4TMD | pdb_00004tmd

X-ray structure of Putative uncharacterized protein (Rv0999 ortholog) from Mycobacterium smegmatis

• PDB DOI: https://doi.org/10.2210/pdb4TMD/pdb

• Classification: UNKNOWN FUNCTION
• Organism(s): Mycolicibacterium smegmatis MC2 155
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2014-06-01 Released: 2014-07-02 
• Deposition Author(s): Horanyi, P.S., Dranow, D.M., Abendroth, J., Lorimer, D., Edwards, T., Seattle Structural Genomics Center for Infectious Disease (SSGCID)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 
  0.216 (Depositor), 0.228 (DCC) 
• R-Value Work: 
  0.188 (Depositor) 
• R-Value Observed: 
  0.189 (Depositor) 

Literature

X-ray structure of Putative uncharacterized protein (Rv0999 ortholog) from Mycobacterium smegmatis

Horanyi, P.S., Dranow, D.M., Abendroth, J., Lorimer, D., Edwards, T.

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: 21.59 kDa 
• Atom Count: 1,553 
• Modeled Residue Count: 190 
• Deposited Residue Count: 195 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Uncharacterized protein	A	195	Mycolicibacterium smegmatis MC2 155	Mutation(s): 0  Gene Names: MSMEG_5452
UniProt
Find proteins for A0R3F3 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155)) Explore A0R3F3  Go to UniProtKB:  A0R3F3

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
IOD	B [auth A], C [auth A], D [auth A], E [auth A], F [auth A], G [auth A]	IODIDE ION I XMBWDFGMSWQBCA-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free:  0.216 (Depositor), 0.228 (DCC) 
• R-Value Work:  0.188 (Depositor) 
• R-Value Observed: 0.189 (Depositor) 

Diffraction Data: https://doi.org/10.18430/M34TMD

Space Group: P 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 32.98	α = 90
b = 37.83	β = 90
c = 151.63	γ = 90

Software Package:

Software Name	Purpose
XDS	data reduction
SHELX	phasing
PDB_EXTRACT	data extraction
Coot	model building
PHENIX	refinement
SHELXD	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2014-07-02 
Deposition Author(s): Horanyi, P.S., Dranow, D.M., Abendroth, J., Lorimer, D., Edwards, T., Seattle Structural Genomics Center for Infectious Disease (SSGCID)

Revision History  

• Version 1.0: 2014-07-02
  Type: Initial release
  
• Version 1.1: 2015-02-04
  Changes: Derived calculations
• Version 1.2: 2017-11-22
  Changes: Database references, Derived calculations, Other, Refinement description, Source and taxonomy
• Version 1.3: 2023-12-27
  Changes: Data collection, Database references, Refinement description
• Version 1.4: 2024-11-20
  Changes: Structure summary