8QCC

E.coli IspE in complex with a ligand (1)

• PDB DOI: https://doi.org/10.2210/pdb8QCC/pdb

• Classification: TRANSFERASE
• Organism(s): Escherichia coli
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2023-08-25 Released: 2024-09-11 
• Deposition Author(s): Hamid, R.
• Funding Organization(s): Helmholtz Association

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 0.235 
• R-Value Work: 0.194 
• R-Value Observed: 0.196 

Starting Model: experimental

Literature

E.coli IspE in complex with a ligand (1)

Hamid, R.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: mass spectrometry

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors.

Macromolecule Content

• Total Structure Weight: 63.59 kDa 
• Atom Count: 4,605 
• Modelled Residue Count: 561 
• Deposited Residue Count: 566 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
4-diphosphocytidyl-2-C-methyl-D-erythritol kinase	A, B	283	Escherichia coli	Mutation(s): 0  Gene Names: ispE
UniProt
Find proteins for B7LXC3 (Escherichia coli O8 (strain IAI1)) Explore B7LXC3  Go to UniProtKB:  B7LXC3

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ADP (Subject of Investigation/LOI)	C [auth A], G [auth B]	ADENOSINE-5'-DIPHOSPHATE C10 H15 N5 O10 P2 XTWYTFMLZFPYCI-KQYNXXCUSA-N
UKO (Subject of Investigation/LOI)	D [auth A], H [auth B]	~{N}-[3-[4-azanyl-2-oxidanylidene-1-[(2~{R})-thiolan-2-yl]pyrimidin-5-yl]prop-2-ynyl]cyclopropanesulfonamide C14 H18 N4 O3 S2 DXQFIQXYAWBCLC-GFCCVEGCSA-N
MG	E [auth A], F [auth A], I [auth B], J [auth B], K [auth B]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 0.235 
• R-Value Work: 0.194 
• R-Value Observed: 0.196 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 142.57	α = 90
b = 52.793	β = 126.69
c = 90.253	γ = 90

Software Package:

Software Name	Purpose
PHENIX	phasing
PHENIX	refinement
PHENIX	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-09-11 
Deposition Author(s): Hamid, R.

---

Funding Organization	Location	Grant Number
Helmholtz Association	Germany	--

Revision History  

• Version 1.0: 2024-09-11
  Type: Initial release