9BI7 | pdb_00009bi7

YqiA, Klebsiella pneumoniae serine hydrolase, unbound

• PDB DOI: https://doi.org/10.2210/pdb9BI7/pdb

• Classification: HYDROLASE
• Organism(s): Klebsiella pneumoniae
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2024-04-22 Released: 2025-05-07 
• Deposition Author(s): Randall, G.T., Fellner, M.
• Funding Organization(s): MBIE China-MWC Collaboration

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free: 
  0.213 (Depositor), 0.212 (DCC) 
• R-Value Work: 
  0.175 (Depositor), 0.173 (DCC) 
• R-Value Observed: 
  0.177 (Depositor) 

Starting Model: in silico

Literature

YqiA, Klebsiella pneumoniae serine hydrolase, unbound

Randall, G.T., Fellner, M.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 21.82 kDa 
• Atom Count: 1,651 
• Modeled Residue Count: 192 
• Deposited Residue Count: 194 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Esterase	A	194	Klebsiella pneumoniae	Mutation(s): 0  Gene Names:  yqiA, B5L96_16095, B6I68_11455, BANRA_00684, BB784_03840, BL124_00019630, CK244_014295, DL426_23790, DW281_23375, EAO17_10155, FXN67_07320, G4V31_19105, G7Z27_03770, GJJ08_003500, GJJ13_003365, GJJ18_06885, GNF00_15605, GS419_03475, HJX03_03495, NCTC11679_00755, NCTC13443_06427, NCTC13635_02885, NCTC5047_02742, NCTC5052_03996, NCTC8849_05396, NCTC9601_00008, NCTC9637_01258, NCTC9645_02747, NCTC9661_01486, QIG75_16940, SAMEA3499874_00665, SAMEA3499901_04234, SAMEA3512100_04022, SAMEA3515122_03433, SAMEA3538658_02075, SAMEA3538828_03988, SAMEA3720909_03528, SAMEA4364603_00807, SAMEA4370542_02038, SAMEA4873597_05118, SAMEA4873632_04098, VKR_00711
UniProt
Find proteins for A0A0W8AWE3 (Klebsiella pneumoniae) Explore A0A0W8AWE3  Go to UniProtKB:  A0A0W8AWE3

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CA	B [auth A], C [auth A]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N
CL	D [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free:  0.213 (Depositor), 0.212 (DCC) 
• R-Value Work:  0.175 (Depositor), 0.173 (DCC) 
• R-Value Observed: 0.177 (Depositor) 

Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 62.459	α = 90
b = 62.459	β = 90
c = 80.361	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
Aimless	data scaling
XDS	data reduction
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-05-07 
Deposition Author(s): Randall, G.T., Fellner, M.

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Funding Organization	Location	Grant Number
MBIE China-MWC Collaboration	New Zealand	Nr.3720870

Revision History  

• Version 1.0: 2025-05-07
  Type: Initial release