2GS9 | pdb_00002gs9

Crystal structure of TT1324 from Thermus thermophilis HB8

• PDB DOI: https://doi.org/10.2210/pdb2GS9/pdb

• Classification: TRANSFERASE
• Organism(s): Thermus thermophilus HB8
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2006-04-25 Released: 2007-03-13 
• Deposition Author(s): Kamitori, S., Abe, A., Ebihara, A., Kanagawa, M., Nakagawa, N., Kuroishi, C., Agari, Y., Kuramitsu, S., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free: 
  0.239 (Depositor), 0.225 (DCC) 
• R-Value Work: 
  0.215 (Depositor), 0.202 (DCC) 
• R-Value Observed: 
  0.215 (Depositor) 

Literature

Crystal structure of TT1324 from Thermus thermophilis HB8

Kamitori, S., Abe, A., Agari, Y., Kanagawa, 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 and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 47.46 kDa 
• Atom Count: 3,419 
• Modeled Residue Count: 422 
• Deposited Residue Count: 422 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Hypothetical protein TT1324	A, B	211	Thermus thermophilus HB8	Mutation(s): 1
UniProt
Find proteins for Q5SL11 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8)) Explore Q5SL11  Go to UniProtKB:  Q5SL11

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SAH	C [auth A], E [auth B]	S-ADENOSYL-L-HOMOCYSTEINE C14 H20 N6 O5 S ZJUKTBDSGOFHSH-WFMPWKQPSA-N
FMT	D [auth A], F [auth B]	FORMIC ACID C H2 O2 BDAGIHXWWSANSR-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: 2.60 Å
• R-Value Free:  0.239 (Depositor), 0.225 (DCC) 
• R-Value Work:  0.215 (Depositor), 0.202 (DCC) 
• R-Value Observed: 0.215 (Depositor) 

Space Group: P 6₅ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 161.662	α = 90
b = 161.662	β = 90
c = 139.946	γ = 120

Software Package:

Software Name	Purpose
CNS	refinement
JUPITER210	data reduction
HKL-2000	data scaling
SOLVE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2007-03-13 
Deposition Author(s): Kamitori, S., Abe, A., Ebihara, A., Kanagawa, M., Nakagawa, N., Kuroishi, C., Agari, Y., Kuramitsu, S., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Revision History  

• Version 1.0: 2007-03-13
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Source and taxonomy, Version format compliance
• Version 1.3: 2024-10-09
  Changes: Data collection, Database references, Derived calculations, Structure summary