SMTL ID : 4g1e.2 (2 other biounits)

Crystal structure of integrin alpha V beta 3 with coil-coiled tag.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

homo-dimer

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: 3 residues within 4Å: Chain A: N.99, F.100, S.101 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 4 residues within 4Å: Chain A: N.316, Q.319, N.320, E.323 No protein-ligand interaction detected (PLIP) NAG-NAG.13: 3 residues within 4Å: Chain B: N.99, F.100, S.101 No protein-ligand interaction detected (PLIP) NAG-NAG.14: 4 residues within 4Å: Chain B: N.316, Q.319, N.320, E.323 No protein-ligand interaction detected (PLIP)

4 x NAG- NAG- BMA- MAN: alpha-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG-BMA-MAN.3: 4 residues within 4Å: Chain A: N.371, S.398, I.399, E.400 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA-MAN.5: 7 residues within 4Å: Chain A: E.644, L.645, D.647, G.649, A.652, N.654, R.666 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA-MAN.15: 4 residues within 4Å: Chain B: N.371, S.398, I.399, E.400 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA-MAN.17: 7 residues within 4Å: Chain B: E.644, L.645, D.647, G.649, A.652, N.654, R.666 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:D.647

2 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

NAG-NAG-BMA.4: 4 residues within 4Å: Chain A: Y.531, Y.557, N.559, C.583 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.16: 4 residues within 4Å: Chain B: Y.531, Y.557, N.559, C.583 No protein-ligand interaction detected (PLIP)

2 x CA: CALCIUM ION(Non-covalent)

CA.6: 8 residues within 4Å: Chain A: D.158, N.215, R.216, D.217, A.218, P.219, E.220, H.255 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.158, A:D.217, A:D.217, A:P.219, A:E.220 CA.18: 8 residues within 4Å: Chain B: D.158, N.215, R.216, D.217, A.218, P.219, E.220, H.255 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:D.158, B:D.217, B:D.217, B:P.219, B:E.220

6 x SO4: SULFATE ION(Non-functional Binders)

SO4.7: 8 residues within 4Å: Chain A: S.70, D.71, K.72, S.78 Chain B: K.619, I.639, E.640, S.641 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:D.71, A:K.72, A:S.78, B:S.641 Salt bridges: B:K.619 SO4.8: 4 residues within 4Å: Chain A: I.4, T.7, R.8, E.522 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.7 Salt bridges: A:R.8 SO4.9: 4 residues within 4Å: Chain A: V.359, R.360, D.361, L.362 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.361, A:L.362 SO4.19: 8 residues within 4Å: Chain A: K.619, I.639, E.640, S.641 Chain B: S.70, D.71, K.72, S.78 6 PLIP interactions: 4 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:D.71, B:D.71, B:K.72, B:S.78, A:S.641 Salt bridges: A:K.619 SO4.20: 4 residues within 4Å: Chain B: I.4, T.7, R.8, E.522 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:E.522 Salt bridges: B:R.8 SO4.21: 4 residues within 4Å: Chain B: V.359, R.360, D.361, L.362 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.361, B:L.362

6 x CL: CHLORIDE ION(Non-functional Binders)

CL.10: 1 residues within 4Å: Chain A: M.535 Ligand excluded by PLIP CL.11: 1 residues within 4Å: Chain A: Y.556 Ligand excluded by PLIP CL.12: 2 residues within 4Å: Chain A: K.402, G.555 Ligand excluded by PLIP CL.22: 1 residues within 4Å: Chain B: M.535 Ligand excluded by PLIP CL.23: 1 residues within 4Å: Chain B: Y.556 Ligand excluded by PLIP CL.24: 2 residues within 4Å: Chain B: K.402, G.555 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dong, X. et al., AlphaV Beta3 Integrin Crystal Structures and their Functional Implications. Biochemistry (2012)

Release Date

2012-12-12

Peptides

Integrin beta-3: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
B

Integrin beta-3

Related Entries With Identical Sequence