6QOY

Crystal structure of L1 protease Lysobacter sp. XL1 in complex with AEBSF

PDB DOI: 10.2210/pdb6QOY/pdb

Classification: HYDROLASE
Organism(s): Lysobacter sp. XL1
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2019-02-13 Released: 2019-12-25
Deposition Author(s): Gabdulkhakov, A., Tishchenko, S., Kudryakova, I., Afoshin, A., Vasilyeva, N.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.90 Å
R-Value Free: 0.240
R-Value Work: 0.200
R-Value Observed: 0.202

wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

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

Literature

Serine bacteriolytic protease L1 of Lysobacter sp. XL1 complexed with protease inhibitor AEBSF: features of interaction

Kudryakova, I., Gabdulkhakov, A., Tishchenko, S., Afoshin, A., Vasilyeva, N.

(2019) Process Biochem

DOI: 10.1016/j.procbio.2019.02.013

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Lytic endopeptidase preproenzyme	A, B, C, D	199	Lysobacter sp. XL1	Mutation(s): 0 Gene Names: alpA
UniProt
Find proteins for D2K8B3 (Lysobacter sp. (strain XL1)) Explore D2K8B3 Go to UniProtKB: D2K8B3
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	D2K8B3
Protein Feature View Expand
Reference Sequence

Small Molecules

Ligands 7 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
AES Query on AES Download Ideal Coordinates CCD File SDF format, chain BA [auth D] SDF format, chain H [auth A] SDF format, chain M [auth B] SDF format, chain U [auth C] MOL2 format, chain BA [auth D] MOL2 format, chain H [auth A] MOL2 format, chain M [auth B] MOL2 format, chain U [auth C]	BA [auth D], H [auth A], M [auth B], U [auth C]	4-(2-AMINOETHYL)BENZENESULFONYL FLUORIDE C₈ H₁₀ F N O₂ S MGSKVZWGBWPBTF-UHFFFAOYSA-N		Ligand Interaction
JAT Query on JAT Download Ideal Coordinates CCD File SDF format, chain CA [auth D] SDF format, chain N [auth B] SDF format, chain V [auth C] MOL2 format, chain CA [auth D] MOL2 format, chain N [auth B] MOL2 format, chain V [auth C]	CA [auth D], N [auth B], V [auth C]	4-(2-azanylethyl)benzenesulfonic acid C₈ H₁₁ N O₃ S RYBFWJVHZIKGQJ-UHFFFAOYSA-N		Ligand Interaction
PGE Query on PGE Download Ideal Coordinates CCD File SDF format, chain K [auth A] MOL2 format, chain K [auth A]	K [auth A]	TRIETHYLENE GLYCOL C₆ H₁₄ O₄ ZIBGPFATKBEMQZ-UHFFFAOYSA-N		Ligand Interaction
PEG Query on PEG Download Ideal Coordinates CCD File SDF format, chain R [auth B] SDF format, chain Y [auth C] SDF format, chain Q [auth B] MOL2 format, chain R [auth B] MOL2 format, chain Y [auth C] MOL2 format, chain Q [auth B]	Q [auth B], R [auth B], Y [auth C]	DI(HYDROXYETHYL)ETHER C₄ H₁₀ O₃ MTHSVFCYNBDYFN-UHFFFAOYSA-N		Ligand Interaction
SO4 Query on SO4 Download Ideal Coordinates CCD File SDF format, chain E [auth A] SDF format, chain F [auth A] SDF format, chain G [auth A] SDF format, chain L [auth B] SDF format, chain S [auth B] SDF format, chain T [auth C] SDF format, chain Z [auth D] SDF format, chain AA [auth D] MOL2 format, chain E [auth A] MOL2 format, chain F [auth A] MOL2 format, chain G [auth A] MOL2 format, chain L [auth B] MOL2 format, chain S [auth B] MOL2 format, chain T [auth C] MOL2 format, chain Z [auth D] MOL2 format, chain AA [auth D]	AA [auth D], E [auth A], F [auth A], G [auth A], L [auth B], AA [auth D], E [auth A], F [auth A], G [auth A], L [auth B], S [auth B], T [auth C], Z [auth D]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Ligand Interaction
GOL Query on GOL Download Ideal Coordinates CCD File SDF format, chain DA [auth D] SDF format, chain I [auth A] SDF format, chain J [auth A] SDF format, chain P [auth B] SDF format, chain X [auth C] MOL2 format, chain DA [auth D] MOL2 format, chain I [auth A] MOL2 format, chain J [auth A] MOL2 format, chain P [auth B] MOL2 format, chain X [auth C]	DA [auth D], I [auth A], J [auth A], P [auth B], X [auth C]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Ligand Interaction
CL Query on CL Download Ideal Coordinates CCD File SDF format, chain O [auth B] SDF format, chain W [auth C] MOL2 format, chain O [auth B] MOL2 format, chain W [auth C]	O [auth B], W [auth C]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M		Ligand Interaction