9K73 | pdb_00009k73

Crystal structure of TsaBgl

PDB DOI: https://doi.org/10.2210/pdb9K73/pdb

Classification: HYDROLASE
Organism(s): Thermoanaerobacterium saccharolyticum
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2024-10-23 Released: 2024-11-06
Deposition Author(s): Nam, K.H.
Funding Organization(s): National Research Foundation (NRF, Korea)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free:
0.178 (Depositor), 0.177 (DCC)
R-Value Work:
0.144 (Depositor), 0.144 (DCC)
R-Value Observed:
0.145 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 9K73

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

Literature

Application of Serial Crystallography for Merging Incomplete Macromolecular Crystallography Datasets.

(2024) Crystals (Basel) 14

DOI: https://doi.org/10.3390/cryst14121012

Macromolecule Content

Total Structure Weight: 51.98 kDa
Atom Count: 4,182
Modeled Residue Count: 441
Deposited Residue Count: 444
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
beta-glucosidase	A	444	Thermoanaerobacterium saccharolyticum	Mutation(s): 0 Gene Names: Tsac_2208 EC: 3.2.1.21
UniProt
Find proteins for I3VXG7 (Thermoanaerobacterium saccharolyticum (strain DSM 8691 / JW/SL-YS485)) Explore I3VXG7 Go to UniProtKB: I3VXG7
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	I3VXG7
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
TRS Query on TRS 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]	2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL C₄ H₁₂ N O₃ LENZDBCJOHFCAS-UHFFFAOYSA-O		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]
NA Query on NA Download:Ideal Coordinates CCD File SDF format, chain E [auth A] SDF format, chain D [auth A] SDF format, chain C [auth A] MOL2 format, chain E [auth A] MOL2 format, chain D [auth A] MOL2 format, chain C [auth A] mmCIF format, chain E [auth A] mmCIF format, chain D [auth A] mmCIF format, chain C [auth A]	C [auth A], D [auth A], E [auth A]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N		Interactions Focus chain C [auth A] Focus chain D [auth A] Focus chain E [auth A] Interactions & Density Focus chain C [auth A] Focus chain D [auth A] Focus chain E [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free: 0.178 (Depositor), 0.177 (DCC)
R-Value Work: 0.144 (Depositor), 0.144 (DCC)
R-Value Observed: 0.145 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 64.686	α = 90
b = 71.545	β = 90
c = 98.674	γ = 90

Software Package:

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

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2024-11-06

Deposition Author(s):

Funding Organization	Location	Grant Number
National Research Foundation (NRF, Korea)	Korea, Republic Of	NRF-2021R1I1A1A01050838

Revision History (Full details and data files)

Version 1.0: 2024-11-06
Type: Initial release
Version 1.1: 2025-05-21
Changes: Database references

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