7Z6T | pdb_00007z6t

Aspergillus clavatus M36 protease without the propeptide

PDB DOI: https://doi.org/10.2210/pdb7Z6T/pdb

Classification: PEPTIDE BINDING PROTEIN
Organism(s): Aspergillus clavatus
Expression System: Komagataella pastoris
Mutation(s): No

Deposited: 2022-03-14 Released: 2023-03-22
Deposition Author(s): Wilkens, C., Qiu, J., Meyer, A.S., Morth, J.P.
Funding Organization(s): Chinese Scholarship Council

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.51 Å
R-Value Free:
0.196 (Depositor), 0.171 (DCC)
R-Value Work:
0.177 (Depositor), 0.162 (DCC)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

This is version 1.2 of the entry. See complete history.

Literature

Aspergillus clavatus M36 protease without the propeptide

Wilkens, C., Qiu, J., Meyer, A.S., Morth, J.P.

To be published.

Macromolecule Content

Total Structure Weight: 45.57 kDa
Atom Count: 3,746
Modeled Residue Count: 388
Deposited Residue Count: 388
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Extracellular metalloproteinase mep	A [auth AAA]	388	Aspergillus clavatus	Mutation(s): 0 Gene Names: mep, ACLA_060300 EC: 3.4.24
UniProt
Find proteins for A1C4M2 (Aspergillus clavatus (strain ATCC 1007 / CBS 513.65 / DSM 816 / NCTC 3887 / NRRL 1 / QM 1276 / 107)) Explore A1C4M2 Go to UniProtKB: A1C4M2
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A1C4M2
Glycosylation
Glycosylation Sites: 1	Glycosylation Focus chain A [auth AAA]
Sequence Annotations Expand
Reference Sequence

Oligosaccharides

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Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	D Interactions
alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-2)-[alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	B [auth AaA]	7		N-Glycosylation	Interactions Focus chain B [auth AaA] Interactions & Density Focus chain B [auth AaA]

Entity ID: 3
Molecule	Chains	Length	2D Diagram	Glycosylation	D Interactions
beta-D-mannopyranose-(1-3)-D-mannose	C [auth AuA]	2		N/A	Interactions Focus chain C [auth AuA] Interactions & Density Focus chain C [auth AuA]

Small Molecules

Ligands 5 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
SO4 (Subject of Investigation/LOI) Query on SO4 Download:Ideal Coordinates CCD File SDF format, chain S [auth AAA] SDF format, chain T [auth AAA] SDF format, chain U [auth AAA] SDF format, chain V [auth AAA] SDF format, chain W [auth AAA] MOL2 format, chain S [auth AAA] MOL2 format, chain T [auth AAA] MOL2 format, chain U [auth AAA] MOL2 format, chain V [auth AAA] MOL2 format, chain W [auth AAA] mmCIF format, chain S [auth AAA] mmCIF format, chain T [auth AAA] mmCIF format, chain U [auth AAA] mmCIF format, chain V [auth AAA] mmCIF format, chain W [auth AAA]	S [auth AAA], T [auth AAA], U [auth AAA], V [auth AAA], W [auth AAA]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain S [auth AAA] Focus chain T [auth AAA] Focus chain U [auth AAA] Focus chain V [auth AAA] Focus chain W [auth AAA] Interactions & Density Focus chain S [auth AAA] Focus chain T [auth AAA] Focus chain U [auth AAA] Focus chain V [auth AAA] Focus chain W [auth AAA]
ZN (Subject of Investigation/LOI) Query on ZN Download:Ideal Coordinates CCD File SDF format, chain Q [auth AAA] MOL2 format, chain Q [auth AAA] mmCIF format, chain Q [auth AAA]	Q [auth AAA]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N		Interactions Focus chain Q [auth AAA] Interactions & Density Focus chain Q [auth AAA]
EDO (Subject of Investigation/LOI) Query on EDO Download:Ideal Coordinates CCD File SDF format, chain D [auth AAA] SDF format, chain E [auth AAA] SDF format, chain F [auth AAA] SDF format, chain G [auth AAA] SDF format, chain H [auth AAA] SDF format, chain I [auth AAA] SDF format, chain J [auth AAA] SDF format, chain K [auth AAA] SDF format, chain L [auth AAA] SDF format, chain M [auth AAA] SDF format, chain N [auth AAA] SDF format, chain O [auth AAA] SDF format, chain P [auth AAA] MOL2 format, chain D [auth AAA] MOL2 format, chain E [auth AAA] MOL2 format, chain F [auth AAA] MOL2 format, chain G [auth AAA] MOL2 format, chain H [auth AAA] MOL2 format, chain I [auth AAA] MOL2 format, chain J [auth AAA] MOL2 format, chain K [auth AAA] MOL2 format, chain L [auth AAA] MOL2 format, chain M [auth AAA] MOL2 format, chain N [auth AAA] MOL2 format, chain O [auth AAA] MOL2 format, chain P [auth AAA] mmCIF format, chain D [auth AAA] mmCIF format, chain E [auth AAA] mmCIF format, chain F [auth AAA] mmCIF format, chain G [auth AAA] mmCIF format, chain H [auth AAA] mmCIF format, chain I [auth AAA] mmCIF format, chain J [auth AAA] mmCIF format, chain K [auth AAA] mmCIF format, chain L [auth AAA] mmCIF format, chain M [auth AAA] mmCIF format, chain N [auth AAA] mmCIF format, chain O [auth AAA] mmCIF format, chain P [auth AAA]	D [auth AAA] E [auth AAA] F [auth AAA] G [auth AAA] H [auth AAA] D [auth AAA], E [auth AAA], F [auth AAA], G [auth AAA], H [auth AAA], I [auth AAA], J [auth AAA], K [auth AAA], L [auth AAA], M [auth AAA], N [auth AAA], O [auth AAA], P [auth AAA]	1,2-ETHANEDIOL C₂ H₆ O₂ LYCAIKOWRPUZTN-UHFFFAOYSA-N		Interactions Focus chain D [auth AAA] Focus chain E [auth AAA] Focus chain F [auth AAA] Focus chain G [auth AAA] Focus chain H [auth AAA] Focus chain I [auth AAA] Focus chain J [auth AAA] Focus chain K [auth AAA] Focus chain L [auth AAA] Focus chain M [auth AAA] Focus chain N [auth AAA] Focus chain O [auth AAA] Focus chain P [auth AAA] Interactions & Density Focus chain D [auth AAA] Focus chain E [auth AAA] Focus chain F [auth AAA] Focus chain G [auth AAA] Focus chain H [auth AAA] Focus chain I [auth AAA] Focus chain J [auth AAA] Focus chain K [auth AAA] Focus chain L [auth AAA] Focus chain M [auth AAA] Focus chain N [auth AAA] Focus chain O [auth AAA] Focus chain P [auth AAA]
CA (Subject of Investigation/LOI) Query on CA Download:Ideal Coordinates CCD File SDF format, chain R [auth AAA] MOL2 format, chain R [auth AAA] mmCIF format, chain R [auth AAA]	R [auth AAA]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N		Interactions Focus chain R [auth AAA] Interactions & Density Focus chain R [auth AAA]
NA (Subject of Investigation/LOI) Query on NA Download:Ideal Coordinates CCD File SDF format, chain X [auth AAA] MOL2 format, chain X [auth AAA] mmCIF format, chain X [auth AAA]	X [auth AAA]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N		Interactions Focus chain X [auth AAA] Interactions & Density Focus chain X [auth AAA]