1CF8 | pdb_00001cf8

Convergence of catalytic antibody and terpene cyclase mechanisms: polyene cyclization directed by carbocation-pi interactions

• PDB DOI: https://doi.org/10.2210/pdb1CF8/pdb

• Classification: CATALYTIC ANTIBODY
• Organism(s): Mus musculus
• Mutation(s): No 


• Deposited: 1999-03-24 Released: 1999-07-28 
• Deposition Author(s): Paschall, C.M., Hasserodt, J., Jones, T., Lerner, R.A., Janda, K.D., Christianson, D.W.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.70 Å
• R-Value Free: 
  0.257 (Depositor) 
• R-Value Work: 
  0.165 (Depositor) 

Starting Model: experimental

Literature

Convergence of Catalytic Antibody and Terpene Cyclase Mechanisms: Polyene Cyclization Directed by Carbocation-pi Interactions

Paschall, C.M., Hasserodt, J., Jones, T., Lerner, R.A., Janda, K.D., Christianson, D.W.

(1999) Angew Chem Int Ed Engl 38: 1743-1747

• DOI: https://doi.org/10.1002/(SICI)1521-3773(19990614)38:12<1743::AID-ANIE1743>3.0.CO;2-3

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly 2  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Hetero 4-mer - A2B2 

Biological assembly 2 generated by PQS (software)

Macromolecule Content 

• Total Structure Weight: 47.67 kDa 
• Atom Count: 3,348 
• Modeled Residue Count: 433 
• Deposited Residue Count: 433 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PROTEIN (CATALYTIC ANTIBODY 19A4 (LIGHT CHAIN))	A [auth L]	215	Mus musculus	Mutation(s): 0
UniProt
Find proteins for P01837 (Mus musculus) Explore P01837  Go to UniProtKB:  P01837

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
PROTEIN (CATALYTIC ANTIBODY 19A4 (HEAVY CHAIN))	B [auth H]	218	Mus musculus	Mutation(s): 0
UniProt
Find proteins for P01867 (Mus musculus) Explore P01867  Go to UniProtKB:  P01867

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
HAZ	E [auth H]	4-{4-[2-(1A,7A-DIMETHYL-4-OXY-OCTAHYDRO-1-OXA-4-AZA-CYCLOPROPA[A]NAPHTHALEN-4-YL) -ACETYLAMINO]-PHENYLCARBAMOYL}-BUTYRIC ACID C24 H33 N3 O6 VFIZFTGABDUGCF-UPVHCHBVSA-N
CD	C [auth L], D [auth H]	CADMIUM ION Cd WLZRMCYVCSSEQC-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.70 Å
• R-Value Free:  0.257 (Depositor) 
• R-Value Work:  0.165 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 101.3	α = 90
b = 70.3	β = 114.2
c = 69.6	γ = 90

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 1999-07-28 
Deposition Author(s): Paschall, C.M., Hasserodt, J., Jones, T., Lerner, R.A., Janda, K.D., Christianson, D.W.

Revision History  

• Version 1.0: 1999-07-28
  Type: Initial release
  
• Version 1.1: 2007-10-16
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Derived calculations, Version format compliance
• Version 1.3: 2023-08-09
  Changes: Data collection, Database references, Derived calculations, Refinement description
• Version 1.4: 2024-10-30
  Changes: Structure summary