7YOG | pdb_00007yog

Crystal Structure of I88L single mutant of O-acetyl-L-serine sulfhydrylase from Haemophilus influenzae at 2.3 A

PDB DOI: https://doi.org/10.2210/pdb7YOG/pdb

Classification: TRANSFERASE
Organism(s): Haemophilus influenzae Rd KW20
Expression System: Escherichia coli BL21(DE3)
Mutation(s): Yes

Deposited: 2022-08-01 Released: 2023-08-02
Deposition Author(s): Kumar, N., Rahisuddin, R., Saini, N., Singh, A.K.
Funding Organization(s): Department of Biotechnology (DBT, India)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.30 Å
R-Value Free:
0.268 (Depositor), 0.272 (DCC)
R-Value Work:
0.216 (Depositor), 0.218 (DCC)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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

Literature

Crystal Structure of I88L single mutant of O-acetyl-L-serine sulfhydrylase from Haemophilus influenzae at 2.3 A

Kumar, N., Rahisuddin, R., Saini, N., Singh, A.K.

To be published.

Macromolecule Content

Total Structure Weight: 33.65 kDa
Atom Count: 2,338
Modeled Residue Count: 310
Deposited Residue Count: 316
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cysteine synthase	A	316	Haemophilus influenzae Rd KW20	Mutation(s): 1 Gene Names: cysK, HI_1103 EC: 2.5.1.47
UniProt
Find proteins for P45040 (Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd)) Explore P45040 Go to UniProtKB: P45040
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P45040
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: 2.30 Å
R-Value Free: 0.268 (Depositor), 0.272 (DCC)
R-Value Work: 0.216 (Depositor), 0.218 (DCC)

Space Group: I 4₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 112.23	α = 90
b = 112.23	β = 90
c = 43.52	γ = 90

Software Package:

Software Name	Purpose
REFMAC	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: 2023-08-02

Deposition Author(s):

Funding Organization	Location	Grant Number
Department of Biotechnology (DBT, India)	India	BT/PR5236/MED/29/504/2012

Revision History (Full details and data files)

Version 1.0: 2023-08-02
Type: Initial release
Version 1.1: 2026-03-04
Changes: Data collection, Refinement description, Structure summary

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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.