1RTK

Crystal Structure Analysis of the Bb segment of Factor B complexed with 4-guanidinobenzoic acid

Structural Biology Knowledgebase: 1RTK SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.245
  • R-Value Work: 0.208

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1RTK

Classification: HORMONE / GROWTH FACTOR

Total Structure Weight: 56865.02

Macromolecule Entities
Molecule Chains Length Organism Details
Complement factor B A 497 Homo sapiens EC#: 3.4.21.47 IUBMB
Fragment: COMPLEMENT FACTOR B BB FRAGMENT
Mutation: C267V, F428C, N435C
Gene Name(s): CFB Gene View BF BFD

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
GBS
Query on GBS

A 4-GUANIDINOBENZOIC ACID
C8 H9 N3 O2
SXTSBZBQQRIYCU-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
IOD
Query on IOD

A IODIDE ION
I
XMBWDFGMSWQBCA-UHFFFAOYSA-M
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NA
Query on NA

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

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.245
  • R-Value Work: 0.208
  • Space Group: P 61
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 98.36 α = 90.00
b = 98.36 β = 90.00
c = 125.66 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-12-10
  • Released Date: 2004-12-14
  • Deposition author(s): Ponnuraj, K., Xu, Y., Macon, K., Moore, D., Volanakis, J.E., Narayana, S.V.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4