9G81 | pdb_00009g81

CTX-M-14 mixed with piperacillin at 3s delay time - serial crystallography temperature series; 30C, 303K


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.71 Å
  • R-Value Free: 
    0.195 (Depositor), 0.195 (DCC) 
  • R-Value Work: 
    0.165 (Depositor), 0.165 (DCC) 
  • R-Value Observed: 
    0.166 (Depositor) 

Starting Model: experimental
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Literature

Probing the modulation of enzyme kinetics by multi-temperature, time-resolved serial crystallography.

Schulz, E.C.Prester, A.von Stetten, D.Gore, G.Hatton, C.E.Bartels, K.Leimkohl, J.P.Schikora, H.Ginn, H.M.Tellkamp, F.Mehrabi, P.

(2025) Nat Commun 16: 6553-6553

  • DOI: https://doi.org/10.1038/s41467-025-61631-2
  • Primary Citation of Related Structures:  
    9G5S, 9G5W, 9G5X, 9G61, 9G6L, 9G6M, 9G6N, 9G6O, 9G6P, 9G7V, 9G7W, 9G7X, 9G7Y, 9G7Z, 9G80, 9G81, 9G82, 9I7L

  • PubMed Abstract: 

    The vast majority of protein structures are determined at cryogenic temperatures, which are far from physiological conditions. Nevertheless, it is well established that temperature is an essential thermodynamic parameter for understanding the conformational dynamics and functionality of proteins in their native environments. Time-resolved crystallography is a technique that aims to elucidate protein function by examining structural alterations during processes such as ligand binding, catalysis, or allostery. However, this approach is typically conducted under ambient conditions, which may obscure crucial conformational states, that are only visible at physiological temperatures. In this study, we directly address the interplay between protein structure and activity via a method that enables multi-temperature, time-resolved serial crystallography experiments in a temperature window from below 10 °C to above 70 °C. Via this 5D-SSX, time-resolved experiments can now be carried out at physiological temperatures and with long time delays, providing insights into protein function and enzyme catalysis. Our findings demonstrate the temperature-dependent modulation of turnover kinetics for the mesophilic β-lactamase CTX-M-14 and the thermophilic enzyme xylose isomerase, within the full protein structure.


  • Organizational Affiliation

    University Medical Center Hamburg-Eppendorf (UKE), Hamburg, Germany. ec.schulz@uke.de.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Beta-lactamase291Klebsiella pneumoniaeMutation(s): 0 
Gene Names: blaCTX-M-14bla_2SAMEA3512100_05103
EC: 3.5.2.6
UniProt
Find proteins for Q7BGE9 (Klebsiella pneumoniae)
Explore Q7BGE9 
Go to UniProtKB:  Q7BGE9
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ7BGE9
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.71 Å
  • R-Value Free:  0.195 (Depositor), 0.195 (DCC) 
  • R-Value Work:  0.165 (Depositor), 0.165 (DCC) 
  • R-Value Observed: 0.166 (Depositor) 
Space Group: P 32 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 42.15α = 90
b = 42.15β = 90
c = 234.2γ = 120
Software Package:
Software NamePurpose
PHENIXrefinement
CrystFELdata reduction
CrystFELdata scaling
PHASERphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Joachim Herz StiftungGermanyBiomedical physics of infection
German Research Foundation (DFG)Germany458246365
German Federal Ministry for Education and ResearchGermany01KI2114
European CommissionEuropean Union--

Revision History  (Full details and data files)

  • Version 1.0: 2025-07-30
    Type: Initial release