8ZBC | pdb_00008zbc

An acyltransferase with selective perhydrolytic activity

PDB DOI: https://doi.org/10.2210/pdb8ZBC/pdb

Classification: HYDROLASE
Organism(s): Pelagibius litoralis
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2024-04-26 Released: 2025-04-30
Deposition Author(s): Yin, Z., Jing, W.
Funding Organization(s): Other private

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.97 Å
R-Value Free:
0.239 (Depositor), 0.243 (DCC)
R-Value Work:
0.209 (Depositor), 0.214 (DCC)
R-Value Observed:
0.210 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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

Literature

An acyltransferase with selective perhydrolytic activity

Yin, Z., Jing, W.

To be published.

Macromolecule Content

Total Structure Weight: 150.17 kDa
Atom Count: 10,071
Modeled Residue Count: 1,336
Deposited Residue Count: 1,398
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
SGNH/GDSL hydrolase family protein	A, B, C, D, E A, B, C, D, E, F	233	Pelagibius litoralis	Mutation(s): 0 Gene Names: HBA54_08925
UniProt
Find proteins for A0A967CBZ5 (Pelagibius litoralis) Explore A0A967CBZ5 Go to UniProtKB: A0A967CBZ5
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A0A967CBZ5
Sequence Annotations Expand
Reference Sequence

Small Molecules

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
SEP Query on SEP	A, B, C, D, E A, B, C, D, E, F	L-PEPTIDE LINKING	C₃ H₈ N O₆ P		SER

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.97 Å
R-Value Free: 0.239 (Depositor), 0.243 (DCC)
R-Value Work: 0.209 (Depositor), 0.214 (DCC)
R-Value Observed: 0.210 (Depositor)

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 131.75	α = 90
b = 165.35	β = 90
c = 150.46	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
xia2	data scaling
PHENIX	phasing

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2025-04-30

Deposition Author(s):

Funding Organization	Location	Grant Number
Other private		--

Revision History (Full details and data files)

Version 1.0: 2025-04-30
Type: Initial release

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.