, I.382 Ligand excluded by PLIP EDO.28: 3 residues within 4Å: Chain B: P.272, G.516, G.517 Ligand excluded by PLIP EDO.29: 4 residues within 4Å: Chain B: K.357, Q.413, V.414, N.415 Ligand excluded by PLIP EDO.30: 4 residues within 4Å: Chain B: L.781, Q.899, D.900, A.903 Ligand excluded by PLIP EDO.31: 1 residues within 4Å: Chain B: D.891 Ligand excluded by PLIP EDO.32: 5 residues within 4Å: Chain B: E.292, K.293, Q.295, G.296 Ligands: EDO.18 Ligand excluded by PLIP EDO.33: 10 residues within 4Å: Chain B: V.247, L.508, N.509, Q.511, R.512, Y.513, Y.514, V.527, L.531 Ligands: EDO.34 Ligand excluded by PLIP EDO.34: 7 residues within 4Å: Chain B: D.245, A.246, V.247, N.509, Y.514 Ligands: EDO.15, EDO.33 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Forneris, F. et al., Regulators of Complement Activity Mediate Inhibitory Mechanisms Through a Common C3B-Binding Mode. Embo J. (2016)

Release Date

2016-04-06

Peptides

COMPLEMENT C3: A
COMPLEMENT C3: B
MEMBRANE COFACTOR PROTEIN: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

COMPLEMENT C3

COMPLEMENT C3

MEMBRANE COFACTOR PROTEIN

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