Macromolecule Content

Total Structure Weight: 26.59 kDa
Atom Count: 2,131
Modelled Residue Count: 231
Deposited Residue Count: 246
Unique protein chains: 1

7UYB

Inhibitor bound VIM1

PDB DOI: https://doi.org/10.2210/pdb7UYB/pdb

Classification: HYDROLASE
Organism(s): Pseudomonas aeruginosa
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2022-05-06 Released: 2023-05-24
Deposition Author(s): Fischmann, T.O., Scapin, G.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.11 Å
R-Value Free: 0.166
R-Value Work: 0.155
R-Value Observed: 0.156

wwPDB Validation 3D Report Full Report

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

Literature

Inhibitor bound VIM1

Fischmann, T.O., Scapin, G.

To be published.

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Beta-lactamase VIM-1	A	246	Pseudomonas aeruginosa	Mutation(s): 0 Gene Names: blaVIM, blaVIM-1, CAZ10_38240, CAZ10_38245
UniProt
Find proteins for Q9XAY4 (Pseudomonas aeruginosa) Explore Q9XAY4 Go to UniProtKB: Q9XAY4
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q9XAY4
Protein Feature View Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
OK0 (Subject of Investigation/LOI) Query on OK0 Download Ideal Coordinates CCD File SDF format, chain D [auth A] MOL2 format, chain D [auth A]	D [auth A]	(2M)-4'-(piperidin-4-yl)-2-(1H-tetrazol-5-yl)-4-(trifluoromethyl)[1,1'-biphenyl]-3-sulfonamide C₁₉ H₁₉ F₃ N₆ O₂ S IVCVEUVKOPZGEI-UHFFFAOYSA-N		Ligand Interaction
ZN Query on ZN Download Ideal Coordinates CCD File SDF format, chain B [auth A] SDF format, chain C [auth A] MOL2 format, chain B [auth A] MOL2 format, chain C [auth A]	B [auth A], C [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N		Ligand Interaction

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.11 Å
R-Value Free: 0.166
R-Value Work: 0.155
R-Value Observed: 0.156
Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 39.601	α = 90
b = 67.812	β = 91.61
c = 40.177	γ = 90

Software Package:

Software Name	Purpose
BUSTER	refinement
XDS	data reduction
Aimless	data scaling
PDB_EXTRACT	data extraction
BUSTER	phasing

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2023-05-24

Deposition Author(s):

Fischmann, T.O.

Funding Organization	Location	Grant Number
Not funded		--

Revision History (Full details and data files)

Version 1.0: 2023-05-24
Type: Initial release

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.