SMTL ID : 1pu4.1

Crystal structure of human vascular adhesion protein-1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.20 Å

Oligo State

homo-dimer

Ligands

2 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: F.130, Q.133, N.137, S.139, P.163 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 5 residues within 4Å: Chain B: F.130, Q.133, N.137, S.139, P.163 No protein-ligand interaction detected (PLIP)

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

NAG.3: 6 residues within 4Å: Chain A: R.206, L.208, N.232, S.234 Chain B: Y.448, S.449 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.206, A:S.234 NAG.7: 6 residues within 4Å: Chain A: Y.448 Chain B: R.206, L.208, V.209, N.232, S.234 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:V.209 Hydrogen bonds: B:R.206, B:S.234

2 x CU: COPPER (II) ION(Non-covalent)

CU.4: 4 residues within 4Å: Chain A: Y.471, H.520, H.522, H.684 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.520, A:H.522, A:H.684 CU.8: 4 residues within 4Å: Chain B: Y.471, H.520, H.522, H.684 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:H.520, B:H.522, B:H.684

4 x CA: CALCIUM ION(Non-covalent)

CA.5: 6 residues within 4Å: Chain A: K.106, D.529, L.530, D.531, D.673, L.674 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.529, A:L.530, A:D.531, A:D.673, A:L.674 CA.6: 6 residues within 4Å: Chain A: E.572, K.638, E.641, F.663, N.665, E.667 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:E.572, A:E.572, A:F.663, A:E.667 CA.9: 7 residues within 4Å: Chain B: K.106, D.529, L.530, D.531, N.537, D.673, L.674 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:D.529, B:L.530, B:D.531, B:D.673, B:L.674 CA.10: 6 residues within 4Å: Chain B: E.572, K.638, E.641, F.663, N.665, E.667 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:E.572, B:F.663, B:E.667

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Airenne, T.T. et al., Crystal structure of the human vascular adhesion protein-1: unique structural features with functional implications. Protein Sci. (2005)

Release Date

2005-05-03

Peptides

Membrane copper amine oxidase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Membrane copper amine oxidase

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