1UF7 | pdb_00001uf7

Crystal structure of C171A/V236A Mutant of N-carbamyl-D-amino acid amidohydrolase complexed with N-carbamyl-D-valine

• PDB DOI: https://doi.org/10.2210/pdb1UF7/pdb

• Classification: HYDROLASE
• Organism(s): Agrobacterium sp.
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2003-05-26 Released: 2004-06-08 
• Deposition Author(s): Hashimoto, H., Aoki, M., Shimizu, T., Nakai, T., Morikawa, H., Ikenaka, Y., Takahashi, S., Sato, M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 
  0.218 (Depositor), 0.210 (DCC) 
• R-Value Work: 
  0.180 (Depositor), 0.170 (DCC) 

Literature

Crystal structure of C171A/V236A Mutant of N-carbamyl-D-amino acid amidohydrolase

Hashimoto, H., Aoki, M., Shimizu, T., Nakai, T., Morikawa, H., Ikenaka, Y., Takahashi, S., Sato, M.

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 68.6 kDa 
• Atom Count: 5,522 
• Modeled Residue Count: 606 
• Deposited Residue Count: 606 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
N-carbamyl-D-amino acid amidohydrolase	A, B	303	Agrobacterium sp.	Mutation(s): 2  EC: 3.5.1.77
UniProt
Find proteins for P60327 (Agrobacterium sp. (strain KNK712)) Explore P60327  Go to UniProtKB:  P60327

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CDV	C [auth B], D [auth B]	3-METHYL-2-UREIDO-BUTYRIC ACID C6 H12 N2 O3 JDXMIYHOSFNZKO-SCSAIBSYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free:  0.218 (Depositor), 0.210 (DCC) 
• R-Value Work:  0.180 (Depositor), 0.170 (DCC) 

Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 67.452	α = 90
b = 137.696	β = 90
c = 68.024	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2004-06-08 
Deposition Author(s): Hashimoto, H., Aoki, M., Shimizu, T., Nakai, T., Morikawa, H., Ikenaka, Y., Takahashi, S., Sato, M.

Revision History  

• Version 1.0: 2004-06-08
  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: 2021-11-10
  Changes: Database references, Derived calculations
• Version 1.4: 2023-12-27
  Changes: Data collection