RCSB PDB - 9B0T: Cryo-EM structure of E227Q variant of uMtCK1 in complex with transition state analog

 9B0T

Cryo-EM structure of E227Q variant of uMtCK1 in complex with transition state analog


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.30 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Structural basis for substrate binding, catalysis and inhibition of cancer target mitochondrial creatine kinase by a covalent inhibitor

Demir, M.Koepping, L.Li, Y.Fujimoto, L.Bobkov, A.Zhao, J.Hitosugi, T.Sergienko, E.

(2025) Structure 


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Creatine kinase U-type, mitochondrial
A, B, C, D, E
418Homo sapiensMutation(s): 1 
Gene Names: CKMT1ACKMTCKMT1B
EC: 2.7.3.2
UniProt & NIH Common Fund Data Resources
Find proteins for P12532 (Homo sapiens)
Explore P12532 
Go to UniProtKB:  P12532
PHAROS:  P12532
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP12532
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 4 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
ADP (Subject of Investigation/LOI)
Query on ADP

Download Ideal Coordinates CCD File 
DA [auth F]
HA [auth G]
J [auth A]
LA [auth H]
N [auth B]
ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N
CRN (Subject of Investigation/LOI)
Query on CRN

Download Ideal Coordinates CCD File 
CA [auth F]
GA [auth G]
I [auth A]
KA [auth H]
M [auth B]
N-[(E)-AMINO(IMINO)METHYL]-N-METHYLGLYCINE
C4 H9 N3 O2
CVSVTCORWBXHQV-UHFFFAOYSA-N
NO3 (Subject of Investigation/LOI)
Query on NO3

Download Ideal Coordinates CCD File 
AA [auth E]
EA [auth F]
IA [auth G]
K [auth A]
MA [auth H]
NITRATE ION
N O3
NHNBFGGVMKEFGY-UHFFFAOYSA-N
MG (Subject of Investigation/LOI)
Query on MG

Download Ideal Coordinates CCD File 
BA [auth E]
FA [auth F]
JA [auth G]
L [auth A]
NA [auth H]
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.30 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/Office of the DirectorUnited StatesOD026926
National Institutes of Health/National Cancer Institute (NIH/NCI)United StatesCA030199
National Institutes of Health/National Cancer Institute (NIH/NCI)United StatesCA251910

Revision History  (Full details and data files)

  • Version 1.0: 2025-02-12
    Type: Initial release