SMTL ID : 1swz.1

Use of an ion-binding site to bypass the 1000-atom limit to ab initio structure determination by direct methods

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.06 Å

Oligo State

monomer

Ligands

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

PO4.1: 2 residues within 4Å: Chain A: R.76, R.80 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.76 Salt bridges: A:R.76, A:R.80

5 x RB: RUBIDIUM ION(Non-covalent)

RB.2: 4 residues within 4Å: Chain A: Y.88, D.89, L.91, E.96 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.89, A:L.91, A:E.96, H2O.1, H2O.3 RB.3: 2 residues within 4Å: Chain A: E.11, Y.18 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.11, A:Y.18, H2O.5, H2O.8, H2O.8 RB.4: 2 residues within 4Å: Chain A: G.30, F.104 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:G.30, A:F.104, H2O.8 RB.5: 2 residues within 4Å: Chain A: G.113, T.115 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:T.115 RB.6: 2 residues within 4Å: Chain A: Y.25, P.37 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:Y.25, A:P.37, H2O.8, H2O.8

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

CL.7: 4 residues within 4Å: Chain A: R.125, W.126, D.127, E.128 Ligand excluded by PLIP CL.8: 4 residues within 4Å: Chain A: T.142, P.143, N.144, R.145 Ligand excluded by PLIP CL.9: 3 residues within 4Å: Chain A: V.131, N.132, K.135 Ligand excluded by PLIP CL.10: 1 residues within 4Å: Chain A: H.31 Ligand excluded by PLIP

2 x BME: BETA-MERCAPTOETHANOL(Non-functional Binders)

BME.11: 4 residues within 4Å: Chain A: V.75, Y.88, I.100 Ligands: BME.12 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.88 BME.12: 4 residues within 4Å: Chain A: I.3, C.97, I.100 Ligands: BME.11 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mooers, B.H. et al., Use of an ion-binding site to bypass the 1000-atom limit to structure determination by direct methods. Acta Crystallogr.,Sect.D (2004)

Release Date

2005-01-18

Peptides

Lysozyme: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Lysozyme

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