3UY9

Bovine trypsin variant X(tripleGlu217Phe227) in complex with small molecule inhibitor

Structural Biology Knowledgebase: 3UY9 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.22 Å
  • R-Value Free: 0.261
  • R-Value Work: 0.205

Literature

Macromolecules
Sequence Display for 3UY9

Classification: HYDROLASE / HYDROLASE INHIBITOR

Total Structure Weight: 378359.47

Macromolecule Entities
Molecule Chains Length Organism Details
Cationic trypsin A, B, C..., D, E, F, G, H, I, J, K, L, M, N, O, PA, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P 223 Bos taurus EC#: 3.4.21.4 IUBMB
Mutation: N97E, L99Y, Y172S, P173S, G174F, Q175I, A183V, S190A, S217E, V227F
Gene Name(s):
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Membrane Protein

Source: inferred by homology | Group: BETA-BARREL

Subgroup Name: Omp85-TpsB Outer Membrane Transporter Superfamily

Protein Name: BamABCDE complex of the Bam β-barrel assembly machine


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

A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P BENZAMIDINE
C7 H8 N2
PXXJHWLDUBFPOL-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CL
Query on CL

E, H, P CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
BEN Ki: 31 - 39000 nM (95) BindingDB

N/A in BindingMoad
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.22 Å
  • R-Value Free: 0.261
  • R-Value Work: 0.205
  • Space Group: P 1

Unit Cell:

Length (Å) Angle (°)
a = 88.07 α = 89.62
b = 98.57 β = 88.85
c = 120.78 γ = 103.99

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2011-12-06
  • Released Date: 2012-12-12
  • Deposition author(s): Tziridis, A., Neumann, P., Kolenko, P., Stubbs, M.T.

Revision History

  • 2014-07-16
    Type: Citation | Details: Citation update