9WER | pdb_00009wer

Aquifex aeolicus IscS2 with 6 mutations

PDB DOI: https://doi.org/10.2210/pdb9WER/pdb

Classification: BIOSYNTHETIC PROTEIN
Organism(s): Aquifex aeolicus VF5
Expression System: Escherichia coli BL21(DE3)
Mutation(s): Yes

Deposited: 2025-08-20 Released: 2026-09-02
Deposition Author(s): Kunichika, K., Fujishiro, T.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 3.10 Å
R-Value Free:
0.274 (Depositor), 0.274 (DCC)
R-Value Work:
0.229 (Depositor), 0.229 (DCC)
R-Value Observed:
0.231 (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

Rational engineering of cysteine desulfurase paralog

Kunichika, K., Yoshida, R., Sasaki, Y., Hayashi, N., Yamakawa, M., Iwanaga, T., Takahashi, Y., Wada, K., Fujishiro, T.

To be published.

Macromolecule Content

Total Structure Weight: 45.62 kDa
Atom Count: 3,094
Modeled Residue Count: 388
Deposited Residue Count: 406
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
cysteine desulfurase	A	406	Aquifex aeolicus VF5	Mutation(s): 6 Gene Names: nifS2, aq_739 EC: 2.8.1.7
UniProt
Find proteins for O66947 (Aquifex aeolicus (strain VF5)) Explore O66947 Go to UniProtKB: O66947
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	O66947
Sequence Annotations Expand
Reference Sequence

Small Molecules

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
LLP Query on LLP	A	L-PEPTIDE LINKING	C₁₄ H₂₂ N₃ O₇ P		LYS

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 3.10 Å
R-Value Free: 0.274 (Depositor), 0.274 (DCC)
R-Value Work: 0.229 (Depositor), 0.229 (DCC)
R-Value Observed: 0.231 (Depositor)

Space Group: C 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 100.98	α = 90
b = 108.28	β = 90
c = 83.14	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XSCALE	data scaling
MOLREP	phasing

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2026-09-02

Deposition Author(s):

Funding Organization	Location	Grant Number
Not funded		--

Revision History (Full details and data files)

Version 1.0: 2026-09-02
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.