Macromolecule Content

Total Structure Weight: 64.29 kDa
Atom Count: 4,533
Modelled Residue Count: 498
Deposited Residue Count: 512
Unique protein chains: 1
Unique nucleic acid chains: 1

1EO3

INHIBITION OF ECORV ENDONUCLEASE BY DEOXYRIBO-3'-S-PHOSPHOROTHIOLATES: A HIGH RESOLUTION X-RAY CRYSTALLOGRAPHIC STUDY

PDB DOI: 10.2210/pdb1EO3/pdb
NDB: PD0129

Classification: hydrolase/DNA
Organism(s): Escherichia coli
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2000-03-21 Released: 2000-04-04
Deposition Author(s): Horton, N.C., Connolly, B.A., Perona, J.J.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free: 0.290
R-Value Work: 0.196
R-Value Observed: 0.200

wwPDB Validation 3D Report Full Report

This is version 1.3 of the entry. See complete history.

Literature

Inhibition of EcoRV Endonuclease by Deoxyribo-3'-S-phosphorothiolates: A High-Resolution X-ray Crystallographic Study

Horton, N.C., Connolly, B.A., Perona, J.J.

(2000) J Am Chem Soc 122: 3314-3324

DOI: 10.1021/ja993719j

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
TYPE II RESTRICTION ENZYME ECORV	C [auth A], D [auth B]	245	Escherichia coli	Mutation(s): 0 Gene Names: ecoRVR EC: 3.1.21.4
UniProt
Find proteins for P04390 (Escherichia coli) Explore P04390 Go to UniProtKB: P04390
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P04390
Protein Feature View Expand
Reference Sequence

Find similar nucleic acids by: Sequence | 3D Structure

Entity ID: 1
Molecule	Chains	Length	Organism	Image
DNA (5'-D(CPAPAPGPAP(TSP)PAPTPCPTP*T)-3')	A [auth C], B [auth D]	11	N/A
Protein Feature View Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
ACY Query on ACY Download Ideal Coordinates CCD File SDF format, chain G [auth A] SDF format, chain J [auth B] MOL2 format, chain G [auth A] MOL2 format, chain J [auth B]	G [auth A], J [auth B]	ACETIC ACID C₂ H₄ O₂ QTBSBXVTEAMEQO-UHFFFAOYSA-N		Ligand Interaction
MG Query on MG Download Ideal Coordinates CCD File SDF format, chain E [auth A] SDF format, chain F [auth A] SDF format, chain H [auth B] SDF format, chain I [auth B] MOL2 format, chain E [auth A] MOL2 format, chain F [auth A] MOL2 format, chain H [auth B] MOL2 format, chain I [auth B]	E [auth A], F [auth A], H [auth B], I [auth B]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Ligand Interaction

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free: 0.290
R-Value Work: 0.196
R-Value Observed: 0.200
Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 48	α = 97
b = 48.5	β = 108.9
c = 63.8	γ = 106.3

Software Package:

Software Name	Purpose
MOSFLM	data reduction
TRUNCATE	data reduction
X-PLOR	model building
X-PLOR	refinement
CCP4	data scaling
X-PLOR	phasing

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2000-04-04

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2000-04-04
Type: Initial release
Version 1.1: 2008-04-27
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Version format compliance
Version 1.3: 2019-07-31
Changes: Data collection, Derived calculations

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