7QFY | pdb_00007qfy

Fusarium oxysporum M36 protease without the propeptide

PDB DOI: https://doi.org/10.2210/pdb7QFY/pdb

Classification: RECOMBINATION
Organism(s): Fusarium oxysporum
Expression System: Komagataella pastoris
Mutation(s): No

Deposited: 2021-12-07 Released: 2022-12-21
Deposition Author(s): Wilkens, C., Qiu, J., Meyer, A.S., Morth, J.P.
Funding Organization(s): Chinese Scholarship Council, Technical University of Denmark (DTU)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.62 Å
R-Value Free:
0.173 (Depositor), 0.173 (DCC)
R-Value Work:
0.148 (Depositor), 0.148 (DCC)
R-Value Observed:
0.149 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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

Literature

Fusarium oxysporum M36 protease without the propeptide

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

To be published.

Macromolecule Content

Total Structure Weight: 42.54 kDa
Atom Count: 3,337
Modeled Residue Count: 388
Deposited Residue Count: 388
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Extracellular metalloproteinase	A	388	Fusarium oxysporum	Mutation(s): 0 Gene Names: krtC EC: 3.4.24
UniProt
Find proteins for M1UZ70 (Fusarium oxysporum) Explore M1UZ70 Go to UniProtKB: M1UZ70
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	M1UZ70
Glycosylation
Glycosylation Sites: 1	Glycosylation Focus chain A
Sequence Annotations Expand
Reference Sequence

Oligosaccharides

Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	B	2		N-Glycosylation	Interactions Focus chain B Interactions & Density Focus chain B
Glycosylation Resources
GlyTouCan: G42666HT GlyCosmos: G42666HT GlyGen: G42666HT

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
ZN (Subject of Investigation/LOI) Query on ZN Download:Ideal Coordinates CCD File SDF format, chain C [auth A] MOL2 format, chain C [auth A] mmCIF format, chain C [auth A]	C [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N		Interactions Focus chain C [auth A] Interactions & Density Focus chain C [auth A]
CA (Subject of Investigation/LOI) Query on CA Download:Ideal Coordinates CCD File SDF format, chain E [auth A] SDF format, chain D [auth A] MOL2 format, chain E [auth A] MOL2 format, chain D [auth A] mmCIF format, chain E [auth A] mmCIF format, chain D [auth A]	D [auth A], E [auth A]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N		Interactions Focus chain D [auth A] Focus chain E [auth A] Interactions & Density Focus chain D [auth A] Focus chain E [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.62 Å
R-Value Free: 0.173 (Depositor), 0.173 (DCC)
R-Value Work: 0.148 (Depositor), 0.148 (DCC)
R-Value Observed: 0.149 (Depositor)

Space Group: P 4₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 57.371	α = 90
b = 57.371	β = 90
c = 105.895	γ = 90

Software Package:

Software Name	Purpose
MxCuBE	data collection
autoPROC	data processing
Coot	model building
PHENIX	refinement
PHASER	phasing
Aimless	data scaling
XDS	data reduction

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2022-12-21

Deposition Author(s):

Funding Organization	Location	Grant Number
Chinese Scholarship Council	China	201806910049
Technical University of Denmark (DTU)	Denmark	--

Revision History (Full details and data files)

Version 1.0: 2022-12-21
Type: Initial release
Version 1.1: 2024-01-31
Changes: Data collection, Refinement description
Version 1.2: 2024-10-09
Changes: Structure summary

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.