SMTL ID : 1dl5.1 (1 other biounit)

PROTEIN-L-ISOASPARTATE O-METHYLTRANSFERASE

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

9 x CD: CADMIUM ION(Non-covalent)

CD.1: 4 residues within 4Å: Chain B: Q.289, H.312 Ligands: CL.2, CL.3 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:H.312 CD.4: 3 residues within 4Å: Chain B: H.238 Ligands: CL.5, CL.6 No protein-ligand interaction detected (PLIP) CD.7: 2 residues within 4Å: Chain A: D.271, D.272 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.272, A:D.272, H2O.9, H2O.9 CD.8: 1 residues within 4Å: Chain A: D.16 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.16, A:D.16 CD.9: 1 residues within 4Å: Chain B: D.74 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:D.74, B:D.74 CD.11: 5 residues within 4Å: Chain A: R.220, E.253, D.255 Ligands: CL.12, CL.13 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.253, A:E.253 CD.14: 4 residues within 4Å: Chain A: D.279, E.284 Ligands: CL.15, CL.16 No protein-ligand interaction detected (PLIP) CD.17: 4 residues within 4Å: Chain B: D.279, E.284 Ligands: CL.18, CL.19 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:D.279, B:D.279, B:E.284, B:E.284 CD.20: 1 residues within 4Å: Chain B: E.217 5 PLIP interactions: 1 interactions with chain B, 4 Ligand-Water interactions Metal complexes: B:E.217, H2O.12, H2O.18, H2O.18, H2O.18

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

CL.2: 5 residues within 4Å: Chain B: Q.289, H.312, I.313 Ligands: CD.1, CL.3 Ligand excluded by PLIP CL.3: 7 residues within 4Å: Chain B: N.285, L.286, Q.289, H.312, I.313 Ligands: CD.1, CL.2 Ligand excluded by PLIP CL.5: 4 residues within 4Å: Chain B: R.236, H.238, I.239 Ligands: CD.4 Ligand excluded by PLIP CL.6: 2 residues within 4Å: Chain B: H.238 Ligands: CD.4 Ligand excluded by PLIP CL.12: 4 residues within 4Å: Chain A: R.220, E.253 Ligands: CD.11, CL.13 Ligand excluded by PLIP CL.13: 6 residues within 4Å: Chain A: R.220, E.253, I.254, D.255 Ligands: CD.11, CL.12 Ligand excluded by PLIP CL.15: 4 residues within 4Å: Chain A: R.230, E.284 Ligands: CD.14, CL.16 Ligand excluded by PLIP CL.16: 8 residues within 4Å: Chain A: N.229, I.276, D.279, A.280, P.281, E.284 Ligands: CD.14, CL.15 Ligand excluded by PLIP CL.18: 6 residues within 4Å: Chain A: Y.194 Chain B: N.229, R.230, D.279, E.284 Ligands: CD.17 Ligand excluded by PLIP CL.19: 6 residues within 4Å: Chain A: N.285, F.310 Chain B: D.279, P.281, E.284 Ligands: CD.17 Ligand excluded by PLIP

2 x SAH: S-ADENOSYL-L-HOMOCYSTEINE(Non-covalent)

SAH.10: 23 residues within 4Å: Chain A: S.56, T.57, S.58, S.59, E.81, G.83, G.84, G.85, T.86, Y.88, N.89, V.106, E.107, Y.108, G.133, D.134, G.135, T.151, V.152, I.206, A.208, G.209, L.212 16 PLIP interactions: 16 interactions with chain A Hydrogen bonds: A:S.56, A:T.57, A:G.85, A:T.86, A:N.89, A:Y.108, A:G.135, A:T.151, A:T.151, A:G.209, A:G.209 Water bridges: A:S.59, A:S.59, A:Y.88, A:Y.88, A:A.90 SAH.21: 23 residues within 4Å: Chain B: S.56, T.57, S.58, S.59, E.81, G.83, G.84, G.85, T.86, Y.88, N.89, V.106, E.107, Y.108, G.133, D.134, G.135, T.151, V.152, I.206, A.208, G.209, L.212 16 PLIP interactions: 16 interactions with chain B Hydrogen bonds: B:S.56, B:T.57, B:G.85, B:T.86, B:N.89, B:Y.108, B:D.134, B:G.135, B:T.151, B:G.209, B:G.209 Water bridges: B:S.59, B:S.59, B:Y.88, B:Y.88, B:A.90

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Skinner, M.M. et al., Crystal structure of protein isoaspartyl methyltransferase: a catalyst for protein repair. Structure Fold.Des. (2000)

Release Date

2000-12-08

Peptides

PROTEIN-L-ISOASPARTATE O-METHYLTRANSFERASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

PROTEIN-L-ISOASPARTATE O-METHYLTRANSFERASE

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