8JZA | pdb_00008jza

Crystal structure of single domain antibody kt75 of human Thyroglobulin

• PDB DOI: https://doi.org/10.2210/pdb8JZA/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Camelus dromedarius
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2023-07-04 Released: 2024-07-10 
• Deposition Author(s): Mistry, H., Kumarasamy, J., Kumari, S., Kulkarni, S.P., Gupta, G.D.
• Funding Organization(s): Other government

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.35 Å
• R-Value Free: 
  0.174 (Depositor), 0.170 (DCC) 
• R-Value Work: 
  0.130 (Depositor), 0.130 (DCC) 

Starting Model: experimental

Literature

Crystal structure of single domain antibody kt75 of human Thyroglobulin

Mistry, H., Kumarasamy, J., Kumari, S., Kulkarni, S.P., Gupta, G.D.

To be published.

Biological Assembly 1  

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

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

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 15.05 kDa 
• Atom Count: 1,120 
• Modeled Residue Count: 127 
• Deposited Residue Count: 134 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
single domain antibody kt75 of human Thyroglobulin	A	134	Camelus dromedarius	Mutation(s): 0

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ACT	B [auth A], C [auth A], D [auth A]	ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M
K	E [auth A]	POTASSIUM ION K NPYPAHLBTDXSSS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.35 Å
• R-Value Free:  0.174 (Depositor), 0.170 (DCC) 
• R-Value Work:  0.130 (Depositor), 0.130 (DCC) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 38.751	α = 90
b = 47.589	β = 90
c = 64.237	γ = 90

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-07-10 
Deposition Author(s): Mistry, H., Kumarasamy, J., Kumari, S., Kulkarni, S.P., Gupta, G.D.

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Funding Organization	Location	Grant Number
Other government	India	--

Revision History  

• Version 1.0: 2024-07-10
  Type: Initial release
  
• Version 1.1: 2024-10-30
  Changes: Structure summary