SMTL ID : 2nz6.2 (1 other biounit)

Crystal structure of the PTPRJ inactivating mutant C1239S

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-trimer

Ligands

15 x NI: NICKEL (II) ION(Non-covalent)

NI.1: 8 residues within 4Å: Chain A: H.5, H.7 Chain B: H.5, H.7 Chain C: H.5, H.7 Ligands: NI.8, NI.15 6 PLIP interactions: 2 interactions with chain B, 2 interactions with chain C, 2 interactions with chain A Metal complexes: B:H.5, B:H.7, C:H.5, C:H.7, A:H.5, A:H.7 NI.2: 1 residues within 4Å: Chain A: H.211 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:H.211 NI.3: 4 residues within 4Å: Chain A: H.2, H.3, H.4 Chain C: H.4 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:H.3 NI.4: 5 residues within 4Å: Chain A: H.4, H.6 Chain B: H.2 Chain C: K.111, H.282 4 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B, 1 interactions with chain C Metal complexes: A:H.4, A:H.6, B:H.2, C:H.282 NI.5: 5 residues within 4Å: Chain A: H.3 Chain B: H.3 Chain C: H.3 Ligands: NI.12, NI.19 5 PLIP interactions: 1 interactions with chain A, 1 interactions with chain C, 1 interactions with chain B, 2 Ligand-Water interactions Metal complexes: A:H.3, C:H.3, B:H.3, H2O.7, H2O.11 NI.8: 8 residues within 4Å: Chain A: H.5, H.7 Chain B: H.5, H.7 Chain C: H.5, H.7 Ligands: NI.1, NI.15 6 PLIP interactions: 2 interactions with chain B, 2 interactions with chain C, 2 interactions with chain A Metal complexes: B:H.5, B:H.7, C:H.5, C:H.7, A:H.5, A:H.7 NI.9: 1 residues within 4Å: Chain B: H.211 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:H.211 NI.10: 4 residues within 4Å: Chain A: H.4 Chain B: H.2, H.3, H.4 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:H.3 NI.11: 5 residues within 4Å: Chain A: K.111, H.282 Chain B: H.4, H.6 Chain C: H.2 4 PLIP interactions: 1 interactions with chain A, 1 interactions with chain C, 2 interactions with chain B Metal complexes: A:H.282, C:H.2, B:H.4, B:H.6 NI.12: 5 residues within 4Å: Chain A: H.3 Chain B: H.3 Chain C: H.3 Ligands: NI.5, NI.19 5 PLIP interactions: 1 interactions with chain A, 1 interactions with chain C, 1 interactions with chain B, 2 Ligand-Water interactions Metal complexes: A:H.3, C:H.3, B:H.3, H2O.4, H2O.11 NI.15: 8 residues within 4Å: Chain A: H.5, H.7 Chain B: H.5, H.7 Chain C: H.5, H.7 Ligands: NI.1, NI.8 6 PLIP interactions: 2 interactions with chain B, 2 interactions with chain C, 2 interactions with chain A Metal complexes: B:H.5, B:H.7, C:H.5, C:H.7, A:H.5, A:H.7 NI.16: 1 residues within 4Å: Chain C: H.211 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:H.211 NI.17: 4 residues within 4Å: Chain B: H.4 Chain C: H.2, H.3, H.4 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:H.3 NI.18: 5 residues within 4Å: Chain A: H.2 Chain B: K.111, H.282 Chain C: H.4, H.6 4 PLIP interactions: 1 interactions with chain B, 2 interactions with chain C, 1 interactions with chain A Metal complexes: B:H.282, C:H.4, C:H.6, A:H.2 NI.19: 5 residues within 4Å: Chain A: H.3 Chain B: H.3 Chain C: H.3 Ligands: NI.5, NI.12 5 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B, 1 interactions with chain C, 2 Ligand-Water interactions Metal complexes: A:H.3, B:H.3, C:H.3, H2O.4, H2O.7

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

PO4.6: 8 residues within 4Å: Chain A: D.210, S.244, S.245, A.246, G.247, V.248, G.249, R.250 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:S.244, A:A.246, A:G.247, A:V.248, A:G.249, A:R.250 Water bridges: A:H.211, A:Q.292 Salt bridges: A:R.250 PO4.13: 8 residues within 4Å: Chain B: D.210, S.244, S.245, A.246, G.247, V.248, G.249, R.250 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:S.244, B:A.246, B:G.247, B:V.248, B:G.249, B:R.250 Water bridges: B:H.211, B:Q.292 Salt bridges: B:R.250 PO4.20: 8 residues within 4Å: Chain C: D.210, S.244, S.245, A.246, G.247, V.248, G.249, R.250 9 PLIP interactions: 9 interactions with chain C Hydrogen bonds: C:S.244, C:A.246, C:G.247, C:V.248, C:G.249, C:R.250 Water bridges: C:H.211, C:Q.292 Salt bridges: C:R.250

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

CL.7: 2 residues within 4Å: Chain A: K.145, R.250 Ligand excluded by PLIP CL.14: 2 residues within 4Å: Chain B: K.145, R.250 Ligand excluded by PLIP CL.21: 2 residues within 4Å: Chain C: K.145, R.250 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Barr, A.J. et al., Large-scale structural analysis of the classical human protein tyrosine phosphatome. Cell(Cambridge,Mass.) (2009)

Release Date

2006-12-12

Peptides

Receptor-type tyrosine-protein phosphatase eta: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

Receptor-type tyrosine-protein phosphatase eta

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