2DOU | pdb_00002dou

probable N-succinyldiaminopimelate aminotransferase (TTHA0342) from Thermus thermophilus HB8

• PDB DOI: https://doi.org/10.2210/pdb2DOU/pdb

• Classification: TRANSFERASE
• Organism(s): Thermus thermophilus HB8
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2006-05-03 Released: 2006-11-03 
• Deposition Author(s): Omi, R., Goto, M., Miyahara, I., Hirotsu, K., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 
  0.254 (Depositor), 0.250 (DCC) 
• R-Value Work: 
  0.222 (Depositor), 0.220 (DCC) 
• R-Value Observed: 
  0.222 (Depositor) 

Literature

probable N-succinyldiaminopimelate aminotransferase (TTHA0342) from Thermus thermophilus HB8

Omi, R., Goto, M., Miyahara, I., Hirotsu, K.

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: 83.18 kDa 
• Atom Count: 5,821 
• Modeled Residue Count: 740 
• Deposited Residue Count: 752 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
probable N-succinyldiaminopimelate aminotransferase	A, B	376	Thermus thermophilus HB8	Mutation(s): 0  EC: 2 (PDB Primary Data), 2.6.1 (UniProt)
UniProt
Find proteins for Q5SLF1 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8)) Explore Q5SLF1  Go to UniProtKB:  Q5SLF1

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
EPE	E [auth A]	4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID C8 H18 N2 O4 S JKMHFZQWWAIEOD-UHFFFAOYSA-N
SO4	C [auth A], D [auth A], F [auth B], G [auth B]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free:  0.254 (Depositor), 0.250 (DCC) 
• R-Value Work:  0.222 (Depositor), 0.220 (DCC) 
• R-Value Observed: 0.222 (Depositor) 

Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 121.49	α = 90
b = 121.49	β = 90
c = 172.19	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
ADSC	data collection
SCALEPACK	data scaling
SOLVE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2006-11-03 
Deposition Author(s): Omi, R., Goto, M., Miyahara, I., Hirotsu, K., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Revision History  

• Version 1.0: 2006-11-03
  Type: Initial release
  
• Version 1.1: 2008-04-30
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Source and taxonomy, Version format compliance
• Version 1.3: 2024-10-23
  Changes: Data collection, Database references, Derived calculations, Structure summary