3BGK | pdb_00003bgk

The crystal structure of hypothetic protein SMU.573 from Streptococcus mutans

• PDB DOI: https://doi.org/10.2210/pdb3BGK/pdb

• Classification: UNKNOWN FUNCTION
• Organism(s): Streptococcus mutans
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2007-11-26 Released: 2008-12-16 
• Deposition Author(s): Liang, Y.H., Zhou, Y.F., Yang, C., Su, X.D.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 
  0.256 (Depositor), 0.246 (DCC) 
• R-Value Work: 
  0.208 (Depositor), 0.201 (DCC) 
• R-Value Observed: 
  0.210 (Depositor) 

Literature

The crystal structure of Streptococcus mutans protein SMU.573 solved from the anomalous signal measured with in-house chromium radiation

Liang, Y.H., Zhou, Y.F., Li, L.F., Su, X.D., Yang, C.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C4  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 34.23 kDa 
• Atom Count: 2,043 
• Modeled Residue Count: 276 
• Deposited Residue Count: 311 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative uncharacterized protein	A	311	Streptococcus mutans	Mutation(s): 0  Gene Names: SMU.573 EC: 4.2.1.136
UniProt
Find proteins for Q8DVC0 (Streptococcus mutans serotype c (strain ATCC 700610 / UA159)) Explore Q8DVC0  Go to UniProtKB:  Q8DVC0

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PO4	B [auth A]	PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K
K	C [auth A]	POTASSIUM ION K NPYPAHLBTDXSSS-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free:  0.256 (Depositor), 0.246 (DCC) 
• R-Value Work:  0.208 (Depositor), 0.201 (DCC) 
• R-Value Observed: 0.210 (Depositor) 

Space Group: I 4

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 96.527	α = 90
b = 96.527	β = 90
c = 56.26	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
SOLVE	phasing
DM	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
CrystalClear	data collection
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-12-16 
Deposition Author(s): Liang, Y.H., Zhou, Y.F., Yang, C., Su, X.D.

Revision History  

• Version 1.0: 2008-12-16
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2017-10-25
  Changes: Refinement description
• Version 1.3: 2024-11-20
  Changes: Data collection, Database references, Derived calculations, Structure summary