3MUZ

E.Coli (lacZ) beta-galactosidase (R599A) in complex with IPTG

• PDB DOI: https://doi.org/10.2210/pdb3MUZ/pdb

• Classification: HYDROLASE
• Organism(s): Escherichia coli K-12
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2010-05-03 Released: 2011-03-16 
• Deposition Author(s): Dugdale, M.L., Vance, M.L., Driedger, M.R., Nibber, A., Tran, A., Huber, R.E.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 0.248 
• R-Value Work: 0.219 

Biological Assembly 1  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 492.96 kDa 
• Atom Count: 37,334 
• Modelled Residue Count: 4,044 
• Deposited Residue Count: 4,208 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Beta-galactosidase	A [auth 1], B [auth 2], C [auth 3], D [auth 4]	1,052	Escherichia coli K-12	Mutation(s): 0  Gene Names: lac z EC: 3.2.1.23
UniProt
Find proteins for P00722 (Escherichia coli (strain K12)) Explore P00722  Go to UniProtKB:  P00722

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
IPT	E [auth 1], F [auth 1], VA [auth 2], WA [auth 2], WE [auth 4], XC [auth 3], XE [auth 4], YC [auth 3]	1-methylethyl 1-thio-beta-D-galactopyranoside C9 H18 O5 S BPHPUYQFMNQIOC-NXRLNHOXSA-N
DMS	AA [auth 1], AC [auth 2], AE [auth 3], AG [auth 4], BA [auth 1], BC [auth 2], BE [auth 3], BG [auth 4], CA [auth 1], CC [auth 2], CE [auth 3], CG [auth 4], DA [auth 1], DC [auth 2], DE [auth 3], DG [auth 4], EA [auth 1], EC [auth 2], EE [auth 3], EG [auth 4], FA [auth 1], FB [auth 2], FC [auth 2], FE [auth 3], FF [auth 4], FG [auth 4], GA [auth 1], GB [auth 2], GC [auth 2], GD [auth 3], GE [auth 3], GF [auth 4], GG [auth 4], HA [auth 1], HB [auth 2], HC [auth 2], HD [auth 3], HE [auth 3], HF [auth 4], HG [auth 4], IA [auth 1], IB [auth 2], IC [auth 2], ID [auth 3], IE [auth 3], IF [auth 4], IG [auth 4], JA [auth 1], JB [auth 2], JC [auth 2], JD [auth 3], JE [auth 3], JF [auth 4], JG [auth 4], KA [auth 1], KB [auth 2], KC [auth 2], KD [auth 3], KE [auth 3], KF [auth 4], LA [auth 1], LB [auth 2], LC [auth 2], LD [auth 3], LE [auth 3], LF [auth 4], MA [auth 1], MB [auth 2], MC [auth 2], MD [auth 3], ME [auth 3], MF [auth 4], NA [auth 1], NB [auth 2], NC [auth 2], ND [auth 3], NE [auth 3], NF [auth 4], O [auth 1], OA [auth 1], OB [auth 2], OC [auth 2], OD [auth 3], OE [auth 3], OF [auth 4], P [auth 1], PA [auth 1], PB [auth 2], PC [auth 2], PD [auth 3], PE [auth 3], PF [auth 4], Q [auth 1], QA [auth 1], QB [auth 2], QC [auth 2], QD [auth 3], QE [auth 3], QF [auth 4], R [auth 1], RA [auth 1], RB [auth 2], RC [auth 2], RD [auth 3], RE [auth 3], RF [auth 4], S [auth 1], SA [auth 1], SB [auth 2], SC [auth 2], SD [auth 3], SE [auth 3], SF [auth 4], T [auth 1], TA [auth 1], TB [auth 2], TC [auth 2], TD [auth 3], TE [auth 3], TF [auth 4], U [auth 1], UA [auth 1], UB [auth 2], UC [auth 2], UD [auth 3], UE [auth 3], UF [auth 4], V [auth 1], VB [auth 2], VC [auth 2], VD [auth 3], VE [auth 3], VF [auth 4], W [auth 1], WB [auth 2], WC [auth 3], WD [auth 3], WF [auth 4], X [auth 1], XB [auth 2], XD [auth 3], XF [auth 4], Y [auth 1], YB [auth 2], YD [auth 3], YF [auth 4], Z [auth 1], ZB [auth 2], ZD [auth 3], ZF [auth 4]	DIMETHYL SULFOXIDE C2 H6 O S IAZDPXIOMUYVGZ-UHFFFAOYSA-N
MG	AB [auth 2], AD [auth 3], AF [auth 4], BD [auth 3], G [auth 1], H [auth 1], I [auth 1], J [auth 1], XA [auth 2], YA [auth 2], YE [auth 4], ZA [auth 2], ZC [auth 3], ZE [auth 4]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N
NA	BB [auth 2], BF [auth 4], CB [auth 2], CD [auth 3], CF [auth 4], DB [auth 2], DD [auth 3], DF [auth 4], EB [auth 2], ED [auth 3], EF [auth 4], FD [auth 3], K [auth 1], L [auth 1], M [auth 1], N [auth 1]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
IPT	BindingDB:  3MUZ	Ki: 7.60e+4 (nM) from 1 assay(s)
	PDBBind:  3MUZ	Ki: 3.50e+5 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 0.248 
• R-Value Work: 0.219 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 151.83	α = 90
b = 163.28	β = 90
c = 204.2	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
ADSC	data collection
MOSFLM	data reduction
SCALA	data scaling
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-03-16 
Deposition Author(s): Dugdale, M.L., Vance, M.L., Driedger, M.R., Nibber, A., Tran, A., Huber, R.E.

Revision History  

• Version 1.0: 2011-03-16
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Data collection, Database references, Derived calculations, Structure summary
• Version 1.3: 2023-09-06
  Changes: Data collection, Database references, Refinement description, Structure summary