7Z6G | pdb_00007z6g

X-ray structure of the adduct obtained upon reaction of [Rh2(OCOCH3)(OCOCF3)3] with RNase A (2)

• PDB DOI: https://doi.org/10.2210/pdb7Z6G/pdb

• Classification: HYDROLASE
• Organism(s): Bos taurus
• Mutation(s): No 


• Deposited: 2022-03-11 Released: 2023-03-22 
• Deposition Author(s): Loreto, D., Merlino, A.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.71 Å
• R-Value Free: 
  0.236 (Depositor), 0.240 (DCC) 
• R-Value Work: 
  0.183 (Depositor), 0.190 (DCC) 

Starting Model: experimental

Literature

Reactivity of a fluorine-containing dirhodium tetracarboxylate compound with proteins

Loreto, D., Esposito, A., Demitri, N., Guaragna, A., Merlino, A.

(2022) Dalton Trans 51

• DOI: https://doi.org/10.1039/D2DT00082B

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 28.2 kDa 
• Atom Count: 2,207 
• Modeled Residue Count: 248 
• Deposited Residue Count: 248 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Ribonuclease pancreatic	A, B	124	Bos taurus	Mutation(s): 0  EC: 4.6.1.18
UniProt
Find proteins for P61823 (Bos taurus) Explore P61823  Go to UniProtKB:  P61823

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
F3I (Subject of Investigation/LOI)	C [auth A]	(mi2-acetato-O, O')-hexaaquo-dirhodium (II) C2 H10 O8 Rh2 VGUGBQHQEXDINJ-UHFFFAOYSA-H
RH (Subject of Investigation/LOI)	D [auth A], E [auth A], F [auth B], G [auth B]	Rhodium Rh OBDSITLACDGNMC-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.71 Å
• R-Value Free:  0.236 (Depositor), 0.240 (DCC) 
• R-Value Work:  0.183 (Depositor), 0.190 (DCC) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 100.57	α = 90
b = 32.57	β = 90.461
c = 72.51	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
autoPROC	data reduction
autoPROC	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-03-22 
Deposition Author(s): Loreto, D., Merlino, A.

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Funding Organization	Location	Grant Number
Not funded	Italy	--

Revision History  

• Version 1.0: 2023-03-22
  Type: Initial release
  
• Version 1.1: 2023-10-04
  Changes: Data collection, Database references
• Version 1.2: 2024-02-07
  Changes: Refinement description
• Version 1.3: 2024-10-16
  Changes: Structure summary