1RSM | pdb_00001rsm

THE 2-ANGSTROMS RESOLUTION STRUCTURE OF A THERMOSTABLE RIBONUCLEASE A CHEMICALLY CROSS-LINKED BETWEEN LYSINE RESIDUES 7 AND 41

• PDB DOI: https://doi.org/10.2210/pdb1RSM/pdb

• Classification: HYDROLASE (NUCLEIC ACID,RNA)
• Organism(s): Bos taurus
• Mutation(s): No 


• Deposited: 1985-08-27 Released: 1986-01-21 
• Deposition Author(s): Weber, P.C., Sheriff, S., Ohlendorf, D.H., Finzel, B.C., Salemme, F.R.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Work: 
  0.184 (Depositor) 

Literature

The 2-A resolution structure of a thermostable ribonuclease A chemically cross-linked between lysine residues 7 and 41.

Weber, P.C., Sheriff, S., Ohlendorf, D.H., Finzel, B.C., Salemme, F.R.

(1985) Proc Natl Acad Sci U S A 82: 8473-8477

• PubMed: 3936036 
• DOI: https://doi.org/10.1073/pnas.82.24.8473
• Primary Citation Related Structures: 
  1RSM


• PubMed Abstract: 
  

  The crystal structure of Lys-7-(dinitrophenylene)-Lys-41-cross-linked ribonuclease A has been determined by molecular replacement and refined by restrained least-squares methods to an R factor of 0.18 at 2.0-A resolution. Diffraction intensity data were collected by using a conventional diffractometer and an x-ray area detector. Comparison of the thermostable cross-linked protein and the native enzyme shows them to be structurally similar, with a rms difference in backbone and side-chain atoms of 0.52 and 1.34 A, respectively. Native and modified proteins additionally show 35 common bound solvent sites and similar overall temperature factor behavior, despite localized differences resulting from cross-link introduction, altered crystal pH, or lattice interactions with neighboring molecules. These results are discussed in the context of proposals on the origins of thermostability in the cross-linked enzyme.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 13.88 kDa 
• Atom Count: 1,038 
• Modeled Residue Count: 124 
• Deposited Residue Count: 124 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
RIBONUCLEASE A	A	124	Bos taurus	Mutation(s): 0  EC: 3.1.27.5 (PDB Primary Data), 4.6.1.18 (UniProt)
UniProt
Find proteins for P61823 (Bos taurus) Explore P61823  Go to UniProtKB:  P61823

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NIN	B [auth A]	DINITROPHENYLENE C6 H4 N2 O4 WDCYWAQPCXBPJA-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Work:  0.184 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 37.05	α = 90
b = 41.26	β = 90
c = 75.64	γ = 90

Software Package:

Software Name	Purpose
PROLSQ	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 1986-01-21 
Deposition Author(s): Weber, P.C., Sheriff, S., Ohlendorf, D.H., Finzel, B.C., Salemme, F.R.

Revision History  

• Version 1.0: 1986-01-21
  Type: Initial release
  
• Version 1.1: 2008-03-24
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2024-06-05
  Changes: Data collection, Database references, Derived calculations, Other
• Version 1.4: 2024-11-06
  Changes: Structure summary