9P7Q | pdb_00009p7q

273K human S-adenosylmethionine decarboxylase


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.21 Å
  • R-Value Free: 
    0.259 (Depositor), 0.259 (DCC) 
  • R-Value Work: 
    0.220 (Depositor), 0.220 (DCC) 
  • R-Value Observed: 
    0.222 (Depositor) 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.0 of the entry. See complete history


Literature

Multi-Temperature Crystallography of S-Adenosylmethionine Decarboxylase Observes Dynamic Loop Motions

Patel, J.R.Bonzon, T.J.Bakht, T.F.Fagbohun, O.O.Clinger, J.A.

(2025) Biomolecules 15


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
S-adenosylmethionine decarboxylase beta chainA [auth B]80Homo sapiensMutation(s): 0 
Gene Names: AMD1AMD
EC: 4.1.1.50
UniProt & NIH Common Fund Data Resources
Find proteins for P17707 (Homo sapiens)
Explore P17707 
Go to UniProtKB:  P17707
PHAROS:  P17707
GTEx:  ENSG00000123505 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP17707
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
S-adenosylmethionine decarboxylase alpha chainB [auth A]267Homo sapiensMutation(s): 1 
Gene Names: AMD1AMD
EC: 4.1.1.50
UniProt & NIH Common Fund Data Resources
Find proteins for P17707 (Homo sapiens)
Explore P17707 
Go to UniProtKB:  P17707
PHAROS:  P17707
GTEx:  ENSG00000123505 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP17707
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.21 Å
  • R-Value Free:  0.259 (Depositor), 0.259 (DCC) 
  • R-Value Work:  0.220 (Depositor), 0.220 (DCC) 
  • R-Value Observed: 0.222 (Depositor) 
Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 96.978α = 90
b = 45.018β = 105.109
c = 72.061γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
STARANISOdata scaling
xia2data reduction
PHASERphasing
PDB_EXTRACTdata extraction

Structure Validation

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Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Cancer Prevention and Research Institute of Texas (CPRIT)United StatesRR220081

Revision History  (Full details and data files)

  • Version 1.0: 2025-09-17
    Type: Initial release