6KR0

Crystal structure of HL homo-diabody

PDB DOI: https://doi.org/10.2210/pdb6KR0/pdb

Classification: IMMUNE SYSTEM
Organism(s): Homo sapiens
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2019-08-20 Released: 2020-08-26
Deposition Author(s): Tanaka, Y.
Funding Organization(s): Japan Society for the Promotion of Science

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.30 Å
R-Value Free: 0.226
R-Value Work: 0.202
R-Value Observed: 0.203

wwPDB Validation 3D Report Full Report

This is version 1.1 of the entry. See complete history.

Literature

Association behavior and control of the quality of cancer therapeutic bispecific diabodies expressed in Escherichia coli

Nakazawa, H., Onodera-Sugano, T., Sugiyama, A., Tanaka, Y., Hattori, T., Niide, T., Ogata, H., Asano, R., Kumagai, I., Umetsu, M.

(2020) Biochem Eng J 160

DOI: https://doi.org/10.1016/j.bej.2020.107636

Macromolecule Content

Total Structure Weight: 124.53 kDa
Atom Count: 7,173
Modelled Residue Count: 906
Deposited Residue Count: 1,160
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
HL diabody	A, B, C, D	290	Homo sapiens	Mutation(s): 0
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.30 Å
R-Value Free: 0.226
R-Value Work: 0.202
R-Value Observed: 0.203
Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 87.08	α = 90
b = 88.48	β = 90
c = 135.44	γ = 90

Software Package:

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

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2020-08-26

Deposition Author(s):

Funding Organization	Location	Grant Number
Japan Society for the Promotion of Science	Japan	--

Revision History (Full details and data files)

Version 1.0: 2020-08-26
Type: Initial release
Version 1.1: 2021-09-08
Changes: Database references

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.