9JOS | pdb_00009jos

STRUCTURE OF ENDO-1,3-FUCANASE FROM GH168 FAMILY

PDB DOI: https://doi.org/10.2210/pdb9JOS/pdb

Classification: HYDROLASE
Organism(s): Novipirellula artificiosorum
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2024-09-25 Released: 2024-11-27
Deposition Author(s): Chen, G.N., Chang, Y.G.
Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.70 Å
R-Value Free:
0.205 (Depositor), 0.206 (DCC)
R-Value Work:
0.166 (Depositor), 0.168 (DCC)
R-Value Observed:
0.168 (Depositor)

Starting Model: in silico
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wwPDB Validation 3D Report Full Report

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

Literature

Structure of endo-1.3-fucanase from GH168 family at 1.70 Angstroms resulution.

Chen, G.N., Chang, Y.G.

To be published.

Macromolecule Content

Total Structure Weight: 46.77 kDa
Atom Count: 3,338
Modeled Residue Count: 360
Deposited Residue Count: 409
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glycoside-hydrolase family GH114 TIM-barrel domain-containing protein	A	409	Novipirellula artificiosorum	Mutation(s): 0 Gene Names: Poly41_55130
UniProt
Find proteins for A0A5C6D8T6 (Novipirellula artificiosorum) Explore A0A5C6D8T6 Go to UniProtKB: A0A5C6D8T6
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A5C6D8T6
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.70 Å
R-Value Free: 0.205 (Depositor), 0.206 (DCC)
R-Value Work: 0.166 (Depositor), 0.168 (DCC)
R-Value Observed: 0.168 (Depositor)

Space Group: H 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 148.28	α = 90
b = 148.28	β = 90
c = 42.04	γ = 120

Software Package:

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

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2024-11-27

Deposition Author(s):

Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	U22A20542

Revision History (Full details and data files)

Version 1.0: 2024-11-27
Type: Initial release

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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.