9ENN

L-amino acid oxidase 4 (HcLAAO4) from the fungus Hebeloma cylindrosporum in complex with N-epsilon-acetyl-L-lysine

PDB DOI: https://doi.org/10.2210/pdb9ENN/pdb

Classification: OXIDOREDUCTASE
Organism(s): Hebeloma cylindrosporum
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2024-03-13 Released: 2024-08-14
Deposition Author(s): Gilzer, D., Koopmeiners, S., Fischer von Mollard, G., Niemann, H.H.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free: 0.177
R-Value Work: 0.154
R-Value Observed: 0.155

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

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

Literature

Crystal structure and enzyme engineering of the broad substrate spectrum L-amino acid oxidase 4 from the fungus Hebeloma cylindrosporum

Koopmeiners, S., Gilzer, D., Widmann, C., Berelsmann, N., Spross, J., Niemann, H.H., Fischer von Mollard, G.

To be published.

Macromolecule Content

Total Structure Weight: 258.45 kDa
Atom Count: 19,083
Modelled Residue Count: 2,134
Deposited Residue Count: 2,248
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
L-amino acid oxidase 4	A, B, C, D	562	Hebeloma cylindrosporum	Mutation(s): 2 EC: 1.4.3.2
UniProt
Find proteins for S4S6Z0 (Hebeloma cylindrosporum) Explore S4S6Z0 Go to UniProtKB: S4S6Z0
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	S4S6Z0
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 5 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
FDA (Subject of Investigation/LOI) Query on FDA Download Ideal Coordinates CCD File SDF format, chain E [auth A] SDF format, chain FB [auth D] SDF format, chain LA [auth C] SDF format, chain U [auth B] MOL2 format, chain E [auth A] MOL2 format, chain FB [auth D] MOL2 format, chain LA [auth C] MOL2 format, chain U [auth B]	E [auth A], FB [auth D], LA [auth C], U [auth B]	DIHYDROFLAVINE-ADENINE DINUCLEOTIDE C₂₇ H₃₅ N₉ O₁₅ P₂ YPZRHBJKEMOYQH-UYBVJOGSSA-N		Interactions Focus chain E [auth A] Focus chain FB [auth D] Focus chain LA [auth C] Focus chain U [auth B]
ALY (Subject of Investigation/LOI) Query on ALY Download Ideal Coordinates CCD File SDF format, chain F [auth A] SDF format, chain GB [auth D] SDF format, chain MA [auth C] SDF format, chain V [auth B] MOL2 format, chain F [auth A] MOL2 format, chain GB [auth D] MOL2 format, chain MA [auth C] MOL2 format, chain V [auth B]	F [auth A], GB [auth D], MA [auth C], V [auth B]	N(6)-ACETYLLYSINE C₈ H₁₆ N₂ O₃ DTERQYGMUDWYAZ-ZETCQYMHSA-N		Interactions Focus chain F [auth A] Focus chain GB [auth D] Focus chain MA [auth C] Focus chain V [auth B]
SO4 Query on SO4 Download Ideal Coordinates CCD File SDF format, chain AA [auth B] SDF format, chain AB [auth C] SDF format, chain BA [auth B] SDF format, chain CA [auth B] SDF format, chain DA [auth B] SDF format, chain EA [auth B] SDF format, chain FA [auth B] SDF format, chain G [auth A] SDF format, chain GA [auth B] SDF format, chain H [auth A] SDF format, chain HA [auth B] SDF format, chain HB [auth D] SDF format, chain I [auth A] SDF format, chain IB [auth D] SDF format, chain J [auth A] SDF format, chain JB [auth D] SDF format, chain K [auth A] SDF format, chain KB [auth D] SDF format, chain L [auth A] SDF format, chain LB [auth D] SDF format, chain M [auth A] SDF format, chain MB [auth D] SDF format, chain N [auth A] SDF format, chain NA [auth C] SDF format, chain NB [auth D] SDF format, chain O [auth A] SDF format, chain OA [auth C] SDF format, chain OB [auth D] SDF format, chain PA [auth C] SDF format, chain PB [auth D] SDF format, chain QA [auth C] SDF format, chain QB [auth D] SDF format, chain RA [auth C] SDF format, chain RB [auth D] SDF format, chain SA [auth C] SDF format, chain SB [auth D] SDF format, chain TA [auth C] SDF format, chain TB [auth D] SDF format, chain UA [auth C] SDF format, chain VA [auth C] SDF format, chain W [auth B] SDF format, chain WA [auth C] SDF format, chain X [auth B] SDF format, chain XA [auth C] SDF format, chain Y [auth B] SDF format, chain YA [auth C] SDF format, chain Z [auth B] SDF format, chain ZA [auth C] MOL2 format, chain AA [auth B] MOL2 format, chain AB [auth C] MOL2 format, chain BA [auth B] MOL2 format, chain CA [auth B] MOL2 format, chain DA [auth B] MOL2 format, chain EA [auth B] MOL2 format, chain FA [auth B] MOL2 format, chain G [auth A] MOL2 format, chain GA [auth B] MOL2 format, chain H [auth A] MOL2 format, chain HA [auth B] MOL2 format, chain HB [auth D] MOL2 format, chain I [auth A] MOL2 format, chain IB [auth D] MOL2 format, chain J [auth A] MOL2 format, chain JB [auth D] MOL2 format, chain K [auth A] MOL2 format, chain KB [auth D] MOL2 format, chain L [auth A] MOL2 format, chain LB [auth D] MOL2 format, chain M [auth A] MOL2 format, chain MB [auth D] MOL2 format, chain N [auth A] MOL2 format, chain NA [auth C] MOL2 format, chain NB [auth D] MOL2 format, chain O [auth A] MOL2 format, chain OA [auth C] MOL2 format, chain OB [auth D] MOL2 format, chain PA [auth C] MOL2 format, chain PB [auth D] MOL2 format, chain QA [auth C] MOL2 format, chain QB [auth D] MOL2 format, chain RA [auth C] MOL2 format, chain RB [auth D] MOL2 format, chain SA [auth C] MOL2 format, chain SB [auth D] MOL2 format, chain TA [auth C] MOL2 format, chain TB [auth D] MOL2 format, chain UA [auth C] MOL2 format, chain VA [auth C] MOL2 format, chain W [auth B] MOL2 format, chain WA [auth C] MOL2 format, chain X [auth B] MOL2 format, chain XA [auth C] MOL2 format, chain Y [auth B] MOL2 format, chain YA [auth C] MOL2 format, chain Z [auth B] MOL2 format, chain ZA [auth C]	AA [auth B] AB [auth C] BA [auth B] CA [auth B] DA [auth B] AA [auth B], AB [auth C], BA [auth B], CA [auth B], DA [auth B], EA [auth B], FA [auth B], G [auth A], GA [auth B], H [auth A], HA [auth B], HB [auth D], I [auth A], IB [auth D], J [auth A], JB [auth D], K [auth A], KB [auth D], L [auth A], LB [auth D], M [auth A], MB [auth D], N [auth A], NA [auth C], NB [auth D], O [auth A], OA [auth C], OB [auth D], PA [auth C], PB [auth D], QA [auth C], QB [auth D], RA [auth C], RB [auth D], SA [auth C], SB [auth D], TA [auth C], TB [auth D], UA [auth C], VA [auth C], W [auth B], WA [auth C], X [auth B], XA [auth C], Y [auth B], YA [auth C], Z [auth B], ZA [auth C]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain AA [auth B] Focus chain AB [auth C] Focus chain BA [auth B] Focus chain CA [auth B] Focus chain DA [auth B] Focus chain EA [auth B] Focus chain FA [auth B] Focus chain G [auth A] Focus chain GA [auth B] Focus chain H [auth A] Focus chain HA [auth B] Focus chain HB [auth D] Focus chain I [auth A] Focus chain IB [auth D] Focus chain J [auth A] Focus chain JB [auth D] Focus chain K [auth A] Focus chain KB [auth D] Focus chain L [auth A] Focus chain LB [auth D] Focus chain M [auth A] Focus chain MB [auth D] Focus chain N [auth A] Focus chain NA [auth C] Focus chain NB [auth D] Focus chain O [auth A] Focus chain OA [auth C] Focus chain OB [auth D] Focus chain PA [auth C] Focus chain PB [auth D] Focus chain QA [auth C] Focus chain QB [auth D] Focus chain RA [auth C] Focus chain RB [auth D] Focus chain SA [auth C] Focus chain SB [auth D] Focus chain TA [auth C] Focus chain TB [auth D] Focus chain UA [auth C] Focus chain VA [auth C] Focus chain W [auth B] Focus chain WA [auth C] Focus chain X [auth B] Focus chain XA [auth C] Focus chain Y [auth B] Focus chain YA [auth C] Focus chain Z [auth B] Focus chain ZA [auth C]
PGO Query on PGO Download Ideal Coordinates CCD File SDF format, chain EB [auth C] SDF format, chain IA [auth B] SDF format, chain Q [auth A] SDF format, chain S [auth A] SDF format, chain UB [auth D] MOL2 format, chain EB [auth C] MOL2 format, chain IA [auth B] MOL2 format, chain Q [auth A] MOL2 format, chain S [auth A] MOL2 format, chain UB [auth D]	EB [auth C], IA [auth B], Q [auth A], S [auth A], UB [auth D]	S-1,2-PROPANEDIOL C₃ H₈ O₂ DNIAPMSPPWPWGF-VKHMYHEASA-N		Interactions Focus chain EB [auth C] Focus chain IA [auth B] Focus chain Q [auth A] Focus chain S [auth A] Focus chain UB [auth D]
PGR Query on PGR Download Ideal Coordinates CCD File SDF format, chain BB [auth C] SDF format, chain CB [auth C] SDF format, chain DB [auth C] SDF format, chain JA [auth B] SDF format, chain KA [auth B] SDF format, chain P [auth A] SDF format, chain R [auth A] SDF format, chain T [auth A] SDF format, chain VB [auth D] SDF format, chain WB [auth D] MOL2 format, chain BB [auth C] MOL2 format, chain CB [auth C] MOL2 format, chain DB [auth C] MOL2 format, chain JA [auth B] MOL2 format, chain KA [auth B] MOL2 format, chain P [auth A] MOL2 format, chain R [auth A] MOL2 format, chain T [auth A] MOL2 format, chain VB [auth D] MOL2 format, chain WB [auth D]	BB [auth C] CB [auth C] DB [auth C] JA [auth B] KA [auth B] BB [auth C], CB [auth C], DB [auth C], JA [auth B], KA [auth B], P [auth A], R [auth A], T [auth A], VB [auth D], WB [auth D]	R-1,2-PROPANEDIOL C₃ H₈ O₂ DNIAPMSPPWPWGF-GSVOUGTGSA-N		Interactions Focus chain BB [auth C] Focus chain CB [auth C] Focus chain DB [auth C] Focus chain JA [auth B] Focus chain KA [auth B] Focus chain P [auth A] Focus chain R [auth A] Focus chain T [auth A] Focus chain VB [auth D] Focus chain WB [auth D]