9XP1 | pdb_00009xp1

Crystal structure of native TcrXyn10A

PDB DOI: https://doi.org/10.2210/pdb9XP1/pdb

Classification: HYDROLASE
Organism(s): Thermoascus crustaceus
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2025-11-15 Released: 2026-06-17
Deposition Author(s): Nam, K.H.
Funding Organization(s): Other private

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.10 Å
R-Value Free:
0.220 (Depositor), 0.220 (DCC)
R-Value Work:
0.169 (Depositor), 0.170 (DCC)
R-Value Observed:
0.172 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 9XP1

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

Literature

Crystal structure of native TcrXyn10A

Nam, K.H.

To be published.

Macromolecule Content

Total Structure Weight: 71.15 kDa
Atom Count: 5,032
Modeled Residue Count: 598
Deposited Residue Count: 654
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Beta-xylanase	A, B	327	Thermoascus crustaceus	Mutation(s): 0 EC: 3.2.1.8
UniProt
Find proteins for A0A3G2WJY4 (Thermoascus crustaceus) Explore A0A3G2WJY4 Go to UniProtKB: A0A3G2WJY4
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A3G2WJY4
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.10 Å
R-Value Free: 0.220 (Depositor), 0.220 (DCC)
R-Value Work: 0.169 (Depositor), 0.170 (DCC)
R-Value Observed: 0.172 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 63.618	α = 90
b = 87.745	β = 90
c = 101.991	γ = 90

Software Package:

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

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2026-06-17

Deposition Author(s):

Funding Organization	Location	Grant Number
Other private	Korea, Republic Of	PAL-XFEL (XFEL2025-01)

Revision History (Full details and data files)

Version 1.0: 2026-06-17
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.