3TC5

Selective targeting of disease-relevant protein binding domains by O-phosphorylated natural product derivatives

Structural Biology Knowledgebase: 3TC5 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.4 Å
  • R-Value Free: 0.211
  • R-Value Work: 0.175

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3TC5

Classification: ISOMERASE / ISOMERASE INHIBITOR

Total Structure Weight: 19222.38

Macromolecule Entities
Molecule Chains Length Organism Details
Peptidyl-prolyl cis-trans isomerase NIMA-interacting 1 A 166 Homo sapiens EC#: 5.2.1.8 IUBMB
Fragment: Peptidyl-prolyl cis-trans isomerase NIMA-interacting 1
Mutation: R14A
Gene Name(s): PIN1 Gene View

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
3T5
Query on 3T5

A (11alpha,16alpha)-9-fluoro-11,17-dihydroxy- 16-methyl-3,20-dioxopregna-1,4-dien-21-yl dihydrogen phosphate
Dexamethasone 21-phosphate (Synonym)
C22 H30 F O8 P
VQODGRNSFPNSQE-CXSFZGCWSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
P6G
Query on P6G

A HEXAETHYLENE GLYCOL
POLYETHYLENE GLYCOL PEG400 (Synonym)
C12 H26 O7
IIRDTKBZINWQAW-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
3T5 N/A in BindingDB
N/A in BindingMoad
Kd: 6800 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.4 Å
  • R-Value Free: 0.211
  • R-Value Work: 0.175
  • Space Group: P 31 2 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 68.36 α = 90.00
b = 68.36 β = 90.00
c = 79.37 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2011-08-08
  • Released Date: 2011-08-31
  • Deposition author(s): Graeber, M., Janczyk, W., Sperl, B., Elumalai, N., Kozany, C., Hausch, F., Holak, T.A., Berg, T.

Revision History

  • 2011-11-02
    Type: Citation | Details: Citation update