6TYJ

Crystal structure of zinc-bound Hemerythrin HHE cation binding domain-containing protein (soak): Rv2633c homolog from Mycobacterium kansasii

• PDB DOI: https://doi.org/10.2210/pdb6TYJ/pdb

• Classification: PROTEIN BINDING
• Organism(s): Mycobacterium kansasii
• Expression System: Escherichia coli 'BL21-Gold(DE3)pLysS AG
• Mutation(s): Yes 


• Deposited: 2019-08-09 Released: 2020-01-22 
• Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 0.208 
• R-Value Work: 0.177 
• R-Value Observed: 0.180 

Starting Model: experimental

Literature

Crystal structure of zinc-bound Hemerythrin HHE cation binding domain-containing protein (soak): Rv2633c homolog from Mycobacterium kansasii

Abendroth, J., Delker, S.L., Buchko, G.W., Lorimer, D.D., Horanyi, P.S., Edwards, T.E.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 19.79 kDa 
• Atom Count: 1,456 
• Modelled Residue Count: 162 
• Deposited Residue Count: 170 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Hemerythrin HHE cation binding domain protein	A	170	Mycobacterium kansasii	Mutation(s): 1  Gene Names: BZL29_7639
UniProt
Find proteins for A0A1V3WIE5 (Mycobacterium kansasii) Explore A0A1V3WIE5  Go to UniProtKB:  A0A1V3WIE5

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN (Subject of Investigation/LOI)	B [auth A], C [auth A], D [auth A], E [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 0.208 
• R-Value Work: 0.177 
• R-Value Observed: 0.180 
• Space Group: P 3₁ 2 1
• Diffraction Data: https://doi.org/10.18430/m36tyj

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 52.23	α = 90
b = 52.23	β = 90
c = 104.65	γ = 120

Software Package:

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

Structure Validation

Currently 6TYJ does not have a validation slider image.

Entry History 

Deposition Data

• Released Date: 2020-01-22 
Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)

Revision History  

• Version 1.0: 2020-01-22
  Type: Initial release
  
• Version 1.1: 2023-10-11
  Changes: Data collection, Database references, Derived calculations, Refinement description