1CL8 | pdb_00001cl8

A PRE-TRANSITION STATE ECO RI ENDONUCLEASE/COGNATE DNA (TCGCGAPTTCGCG) COMPLEX WITH DNA BASE ANALOG PURINE (P)

• PDB DOI: https://doi.org/10.2210/pdb1CL8/pdb
• NAKB: 1CL8

• Classification: PROTEIN/DNA
• Organism(s): Escherichia coli
• Mutation(s): No 


• Deposited: 1999-05-06 Released: 1999-05-19 
• Deposition Author(s): Horvath, M., Rosenberg, J.M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 
  0.287 (Depositor) 
• R-Value Work: 
  0.243 (Depositor) 
• R-Value Observed: 
  0.243 (Depositor) 

Starting Model: experimental

Literature

Iap (Inner-Adenine to Purine): A Cognate EcoRI-DNA Base Analog Complex

Horvath, M., Rosenberg, J.M.

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: 34.92 kDa 
• Atom Count: 2,471 
• Modeled Residue Count: 274 
• Deposited Residue Count: 289 
• Unique protein chains: 1
• Unique nucleic acid chains: 1

Macromolecules

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
PROTEIN (ENDONUCLEASE)	B [auth A]	276	Escherichia coli	Mutation(s): 0  EC: 3.1.21.4
UniProt
Find proteins for P00642 (Escherichia coli) Explore P00642  Go to UniProtKB:  P00642

Entity ID: 1
Molecule	Chains	Length	Organism	Image
DNA (5'-D(*TP*CP*GP*CP*GP*AP*(PRN)P*TP*TP*CP*GP*CP*G)-3')	A [auth B]	13	N/A

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free:  0.287 (Depositor) 
• R-Value Work:  0.243 (Depositor) 
• R-Value Observed: 0.243 (Depositor) 

Space Group: P 3 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 117.833	α = 90
b = 117.833	β = 90
c = 48.989	γ = 120

Software Package:

Software Name	Purpose
X-PLOR	model building
X-PLOR	refinement
DENZO	data reduction
SCALEPACK	data scaling
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 1999-05-19 
Deposition Author(s): Horvath, M., Rosenberg, J.M.

Revision History  

• Version 1.0: 1999-05-19
  Type: Initial release
  
• Version 1.1: 2007-10-16
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2023-08-09
  Changes: Data collection, Database references, Derived calculations, Refinement description