4BF4

PikC D50N mutant in complex with the engineered cycloalkane substrate mimic bearing a termianl N,N-dimethylamino group


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.70 Å
  • R-Value Free: 0.279 
  • R-Value Work: 0.196 
  • R-Value Observed: 0.200 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.1 of the entry. See complete history


Literature

Recognition of Synthetic Substrates by P450 Pikc

Podust, L.M.

To be published.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
CYTOCHROME P450 HYDROXYLASE PIKC
A, B, C, D, E
A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P
436Streptomyces venezuelaeMutation(s): 1 
UniProt
Find proteins for O87605 (Streptomyces venezuelae)
Explore O87605 
Go to UniProtKB:  O87605
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO87605
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
HEM
Query on HEM

Download Ideal Coordinates CCD File 
AA [auth F]
CA [auth G]
EA [auth H]
HA [auth I]
KA [auth J]
AA [auth F],
CA [auth G],
EA [auth H],
HA [auth I],
KA [auth J],
MA [auth K],
NA [auth L],
OA [auth M],
PA [auth N],
Q [auth A],
QA [auth O],
S [auth B],
TA [auth P],
V [auth C],
X [auth D],
Z [auth E]
PROTOPORPHYRIN IX CONTAINING FE
C34 H32 Fe N4 O4
KABFMIBPWCXCRK-RGGAHWMASA-L
17Q
Query on 17Q

Download Ideal Coordinates CCD File 
DA [auth G],
W [auth C]
1.7.6 5-cyclododecyloxy-N,N-dimethyl-pentan-1-amine
C19 H39 N O
IWMFMRACOCTPPO-UHFFFAOYSA-N
SO4
Query on SO4

Download Ideal Coordinates CCD File 
BA [auth F]
FA [auth H]
GA [auth H]
IA [auth I]
JA [auth I]
BA [auth F],
FA [auth H],
GA [auth H],
IA [auth I],
JA [auth I],
LA [auth J],
R [auth A],
RA [auth O],
SA [auth O],
T [auth B],
U [auth B],
Y [auth D]
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.70 Å
  • R-Value Free: 0.279 
  • R-Value Work: 0.196 
  • R-Value Observed: 0.200 
  • Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 110.273α = 66.48
b = 130.113β = 70.25
c = 134.898γ = 72.23
Software Package:
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling
MOLREPphasing

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 


Entry History 

Deposition Data

  • Released Date: 2014-03-26 
  • Deposition Author(s): Podust, L.M.

Revision History  (Full details and data files)

  • Version 1.0: 2014-03-26
    Type: Initial release
  • Version 1.1: 2023-12-20
    Changes: Data collection, Database references, Derived calculations, Other, Refinement description