3FJY | pdb_00003fjy

Crystal structure of a probable MutT1 protein from Bifidobacterium adolescentis

• PDB DOI: https://doi.org/10.2210/pdb3FJY/pdb

• Classification: HYDROLASE
• Organism(s): Bifidobacterium adolescentis ATCC 15703
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2008-12-15 Released: 2009-01-13 
• Deposition Author(s): Palani, K., Burley, S.K., Swaminathan, S., New York SGX Research Center for Structural Genomics (NYSGXRC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.15 Å
• R-Value Free: 
  0.263 (Depositor), 0.250 (DCC) 
• R-Value Work: 
  0.223 (Depositor), 0.210 (DCC) 
• R-Value Observed: 
  0.223 (Depositor) 

Literature

Crystal structure of a probable MutT1 protein from Bifidobacterium adolescentis

Palani, K., Burley, S.K., Swaminathan, S.

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 and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 82.6 kDa 
• Atom Count: 5,658 
• Modeled Residue Count: 683 
• Deposited Residue Count: 728 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Probable MutT1 protein	A, B	364	Bifidobacterium adolescentis ATCC 15703	Mutation(s): 0  Gene Names: BAD_0126, mutT1
UniProt
Find proteins for A0ZZM4 (Bifidobacterium adolescentis (strain ATCC 15703 / DSM 20083 / NCTC 11814 / E194a)) Explore A0ZZM4  Go to UniProtKB:  A0ZZM4

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GOL	C [auth A], D [auth B]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A, B	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.15 Å
• R-Value Free:  0.263 (Depositor), 0.250 (DCC) 
• R-Value Work:  0.223 (Depositor), 0.210 (DCC) 
• R-Value Observed: 0.223 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 78.673	α = 90
b = 90.034	β = 90
c = 124.195	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
CBASS	data collection
HKL-2000	data reduction
HKL-2000	data scaling
SHELXD	phasing
SHARP	phasing
ARP/wARP	model building

Structure Validation

Entry History 

Deposition Data

• Released Date: 2009-01-13 
Deposition Author(s): Palani, K., Burley, S.K., Swaminathan, S., New York SGX Research Center for Structural Genomics (NYSGXRC)

Revision History  

• Version 1.0: 2009-01-13
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Non-polymer description, Version format compliance
• Version 1.2: 2021-02-10
  Changes: Database references, Derived calculations, Structure summary
• Version 1.3: 2024-10-30
  Changes: Data collection, Database references, Structure summary