SMTL ID : 2xr9.1

Crystal structure of Autotaxin (ENPP2)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

monomer

Ligands

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

NAG-NAG-BMA.1: 8 residues within 4Å: Chain A: L.185, S.189, P.487, N.488, N.489, D.708, L.710, H.796 No protein-ligand interaction detected (PLIP)

4 x SCN: THIOCYANATE ION(Non-functional Binders)

SCN.2: 7 residues within 4Å: Chain A: Y.517, P.518, H.551, I.576, L.577, Y.578, R.622 No protein-ligand interaction detected (PLIP) SCN.3: 3 residues within 4Å: Chain A: I.609, Y.642, K.674 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.674 SCN.4: 5 residues within 4Å: Chain A: S.628, Q.629, N.630, S.724, S.725 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.725 SCN.5: 5 residues within 4Å: Chain A: W.225, G.236, T.237, F.238, F.239 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:F.238

2 x ZN: ZINC ION(Non-covalent)

ZN.6: 4 residues within 4Å: Chain A: D.276, H.280, H.439 Ligands: PO4.9 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.276, A:D.276, A:H.280, A:H.439 ZN.7: 6 residues within 4Å: Chain A: D.136, T.174, D.276, D.323, H.324 Ligands: PO4.9 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.136, A:D.136, A:T.174, A:D.323, A:H.324

1 x CA: CALCIUM ION(Non-covalent)

CA.8: 5 residues within 4Å: Chain A: D.704, N.706, D.708, L.710, D.712 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.704, A:D.708, A:L.710, A:D.712, H2O.10

1 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.9: 11 residues within 4Å: Chain A: D.136, K.173, T.174, N.195, L.208, D.276, H.280, H.324, H.439 Ligands: ZN.6, ZN.7 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.174, A:N.195, A:D.276 Salt bridges: A:H.324, A:H.439

28 x IOD: IODIDE ION(Non-functional Binders)

IOD.10: 4 residues within 4Å: Chain A: G.194, N.195, S.196, R.356 Ligand excluded by PLIP IOD.11: 3 residues within 4Å: Chain A: P.752, L.753, R.808 Ligand excluded by PLIP IOD.12: 4 residues within 4Å: Chain A: F.644, W.677, Q.681 Ligands: IOD.22 Ligand excluded by PLIP IOD.13: 3 residues within 4Å: Chain A: G.352, H.417, V.418 Ligand excluded by PLIP IOD.14: 2 residues within 4Å: Chain A: M.197, R.358 Ligand excluded by PLIP IOD.15: 3 residues within 4Å: Chain A: K.45, V.242, S.243 Ligand excluded by PLIP IOD.16: 1 residues within 4Å: Chain A: S.811 Ligand excluded by PLIP IOD.17: 4 residues within 4Å: Chain A: L.89, Y.98, Q.99, Q.309 Ligand excluded by PLIP IOD.18: 4 residues within 4Å: Chain A: H.246, S.272, I.296, T.299 Ligand excluded by PLIP IOD.19: 2 residues within 4Å: Chain A: H.216, R.217 Ligand excluded by PLIP IOD.20: 3 residues within 4Å: Chain A: S.601, A.746, D.747 Ligand excluded by PLIP IOD.21: 3 residues within 4Å: Chain A: K.460, Y.461, R.500 Ligand excluded by PLIP IOD.22: 3 residues within 4Å: Chain A: K.674, A.678 Ligands: IOD.12 Ligand excluded by PLIP IOD.23: 3 residues within 4Å: Chain A: L.543, E.544, N.547 Ligand excluded by PLIP IOD.24: 3 residues within 4Å: Chain A: S.641, P.671, K.674 Ligand excluded by PLIP IOD.25: 5 residues within 4Å: Chain A: C.121, F.125, V.126, R.127, P.128 Ligand excluded by PLIP IOD.26: 2 residues within 4Å: Chain A: M.143, R.157 Ligand excluded by PLIP IOD.27: 5 residues within 4Å: Chain A: R.217, W.218, G.220, R.404 Ligands: IOD.28 Ligand excluded by PLIP IOD.28: 3 residues within 4Å: Chain A: N.402, R.404 Ligands: IOD.27 Ligand excluded by PLIP IOD.29: 2 residues within 4Å: Chain A: H.612, Y.658 Ligand excluded by PLIP IOD.30: 1 residues within 4Å: Chain A: T.572 Ligand excluded by PLIP IOD.31: 4 residues within 4Å: Chain A: K.464, V.465, P.466 Ligands: IOD.36 Ligand excluded by PLIP IOD.32: 2 residues within 4Å: Chain A: L.529, C.531 Ligand excluded by PLIP IOD.33: 1 residues within 4Å: Chain A: P.381 Ligand excluded by PLIP IOD.34: 1 residues within 4Å: Chain A: R.139 Ligand excluded by PLIP IOD.35: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP IOD.36: 1 residues within 4Å: Ligands: IOD.31 Ligand excluded by PLIP IOD.37: 1 residues within 4Å: Chain A: R.711 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hausmann, J. et al., Structural basis of substrate discrimination and integrin binding by autotaxin. Nat. Struct. Mol. Biol. (2011)

Release Date

2011-01-19

Peptides

ECTONUCLEOTIDE PYROPHOSPHATASE/PHOSPHODIESTERASE FAMILY MEMBER 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

ECTONUCLEOTIDE PYROPHOSPHATASE/PHOSPHODIESTERASE FAMILY MEMBER 2