SMTL ID : 2rhp.1

The Thrombospondin-1 Polymorphism Asn700Ser Associated with Cornoary Artery Disease Causes Local and Long-Ranging Changes in Protein Structure

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

monomer

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: 5 residues within 4Å: Chain A: D.316, R.486, N.519, T.521, T.594 No protein-ligand interaction detected (PLIP)

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

NAG.2: 3 residues within 4Å: Chain A: L.139, V.156, N.160 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.139 NAG.3: 4 residues within 4Å: Chain A: G.2, S.5, G.20, W.22 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.2

30 x CA: CALCIUM ION(Non-covalent)

CA.4: 8 residues within 4Å: Chain A: D.387, D.389, D.396, C.398, N.401, I.404, S.405 Ligands: CA.5 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.389, A:D.396, A:C.398, A:N.401, A:I.404 CA.5: 6 residues within 4Å: Chain A: D.385, D.387, D.389, I.391, D.396 Ligands: CA.4 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.385, A:D.387, A:D.389, A:I.391, A:D.396 CA.6: 5 residues within 4Å: Chain A: D.372, D.374, D.376, R.378, D.380 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.372, A:D.374, A:D.376, A:R.378, A:D.380 CA.7: 5 residues within 4Å: Chain A: D.349, D.351, D.353, V.355, D.360 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.349, A:D.353, A:V.355, A:D.360, H2O.2 CA.8: 6 residues within 4Å: Chain A: D.351, D.353, D.360, C.362, V.365, N.367 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.351, A:D.353, A:D.360, A:C.362, A:V.365 CA.9: 6 residues within 4Å: Chain A: D.338, D.340, D.347, D.349, N.352 Ligands: CA.10 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.338, A:D.340, A:D.347, A:D.347, A:D.349 CA.10: 6 residues within 4Å: Chain A: D.336, D.338, D.340, Q.342, D.347 Ligands: CA.9 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.336, A:D.338, A:D.340, A:Q.342, A:D.347 CA.11: 4 residues within 4Å: Chain A: D.344, D.347, D.350, D.357 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.344, A:D.347, A:D.350, A:D.357, H2O.2 CA.12: 8 residues within 4Å: Chain A: D.315, D.317, D.324, C.326, I.329, S.330, N.331 Ligands: CA.13 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.315, A:D.317, A:D.324, A:C.326, A:I.329 CA.13: 6 residues within 4Å: Chain A: D.313, D.315, D.317, H.319, D.324 Ligands: CA.12 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.313, A:D.315, A:D.317, A:H.319, A:D.324 CA.14: 4 residues within 4Å: Chain A: D.300, D.302, D.309, N.311 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.300, A:D.302, A:D.309, A:D.309 CA.15: 5 residues within 4Å: Chain A: D.298, D.300, D.302, V.304, D.309 6 PLIP interactions: 5 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.298, A:D.300, A:D.302, A:V.304, A:D.309, H2O.3 CA.16: 4 residues within 4Å: Chain A: N.443, D.471, D.473, S.606 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.471, A:D.473, A:S.606, A:S.606, H2O.1 CA.17: 4 residues within 4Å: Chain A: D.469, D.471, Q.494, D.556 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.469, A:D.471, A:D.556, H2O.2 CA.18: 4 residues within 4Å: Chain A: D.471, D.472, D.473, Q.497 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.472, A:D.473 CA.19: 4 residues within 4Å: Chain A: D.239, D.241, N.243, E.245 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.239, A:D.241, A:E.245 CA.20: 7 residues within 4Å: Chain A: D.277, D.279, D.286, C.288, V.291, N.293 Ligands: CA.21 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.277, A:D.279, A:D.286, A:C.288, A:V.291 CA.21: 6 residues within 4Å: Chain A: D.275, D.277, D.279, V.281, D.286 Ligands: CA.20 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.275, A:D.277, A:D.279, A:V.281, A:D.286 CA.22: 8 residues within 4Å: Chain A: D.254, D.256, D.263, C.265, V.268, Y.269, N.270 Ligands: CA.23 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.256, A:D.263, A:D.263, A:C.265, A:V.268 CA.23: 6 residues within 4Å: Chain A: D.252, D.254, D.256, V.258, D.263 Ligands: CA.22 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.252, A:D.254, A:D.256, A:V.258, A:D.263 CA.24: 7 residues within 4Å: Chain A: D.218, D.220, D.227, C.229, V.232, N.234 Ligands: CA.25 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.220, A:D.227, A:D.227, A:C.229, A:V.232 CA.25: 6 residues within 4Å: Chain A: D.216, D.218, D.220, V.222, D.227 Ligands: CA.24 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.216, A:D.218, A:D.220, A:V.222, A:D.227 CA.26: 6 residues within 4Å: Chain A: D.195, D.197, D.204, C.206, L.209, N.211 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.195, A:D.197, A:D.204, A:C.206, A:L.209 CA.27: 5 residues within 4Å: Chain A: D.193, D.195, D.197, V.199, D.204 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.193, A:D.195, A:D.197, A:V.199, A:D.204 CA.28: 6 residues within 4Å: Chain A: D.180, D.182, D.184, I.186, D.191 Ligands: CA.29 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.180, A:D.182, A:D.184, A:I.186, A:D.191 CA.29: 6 residues within 4Å: Chain A: D.182, D.184, D.191, D.193, N.196 Ligands: CA.28 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.182, A:D.184, A:D.191, A:D.191, A:D.193 CA.30: 4 residues within 4Å: Chain A: D.188, D.191, D.194, D.201 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.188, A:D.191, A:D.194, A:D.194, A:D.201 CA.31: 5 residues within 4Å: Chain A: D.144, D.146, D.148, W.150, D.168 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.144, A:D.146, A:D.148, A:W.150, A:D.168 CA.32: 7 residues within 4Å: Chain A: D.146, D.148, D.168, C.170, L.173, P.174, N.175 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.146, A:D.148, A:D.168, A:C.170, A:L.173 CA.33: 7 residues within 4Å: Chain A: D.40, L.41, E.43, N.62, T.63, Q.64, G.66 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.40, A:L.41, A:E.43, A:T.63, A:G.66

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Carlson, C.B. et al., Influences of the N700S Thrombospondin-1 Polymorphism on Protein Structure and Stability. J.Biol.Chem. (2008)

Release Date

2008-05-27

Peptides

Thrombospondin-2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Thrombospondin-2