1MJF | pdb_00001mjf

PUTATIVE SPERMIDINE SYNTHETASE FROM PYROCOCCUS FURIOSUS PFU-132382

• PDB DOI: https://doi.org/10.2210/pdb1MJF/pdb

• Classification: TRANSFERASE
• Organism(s): Pyrococcus furiosus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2002-08-27 Released: 2002-09-18 
• Deposition Author(s): Southeast Collaboratory for Structural Genomics (SECSG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 
  0.242 (Depositor), 0.250 (DCC) 
• R-Value Work: 
  0.205 (Depositor), 0.210 (DCC) 
• R-Value Observed: 
  0.207 (Depositor) 

Starting Model: experimental

Literature

PUTATIVE SPERMIDINE SYNTHETASE FROM PYROCOCCUS FURIOSUS PFU-132382

Southeast Collaboratory for Structural Genomics

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: 64.75 kDa 
• Atom Count: 4,527 
• Modeled Residue Count: 540 
• Deposited Residue Count: 562 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
spermidine synthase	A, B	281	Pyrococcus furiosus	Mutation(s): 0  EC: 2.5.1.16 (PDB Primary Data), 2.5.1 (UniProt), 2.5.1.23 (UniProt), 2.5.1.104 (UniProt)
UniProt
Find proteins for Q8U4G1 (Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)) Explore Q8U4G1  Go to UniProtKB:  Q8U4G1

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free:  0.242 (Depositor), 0.250 (DCC) 
• R-Value Work:  0.205 (Depositor), 0.210 (DCC) 
• R-Value Observed: 0.207 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 95.639	α = 90
b = 110.821	β = 90
c = 49.256	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
MOLREP	phasing
EPMR	phasing
REFMAC	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2002-09-18 
Deposition Author(s): Southeast Collaboratory for Structural Genomics (SECSG)

Revision History  

• Version 1.0: 2002-09-18
  Type: Initial release
  
• Version 1.1: 2008-04-28
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2017-10-11
  Changes: Refinement description
• Version 1.4: 2018-01-24
  Changes: Database references
• Version 1.5: 2024-02-14
  Changes: Data collection, Database references, Refinement description