3L86 | pdb_00003l86

The Crystal Structure of smu.665 from Streptococcus mutans UA159

• PDB DOI: https://doi.org/10.2210/pdb3L86/pdb

• Classification: TRANSFERASE
• Organism(s): Streptococcus mutans UA159
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2009-12-30 Released: 2011-01-05 
• Deposition Author(s): Su, X.-D., Liu, X., Wu, C.W.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.06 Å
• R-Value Free: 
  0.267 (Depositor), 0.250 (DCC) 
• R-Value Work: 
  0.213 (Depositor), 0.210 (DCC) 
• R-Value Observed: 
  0.216 (Depositor) 

Starting Model: experimental

Literature

The Crystal Structure of smu.665 from Streptococcus mutans UA159

Su, X.-D., Liu, X., Wu, C.W.

To be published.

Biological Assembly 1  

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

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

Macromolecule Content 

• Total Structure Weight: 30.54 kDa 
• Atom Count: 1,919 
• Modeled Residue Count: 245 
• Deposited Residue Count: 279 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Acetylglutamate kinase	A	279	Streptococcus mutans UA159	Mutation(s): 0  Gene Names: smu.665 EC: 2.7.2.8
UniProt
Find proteins for Q8DV44 (Streptococcus mutans serotype c (strain ATCC 700610 / UA159)) Explore Q8DV44  Go to UniProtKB:  Q8DV44

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ADP	B [auth A]	ADENOSINE-5'-DIPHOSPHATE C10 H15 N5 O10 P2 XTWYTFMLZFPYCI-KQYNXXCUSA-N
NLG	C [auth A]	N-ACETYL-L-GLUTAMATE C7 H11 N O5 RFMMMVDNIPUKGG-YFKPBYRVSA-N
MG	D [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.06 Å
• R-Value Free:  0.267 (Depositor), 0.250 (DCC) 
• R-Value Work:  0.213 (Depositor), 0.210 (DCC) 
• R-Value Observed: 0.216 (Depositor) 

Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 57.19	α = 90
b = 94.76	β = 90
c = 47.58	γ = 90

Software Package:

Software Name	Purpose
MAR345dtb	data collection
MOLREP	phasing
REFMAC	refinement
XDS	data reduction
XDS	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-01-05 
Deposition Author(s): Su, X.-D., Liu, X., Wu, C.W.

Revision History  

• Version 1.0: 2011-01-05
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2023-11-01
  Changes: Data collection, Database references, Derived calculations, Refinement description