1RFE | pdb_00001rfe

Crystal structure of conserved hypothetical protein Rv2991 from Mycobacterium tuberculosis

• PDB DOI: https://doi.org/10.2210/pdb1RFE/pdb

• Classification: STRUCTURAL GENOMICS, UNKNOWN FUNCTION
• Organism(s): Mycobacterium tuberculosis H37Rv
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2003-11-08 Released: 2004-12-28 
• Deposition Author(s): Benini, S., Haouz, A., Proux, F., Betton, J.M., Alzari, P., Dodson, G.G., Wilson, K.S., TB Structural Genomics Consortium (TBSGC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 
  0.281 (Depositor), 0.288 (DCC) 
• R-Value Work: 
  0.202 (Depositor), 0.206 (DCC) 
• R-Value Observed: 
  0.206 (Depositor) 

Literature

The crystal structure of Rv2991 from Mycobacterium tuberculosis: An F420binding protein with unknown function.

Benini, S., Haouz, A., Proux, F., Alzari, P., Wilson, K.

(2019) J Struct Biol 

• PubMed: 30890426 
• DOI: https://doi.org/10.1016/j.jsb.2019.03.006
• Primary Citation Related Structures: 
  1RFE


• PubMed Abstract: 
  

  The crystal structure of the conserved hypothetical protein Rv2991 from Mycobacterium tuberculosis has been solved by SAD using seleno-methionine substituted protein. The dimeric biological assembly and the sequence and fold conservation are typical of F ₄₂₀ cofactor binding enzymes. Despite Rv2991 still being of unknown function, sequence and structural comparison with similar proteins enable a role to be proposed for its C-terminal stretch of residues in recognizing and orienting the substrate. In addition, the C-terminus is involved in both protein folding and determining the size of the active site cavity.

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Organizational Affiliation: 
• Bioorganic Chemistry and Bio-Crystallography Laboratory (B(2)Cl), Faculty of Science and Technology, Free University of Bolzano, Piazza Università 5, Bolzano 39100, Italy. Electronic address: [e-mail].
C2RT-Plateforme de cristallographie, Institut Pasteur, CNRS UMR 3528, 75724 Paris Cedex 15, France.
Unité de Microbiologie Structurale, Institut Pasteur, CNRS UMR 3528, Université Paris Diderot, Sorbonne Paris Cité, 75724 Paris Cedex 15, France.
York Structural Biology Laboratory, Department of Chemistry, University of York, Heslington, York YO10 5DD, UK.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 18.39 kDa 
• Atom Count: 1,379 
• Modeled Residue Count: 160 
• Deposited Residue Count: 162 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
hypothetical protein Rv2991	A	162	Mycobacterium tuberculosis H37Rv	Mutation(s): 7
UniProt
Find proteins for O53240 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)) Explore O53240  Go to UniProtKB:  O53240

Small Molecules

Modified Residues  2 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
CSX	A	L-PEPTIDE LINKING	C3 H7 N O3 S		CYS
MSE	A	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free:  0.281 (Depositor), 0.288 (DCC) 
• R-Value Work:  0.202 (Depositor), 0.206 (DCC) 
• R-Value Observed: 0.206 (Depositor) 

Space Group: P 4₃ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 49.309	α = 90
b = 49.309	β = 90
c = 132.588	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
DENZO	data reduction
SCALEPACK	data scaling
SHELXD	phasing
SHARP	phasing
ARP/wARP	model building

Structure Validation

Entry History 

Deposition Data

• Released Date: 2004-12-28 
Deposition Author(s): Benini, S., Haouz, A., Proux, F., Betton, J.M., Alzari, P., Dodson, G.G., Wilson, K.S., TB Structural Genomics Consortium (TBSGC)

Revision History  

• Version 1.0: 2004-12-28
  Type: Initial release
  
• Version 1.1: 2008-04-29
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Source and taxonomy, Version format compliance
• Version 1.3: 2019-04-17
  Changes: Data collection, Database references, Derived calculations
• Version 1.4: 2025-03-26
  Changes: Data collection, Database references, Structure summary