4ZY7 | pdb_00004zy7

Crystal structure of a Mycobacterial protein

• PDB DOI: https://doi.org/10.2210/pdb4ZY7/pdb

• Classification: UNKNOWN FUNCTION
• Organism(s): Mycolicibacterium smegmatis MC2 155
• Expression System: Mycolicibacterium smegmatis MC2 155
• Mutation(s): No 


• Deposited: 2015-05-21 Released: 2016-05-25 
• Deposition Author(s): Shahine, A., Rossjohn, J., Beddoe, T.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 
  0.209 (Depositor), 0.210 (DCC) 
• R-Value Work: 
  0.175 (Depositor), 0.180 (DCC) 
• R-Value Observed: 
  0.177 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of a Mycobacterial protein

Shahine, A., Rossjohn, J., Beddoe, T.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 31.18 kDa 
• Atom Count: 2,182 
• Modeled Residue Count: 247 
• Deposited Residue Count: 286 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Uncharacterized protein MSMEG_5817	A, B	143	Mycolicibacterium smegmatis MC2 155	Mutation(s): 0  Gene Names: MSMEG_5817, MSMEI_5660, LJ00_28765
UniProt
Find proteins for A0R4F7 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155)) Explore A0R4F7  Go to UniProtKB:  A0R4F7

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PEG	E [auth A], F [auth A], G [auth A], I [auth B]	DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N
EDO	C [auth A], D [auth A], H [auth B]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free:  0.209 (Depositor), 0.210 (DCC) 
• R-Value Work:  0.175 (Depositor), 0.180 (DCC) 
• R-Value Observed: 0.177 (Depositor) 

Space Group: P 2 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 42.61	α = 90
b = 70.49	β = 90
c = 100.37	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
SCALA	data scaling
iMOSFLM	data reduction
Coot	model building
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2016-05-25 
Deposition Author(s): Shahine, A., Rossjohn, J., Beddoe, T.

Revision History  

• Version 1.0: 2016-05-25
  Type: Initial release
  
• Version 1.1: 2017-11-01
  Changes: Author supporting evidence, Data collection, Derived calculations
• Version 1.2: 2023-09-27
  Changes: Data collection, Database references, Refinement description