9LYT | pdb_00009lyt

The crystal structure of Mucuna sempervirens Pathogenesis-related protein 1

• PDB DOI: https://doi.org/10.2210/pdb9LYT/pdb

• Classification: PLANT PROTEIN
• Organism(s): Mucuna sempervirens
• Mutation(s): No 


• Deposited: 2025-02-21 Released: 2026-01-07 
• Deposition Author(s): Zha, H.G., Fan, S.L.
• Funding Organization(s): National Natural Science Foundation of China (NSFC), Other private

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 
  0.223 (Depositor), 0.223 (DCC) 
• R-Value Work: 
  0.176 (Depositor), 0.183 (DCC) 
• R-Value Observed: 
  0.178 (Depositor) 

Starting Model: in silico

Literature

The crystal structure of Mucuna sempervirens Pathogenesis-related protein 1

Zha, H.G., Fan, S.L.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 30.31 kDa 
• Atom Count: 2,369 
• Modeled Residue Count: 273 
• Deposited Residue Count: 276 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Basic pathogenesis-related protein PR-1	A, B	138	Mucuna sempervirens	Mutation(s): 0
UniProt
Find proteins for A0A5J6CHG8 (Mucuna sempervirens) Explore A0A5J6CHG8  Go to UniProtKB:  A0A5J6CHG8

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free:  0.223 (Depositor), 0.223 (DCC) 
• R-Value Work:  0.176 (Depositor), 0.183 (DCC) 
• R-Value Observed: 0.178 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 59.756	α = 90
b = 51.613	β = 99.42
c = 97.853	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHENIX	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2026-01-07 
Deposition Author(s): Zha, H.G., Fan, S.L.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	32070258
Other private		2022AH040267
National Natural Science Foundation of China (NSFC)	China	--

Revision History  

• Version 1.0: 2026-01-07
  Type: Initial release