SMTL ID : 1jv2.1

CRYSTAL STRUCTURE OF THE EXTRACELLULAR SEGMENT OF INTEGRIN ALPHAVBETA3

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.10 Å

Oligo State

hetero-1-1-mer

Ligands

4 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: E.15, G.16, K.42, N.44, V.51, E.52, H.91 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 8 residues within 4Å: Chain A: A.213, Q.214, F.217, M.252, Y.254, S.263, L.264, N.266 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:A.213, A:F.217 Hydrogen bonds: A:Q.214 NAG-NAG.3: 4 residues within 4Å: Chain A: F.558, E.560, A.584, N.585 No protein-ligand interaction detected (PLIP) NAG-NAG.5: 3 residues within 4Å: Chain A: D.751, T.948, N.950 No protein-ligand interaction detected (PLIP)

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

NAG-NDG.4: 2 residues within 4Å: Chain A: T.942, N.943 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:V.742, A:N.943 NAG-NDG.6: 6 residues within 4Å: Chain A: D.622, P.624, I.654, R.698 Chain B: Y.557, N.559 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:I.654 Hydrogen bonds: B:N.559 NAG-NDG.7: 9 residues within 4Å: Chain A: P.758 Chain B: L.645, K.646, D.647, T.648, G.649, K.650, A.652, N.654 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:P.758, B:L.645, B:K.646 Hydrogen bonds: B:K.646, B:D.647, B:G.649

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

NAG.8: 1 residues within 4Å: Chain A: N.260 No protein-ligand interaction detected (PLIP) NAG.9: 8 residues within 4Å: Chain A: P.451, I.453, L.454, N.455, N.458, T.460, S.471, C.472 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.455, A:N.458 NAG.15: 4 residues within 4Å: Chain A: R.248, M.272 Chain B: N.316, N.320 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:N.320, A:R.248 Hydrophobic interactions: A:R.248 NAG.16: 3 residues within 4Å: Chain B: N.371, S.398, E.400 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.371, B:S.398

6 x CA: CALCIUM ION(Non-covalent)

CA.10: 4 residues within 4Å: Chain A: D.230, N.232, I.236, D.238 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.230, A:I.236, A:D.238 CA.11: 5 residues within 4Å: Chain A: D.284, N.286, D.288, Y.290, D.292 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.284, A:D.288, A:Y.290, A:D.292 CA.12: 8 residues within 4Å: Chain A: D.349, D.351, D.353, F.355, N.356, D.357, N.377, G.378 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.351, A:D.351, A:D.353, A:F.355, A:D.357 CA.13: 6 residues within 4Å: Chain A: D.413, D.415, N.417, Y.419, P.420, D.421 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.415, A:Y.419, A:P.420, A:D.421, A:D.421 CA.14: 6 residues within 4Å: Chain A: C.596, G.597, D.599, N.600, V.601, E.636 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:G.597, A:D.599, A:V.601, A:E.636 CA.17: 4 residues within 4Å: Chain B: S.123, D.126, D.127, M.335 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:S.123, B:D.126, B:D.126, B:D.127, B:M.335

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xiong, J.P. et al., Crystal structure of the extracellular segment of integrin alpha Vbeta3. Science (2001)

Release Date

2001-10-17

Peptides

INTEGRIN, ALPHA V: A
PLATELET MEMBRANE GLYCOPROTEIN IIIA BETA SUBUNIT: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

INTEGRIN, ALPHA V

PLATELET MEMBRANE GLYCOPROTEIN IIIA BETA SUBUNIT

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