5O1N | pdb_00005o1n

Crystal structure of human aminoadipate semialdehyde synthase, saccharopine dehydrogenase domain with N-[(2S)-2-Pyrrolidinylmethyl]-trifluoromethanesulfonamide bound

• PDB DOI: https://doi.org/10.2210/pdb5O1N/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Homo sapiens
• Expression System: Spodoptera frugiperda
• Mutation(s): No 


• Deposited: 2017-05-18 Released: 2017-05-31 
• Deposition Author(s): Kopec, J., Rembeza, E., Pena, I.A., Strain-Damerell, C., Goubin, S., Sethi, R., Velupillai, S., Talon, R., Collins, P., Krojer, T., McLaughlin, M., Burgess-Brown, N., Arrowsmith, C., Edwards, A., Bountra, C., Brennan, P., von Delft, F., Arruda, P., Yue, W.W.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.28 Å
• R-Value Free: 
  0.286 (Depositor), 0.280 (DCC) 
• R-Value Work: 
  0.265 (Depositor), 0.260 (DCC) 
• R-Value Observed: 
  0.266 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of human aminoadipate semialdehyde synthase, saccharopine dehydrogenase domain with N-[(2S)-2-Pyrrolidinylmethyl]-trifluoromethanesulfonamide bound

Kopec, J., Yue, W.W.

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)

Biological Assembly Evidence: mass spectrometry

Macromolecule Content 

• Total Structure Weight: 55.09 kDa 
• Atom Count: 3,338 
• Modeled Residue Count: 442 
• Deposited Residue Count: 497 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Alpha-aminoadipic semialdehyde synthase, mitochondrial	A	497	Homo sapiens	Mutation(s): 0  Gene Names: AASS EC: 1.5.1.8 (PDB Primary Data), 1.5.1.9 (PDB Primary Data)
UniProt & NIH Common Fund Data Resources
Find proteins for Q9UDR5 (Homo sapiens) Explore Q9UDR5  Go to UniProtKB:  Q9UDR5
PHAROS:  Q9UDR5 GTEx:  ENSG00000008311

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
9H8	B [auth A]	1,1,1-tris(fluoranyl)-~{N}-[[(2~{S})-pyrrolidin-2-yl]methyl]methanesulfonamide C6 H11 F3 N2 O2 S RIWFUAUXWIEOTK-YFKPBYRVSA-N
PEG	E [auth A]	DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N
DMS	C [auth A]	DIMETHYL SULFOXIDE C2 H6 O S IAZDPXIOMUYVGZ-UHFFFAOYSA-N
EDO	D [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.28 Å
• R-Value Free:  0.286 (Depositor), 0.280 (DCC) 
• R-Value Work:  0.265 (Depositor), 0.260 (DCC) 
• R-Value Observed: 0.266 (Depositor) 

Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 89.396	α = 90
b = 89.396	β = 90
c = 147.893	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
xia2	data reduction
xia2	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2017-05-31 
Deposition Author(s): Kopec, J., Rembeza, E., Pena, I.A., Strain-Damerell, C., Goubin, S., Sethi, R., Velupillai, S., Talon, R., Collins, P., Krojer, T., McLaughlin, M., Burgess-Brown, N., Arrowsmith, C., Edwards, A., Bountra, C., Brennan, P., von Delft, F., Arruda, P., Yue, W.W.

Revision History  

• Version 1.0: 2017-05-31
  Type: Initial release
  
• Version 1.1: 2024-01-17
  Changes: Data collection, Database references, Refinement description
• Version 1.2: 2024-11-20
  Changes: Structure summary