SMTL ID : 8f11.1

T4 lysozyme with a 2,6-diazaadamantane nitroxide (DZD) spin label

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.12 Å

Oligo State

monomer

Ligands

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

BME.1: 5 residues within 4Å: Chain A: I.3, V.75, Y.88, I.100 Ligands: BME.2 No protein-ligand interaction detected (PLIP) BME.2: 8 residues within 4Å: Chain A: I.3, Y.88, A.93, R.96, A.97, I.100, W.158 Ligands: BME.1 No protein-ligand interaction detected (PLIP)

1 x X8R: 1-[(1r,3r,5r,7r)-6-hydroxy-2,6-diazatricyclo[3.3.1.1~3,7~]decan-2-yl]ethan-1-one(Covalent)

X8R.3: 2 residues within 4Å: Chain A: C.65, Q.69 1 PLIP interactions: 1 interactions with chain A Water bridges: A:I.50

2 x K: POTASSIUM ION(Non-covalent)

K.4: 3 residues within 4Å: Chain A: E.11, Y.18, G.30 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:E.11, H2O.3, H2O.3, H2O.5, H2O.9 K.5: 4 residues within 4Å: Chain A: R.125, W.126, D.127, E.128 No protein-ligand interaction detected (PLIP)

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

CL.6: 4 residues within 4Å: Chain A: T.142, P.143, N.144, R.145 Ligand excluded by PLIP CL.7: 3 residues within 4Å: Chain A: K.19, Y.25, P.37 Ligand excluded by PLIP CL.8: 2 residues within 4Å: Chain A: K.135, S.136 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yang, Z. et al., Cucurbit[7]uril Enhances Distance Measurements of Spin-Labeled Proteins. J.Am.Chem.Soc. (2023)

Release Date

2023-02-15

Peptides

Endolysin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Endolysin

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