9XKR | pdb_00009xkr

Structure of CsoS1D from Halothiobacillius neapolitanus

PDB DOI: https://doi.org/10.2210/pdb9XKR/pdb

Classification: STRUCTURAL PROTEIN
Organism(s): Halothiobacillus neapolitanus c2
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2025-11-06 Released: 2026-11-11
Deposition Author(s): Zhao, Y.Y., Li, B.R., Jiang, Y.L., Zhou, C.Z.
Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.34 Å
R-Value Free:
0.227 (Depositor), 0.230 (DCC)
R-Value Work:
0.182 (Depositor), 0.183 (DCC)
R-Value Observed:
0.184 (Depositor)

Starting Model: experimental
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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

Molecular basis for the selective influx of substrates through the carboxysome shell proteins

Li, B.R., Zhao, Y.Y., Jiang, Y.L., Zhou, C.Z.

To be published.

Macromolecule Content

Total Structure Weight: 140.87 kDa
Atom Count: 10,117
Modeled Residue Count: 1,247
Deposited Residue Count: 1,278
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Carboxysome shell protein CsoS1D	A [auth C] B C [auth D] D [auth A] E A [auth C], B, C [auth D], D [auth A], E, F	213	Halothiobacillus neapolitanus c2	Mutation(s): 0 Gene Names: csoS1D, Hneap_0903
UniProt
Find proteins for D0KZ73 (Halothiobacillus neapolitanus (strain ATCC 23641 / DSM 15147 / CIP 104769 / NCIMB 8539 / c2)) Explore D0KZ73 Go to UniProtKB: D0KZ73
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	D0KZ73
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.34 Å
R-Value Free: 0.227 (Depositor), 0.230 (DCC)
R-Value Work: 0.182 (Depositor), 0.183 (DCC)
R-Value Observed: 0.184 (Depositor)

Space Group: H 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 123.57	α = 90
b = 123.57	β = 90
c = 222.585	γ = 120

Software Package:

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

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2026-11-11

Deposition Author(s):

Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	32241025
National Natural Science Foundation of China (NSFC)	China	32171198

Revision History (Full details and data files)

Version 1.0: 2026-11-11
Type: Initial release