2BY6

Is radiation damage dependent on the dose-rate used during macromolecular crystallography data collection


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.3 Å
  • R-Value Free: 0.139
  • R-Value Work: 0.105

Literature

Macromolecules
Sequence Display for 2BY6

Classification: HYDROLASE

Total Structure Weight: 25890.18

Macromolecule Entities
Molecule Chains Length Organism Details
CATIONIC TRYPSIN X 243 Bos taurus EC#: 3.4.21.4 IUBMB
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 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
BAM
Query on BAM

X BENZAMIDINE
C7 H9 N2
PXXJHWLDUBFPOL-UHFFFAOYSA-O
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

X SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

X GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

X CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
BAM Ki: 4800 - 39000 nM (100) BindingDB
ΔG: -26.9 - -26.6 kJ/mol (100) BindingDB
ΔH: -23.7 - -17 kJ/mol (100) BindingDB
-TΔS: -9.9 - -3 kJ/mol (100) BindingDB

N/A in BindingMoad
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.3 Å
  • R-Value Free: 0.139
  • R-Value Work: 0.105
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 54.26 α = 90.00
b = 58.35 β = 90.00
c = 66.76 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2005-07-29
  • Released Date: 2006-02-06
  • Deposition author(s): Leiros, H.-K.S., Timmins, J., Ravelli, R.B.G., McSweeney, S.M.

Revision History

  • Version 1_0: 2006-02-06

    Type: Initial release

  • Version 1_1: 2011-05-08

    Type: Version format compliance

  • Version 1_2: 2011-07-13

    Type: Version format compliance