32YE | pdb_000032ye

Kineococcus siccus GH5_7 Mannanase, AMPD bound

• PDB DOI: https://doi.org/10.2210/pdb32YE/pdb

• Classification: HYDROLASE
• Organism(s): Kineococcus siccus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2026-07-30 Released: 2026-11-04 
• Deposition Author(s): Bloch, Y.
• Funding Organization(s): H2020 Marie Curie Actions of the European Commission

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.42 Å
• R-Value Free: 
  0.157 (Depositor), 0.157 (DCC) 
• R-Value Work: 
  0.131 (Depositor), 0.131 (DCC) 

Starting Model: in silico

Literature

Defining Glycosyl Hydrolase Family 5_7 mannan interaction through the identification and structural characterization of two Actinobacteria mannanases.

Bloch, Y.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 46.45 kDa 
• Atom Count: 3,683 
• Modeled Residue Count: 371 
• Deposited Residue Count: 412 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Mannan endo-1,4-beta-mannosidase	A	412	Kineococcus siccus	Mutation(s): 0  EC: 3.2.1.78

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
A1KFQ (Subject of Investigation/LOI)	F [auth A]	2-azanyl-2-methyl-propane-1,3-diol C4 H11 N O2 UXFQFBNBSPQBJW-UHFFFAOYSA-N
9JE	C [auth A], D [auth A]	pentane-1,5-diol C5 H12 O2 ALQSHHUCVQOPAS-UHFFFAOYSA-N
EDO	B [auth A], E [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.42 Å
• R-Value Free:  0.157 (Depositor), 0.157 (DCC) 
• R-Value Work:  0.131 (Depositor), 0.131 (DCC) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 48.946	α = 90
b = 76.157	β = 90
c = 101.47	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XDS	data scaling
PHASER	phasing

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2026-11-04 
Deposition Author(s): Bloch, Y.

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Funding Organization	Location	Grant Number
H2020 Marie Curie Actions of the European Commission	European Union	945405

Revision History  

• Version 1.0: 2026-11-04
  Type: Initial release