4EKP

T4 Lysozyme L99A/M102H with Nitrobenzene Bound

Structural Biology Knowledgebase: 4EKP SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.64 Å
  • R-Value Free: 0.196
  • R-Value Work: 0.169

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4EKP

Classification: HYDROLASE

Total Structure Weight: 44179.57

Macromolecule Entities
Molecule Chains Length Organism Details
Lysozyme A, B 187 Enterobacteria phage t4 sensu lato EC#: 3.2.1.17 IUBMB
Mutation: T21C, S38D, L99A, M102H, E108V, S117V, T142C, N144D
Gene Name(s): E

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

B 2-HYDROXYETHYL DISULFIDE
C4 H10 O2 S2
KYNFOMQIXZUKRK-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NBZ
Query on NBZ

A, B NITROBENZENE
C6 H5 N O2
LQNUZADURLCDLV-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A, B SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
BME
Query on BME

A, B BETA-MERCAPTOETHANOL
C2 H6 O S
DGVVWUTYPXICAM-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ACT
Query on ACT

A, B ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.64 Å
  • R-Value Free: 0.196
  • R-Value Work: 0.169
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 48.37 α = 90.00
b = 75.53 β = 93.22
c = 52.72 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-04-09
  • Released Date: 2012-09-05
  • Deposition author(s): Merski, M., Shoichet, B.K.

Revision History

  • 2012-10-17
    Type: Citation | Details: Citation update
  • 2012-10-03
    Type: Citation | Details: Citation update