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

Experimental Data Snapshot

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

Starting Model: experimental
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This is version 1.1 of the entry. See complete history.

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.

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

Find similar proteins by:

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	3D Interactions
ACT Query on ACT Download:Ideal Coordinates CCD File SDF format, chain B [auth A] SDF format, chain C [auth A] SDF format, chain D [auth A] MOL2 format, chain B [auth A] MOL2 format, chain C [auth A] MOL2 format, chain D [auth A] mmCIF format, chain B [auth A] mmCIF format, chain C [auth A] mmCIF format, chain D [auth A]	B [auth A], C [auth A], D [auth A]	ACETATE ION C₂ H₃ O₂ QTBSBXVTEAMEQO-UHFFFAOYSA-M		Interactions Focus chain B [auth A] Focus chain C [auth A] Focus chain D [auth A] Interactions & Density Focus chain B [auth A] Focus chain C [auth A] Focus chain D [auth A]
K Query on K Download:Ideal Coordinates CCD File SDF format, chain E [auth A] MOL2 format, chain E [auth A] mmCIF format, chain E [auth A]	E [auth A]	POTASSIUM ION K NPYPAHLBTDXSSS-UHFFFAOYSA-N		Interactions Focus chain E [auth A] Interactions & Density Focus chain E [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.35 Å
R-Value Free: 0.174 (Depositor), 0.174 (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

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Entry History

& Funding Information

Deposition Data

Released Date: 2024-07-10

Deposition Author(s):

Funding Organization	Location	Grant Number
Other government	India	--

Revision History (Full details and data files)

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

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.