5HLL

Re-refinement of 4g4a: room-temperature X-ray diffraction study of cisplatin and its binding to His15 of HEWL after 14 months chemical exposure in the presence of DMSO.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.224
  • R-Value Work: 0.180

Literature

Macromolecules
Sequence Display for 5HLL

Classification: HYDROLASE

Total Structure Weight: 15015.34

Macromolecule Entities
Molecule Chains Length Organism Details
Lysozyme C A 129 Gallus gallus EC#: 3.2.1.17 IUBMB
Details: Hen egg white lyysozyme with cisplatin with DMSO
Gene Name(s): LYZ Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
PT
Query on PT

A PLATINUM (II) ION
Pt
HRGDZIGMBDGFTC-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
DMS
Query on DMS

A DIMETHYL SULFOXIDE
C2 H6 O S
IAZDPXIOMUYVGZ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CL
Query on CL

A CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NA
Query on NA

A SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NH3
Query on NH3

A AMMONIA
H3 N
QGZKDVFQNNGYKY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.224
  • R-Value Work: 0.180
  • Space Group: P 43 21 2

Unit Cell:

Length (Å) Angle (°)
a = 79.14 α = 90.00
b = 79.14 β = 90.00
c = 38.00 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2016-01-15
  • Released Date: 2016-03-02
  • Deposition author(s): Helliwell, J.R.

Revision History

  • 2016-04-06
    Type: Database references
  • 2016-07-27
    Type: Database references
  • 2017-09-13
    Type: Author supporting evidence, Data collection