5KMC

Human Histidine Triad Nucleotide Binding Protein 1 (hHint1) non-nucleotidic covalent intermediate complex

• PDB DOI: https://doi.org/10.2210/pdb5KMC/pdb

• Classification: HYDROLASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2016-06-26 Released: 2017-06-28 
• Deposition Author(s): Maize, K.M., Finzel, B.C.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.35 Å
• R-Value Free: 0.174 
• R-Value Work: 0.159 
• R-Value Observed: 0.159 

Literature

Structural Biology for Drug Design: Applications in Two Systems

Maize, K.

(2016) Thesis 

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: 28.43 kDa 
• Atom Count: 2,069 
• Modelled Residue Count: 227 
• Deposited Residue Count: 258 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Histidine triad nucleotide-binding protein 1	A, B	129	Homo sapiens	Mutation(s): 0  Gene Names: HINT1, HINT EC: 3
UniProt & NIH Common Fund Data Resources
Find proteins for P49773 (Homo sapiens) Explore P49773  Go to UniProtKB:  P49773
PHAROS:  P49773 GTEx:  ENSG00000169567

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
6UU	C [auth A]	[2-(1~{H}-indol-3-yl)ethylamino]phosphonic acid C10 H13 N2 O3 P LZBMOXGGHSGOHA-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.35 Å
• R-Value Free: 0.174 
• R-Value Work: 0.159 
• R-Value Observed: 0.159 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 78.093	α = 90
b = 46.151	β = 94.66
c = 63.994	γ = 90

Software Package:

Software Name	Purpose
Aimless	data scaling
PHASER	phasing
PHENIX	refinement
PDB_EXTRACT	data extraction
XDS	data reduction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2017-06-28 
Deposition Author(s): Maize, K.M., Finzel, B.C.

Revision History  

• Version 1.0: 2017-06-28
  Type: Initial release
  
• Version 1.1: 2017-07-26
  Changes: Database references
• Version 1.2: 2023-09-27
  Changes: Data collection, Database references, Refinement description