6DM3

Crystal structure of the SH2 domain from RavO (Lpg1129) from Legionella pneumophila, apoprotein

• PDB DOI: https://doi.org/10.2210/pdb6DM3/pdb

• Classification: PROTEIN BINDING
• Organism(s): Legionella pneumophila subsp. pneumophila str. Philadelphia 1
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2018-06-04 Released: 2018-06-27 
• Deposition Author(s): Stogios, P.J., Evdokimova, E., Di Leo, R., Kaneko, T., Li, S., Savchenko, A., Midwest Center for Structural Genomics (MCSG)
• Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free: 0.318 
• R-Value Work: 0.261 
• R-Value Observed: 0.264 

Literature

Crystal structure of the SH2 domain from RavO (Lpg1129) from Legionella pneumophila, apoprotein

Kaneko, T.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 27.53 kDa 
• Atom Count: 1,821 
• Modelled Residue Count: 216 
• Deposited Residue Count: 240 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
RavO	A, B	120	Legionella pneumophila subsp. pneumophila str. Philadelphia 1	Mutation(s): 0  Gene Names: lpg1129
UniProt
Find proteins for Q5ZWF6 (Legionella pneumophila subsp. pneumophila (strain Philadelphia 1 / ATCC 33152 / DSM 7513)) Explore Q5ZWF6  Go to UniProtKB:  Q5ZWF6

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free: 0.318 
• R-Value Work: 0.261 
• R-Value Observed: 0.264 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 50.037	α = 90
b = 72.981	β = 109.89
c = 71.961	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-3000	data reduction
HKL-3000	data scaling
PHENIX	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2018-06-27 
Deposition Author(s): Stogios, P.J., Evdokimova, E., Di Leo, R., Kaneko, T., Li, S., Savchenko, A., Midwest Center for Structural Genomics (MCSG)

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	GM074942
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	GM094585

Revision History  

• Version 1.0: 2018-06-27
  Type: Initial release
  
• Version 1.1: 2020-01-01
  Changes: Author supporting evidence
• Version 1.2: 2024-03-13
  Changes: Data collection, Database references