8ZGD | pdb_00008zgd

The Crystal Structure of the NLRP1_LRR domain from Biortus.

PDB DOI: https://doi.org/10.2210/pdb8ZGD/pdb

Classification: STRUCTURAL PROTEIN
Organism(s): Homo sapiens
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2024-05-09 Released: 2024-06-26
Deposition Author(s): Wang, F., Cheng, W., Yuan, Z., Qi, J., Pan, W.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.05 Å
R-Value Free:
0.221 (Depositor), 0.230 (DCC)
R-Value Work:
0.176 (Depositor), 0.190 (DCC)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

This is version 1.0 of the entry. See complete history.

Literature

The Crystal Structure of the NLRP1_LRR domain from Biortus.

Wang, F., Cheng, W., Yuan, Z., Qi, J., Pan, W.

To be published.

Macromolecule Content

Total Structure Weight: 22.43 kDa
Atom Count: 1,762
Modeled Residue Count: 197
Deposited Residue Count: 200
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
NACHT, LRR and PYD domains-containing protein 1, N-terminus	A	200	Homo sapiens	Mutation(s): 0 Gene Names: NLRP1, CARD7, DEFCAP, KIAA0926, NAC, NALP1 EC: 3.6.4 (UniProt), 3.4 (UniProt)
UniProt & NIH Common Fund Data Resources
Find proteins for Q9C000 (Homo sapiens) Explore Q9C000 Go to UniProtKB: Q9C000
PHAROS: Q9C000 GTEx: ENSG00000091592
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q9C000
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
GOL Query on GOL Download Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A] mmCIF format, chain B [auth A]	B [auth A]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.05 Å
R-Value Free: 0.221 (Depositor), 0.230 (DCC)
R-Value Work: 0.176 (Depositor), 0.190 (DCC)

Space Group: P 6₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 84.582	α = 90
b = 84.582	β = 90
c = 132.495	γ = 120

Software Package:

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

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2024-06-26

Deposition Author(s):

Funding Organization	Location	Grant Number
Not funded		--

Revision History (Full details and data files)

Version 1.0: 2024-06-26
Type: Initial release

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.