3W3E | pdb_00003w3e

Structure of Vigna unguiculata chitinase with regulation activity of the plant cell wall

PDB DOI: https://doi.org/10.2210/pdb3W3E/pdb

Classification: HYDROLASE
Organism(s): Vigna unguiculata
Mutation(s): No

Deposited: 2012-12-20 Released: 2013-01-16
Deposition Author(s): Morohashi, K., Sasaki, K., Sakabe, N., Sakabe, K.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.50 Å
R-Value Free:
0.235 (Depositor), 0.236 (DCC)
R-Value Work:
0.202 (Depositor), 0.204 (DCC)
R-Value Observed:
0.204 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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This is version 1.2 of the entry. See complete history.

Literature

Three-dimensional structure analysis of Vigna unguiculata chitinase with regulation activity of the yield threshold of cell wall

Morohashi, M., Sasaki, K., Sakabe, N., Sakabe, K.

To be published.

Macromolecule Content

Total Structure Weight: 52.2 kDa
Atom Count: 4,270
Modeled Residue Count: 484
Deposited Residue Count: 484
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cotyledoneous yieldin-like protein	A, B	242	Vigna unguiculata	Mutation(s): 0
UniProt
Find proteins for Q8H0C9 (Vigna unguiculata) Explore Q8H0C9 Go to UniProtKB: Q8H0C9
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q8H0C9
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.50 Å
R-Value Free: 0.235 (Depositor), 0.236 (DCC)
R-Value Work: 0.202 (Depositor), 0.204 (DCC)
R-Value Observed: 0.204 (Depositor)

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 40.7	α = 97.7
b = 48.6	β = 100.4
c = 65.2	γ = 106.3

Software Package:

Software Name	Purpose
CrystalClear	data collection
MOLREP	phasing
REFMAC	refinement
PROCESS	data reduction
PROCESS	data scaling

Structure Validation

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Entry History

Deposition Data

Released Date: 2013-01-16

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2013-01-16
Type: Initial release
Version 1.1: 2023-11-08
Changes: Data collection, Database references, Refinement description
Version 1.2: 2024-11-20
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.