SMTL ID : 6sr1.1

X-ray pump X-ray probe on lysozyme.Gd nanocrystals: 35 fs time delay

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

monomer

Ligands

2 x GD: GADOLINIUM ATOM(Non-functional Binders)

GD.1: 1 residues within 4Å: Ligands: DO3.4 No protein-ligand interaction detected (PLIP) GD.2: 1 residues within 4Å: Ligands: DO3.3 No protein-ligand interaction detected (PLIP)

2 x DO3: 10-((2R)-2-HYDROXYPROPYL)-1,4,7,10-TETRAAZACYCLODODECANE 1,4,7-TRIACETIC ACID(Non-functional Binders)(Non-covalent)

DO3.3: 2 residues within 4Å: Ligands: GD.2, DO3.4 No protein-ligand interaction detected (PLIP) DO3.4: 5 residues within 4Å: Chain A: R.23, A.140, W.141 Ligands: GD.1, DO3.3 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.23, A:R.23

1 x NA: SODIUM ION(Non-functional Binders)

NA.5: 5 residues within 4Å: Chain A: S.78, C.82, N.83, S.90, R.91 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:C.82 Water bridges: A:N.83

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

CL.6: 1 residues within 4Å: Chain A: Y.41 Ligand excluded by PLIP CL.7: 4 residues within 4Å: Chain A: S.42, G.44, Q.139, I.142 Ligand excluded by PLIP CL.8: 5 residues within 4Å: Chain A: N.83, G.85, R.86, T.87, S.90 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nass, K. et al., Structural dynamics in proteins induced by and probed with X-ray free-electron laser pulses. Nat Commun (2020)

Release Date

2020-04-22

Peptides

Lysozyme C: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Lysozyme C

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