Macromolecule Content

Total Structure Weight: 103973.34
Atom Count: 6858
Residue Count: 972
Unique protein chains: 1

6BM9

Directed evolutionary changes in MBL super family - VIM-2 Round 10

DOI: 10.2210/pdb6BM9/pdb

Classification: HYDROLASE
Organism(s): Escherichia coli

Deposited: 2017-11-13 Released: 2018-11-21
Deposition Author(s): Hong, N.-S., Jackson, C.J., Carr, P.D.
Funding Organization(s): null

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.19 Å
R-Value Free: 0.267
R-Value Work: 0.221

wwPDB Validation3D Report Full Report

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

Literature

Cryptic genetic variation defines the adaptive evolutionary potential of enzymes

Baier, F., Hong, N.-S., Yang, G., Carr, P.D., Jackson, C., Tokuriki, N., Pavis, A., Barroz, A., Kamerlin, C.L.

To be published.

Macromolecules

Find similar proteins by: Sequence | Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Metallo-beta-lactamase	A, B, C, D	243	Escherichia coli	Mutation(s): 0 Gene Names: blaVIM-2
Find proteins for Q5U7L7 (Escherichia coli) Go to UniProtKB: Q5U7L7
Protein Feature View Full Protein Feature View for Q5U7L7

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions	3D Interactions
ZN Query on ZN Download SDF File Download CCD File	A, B, C, D	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N		Ligand Interaction
GOL Query on GOL Download SDF File Download CCD File	B, C	GLYCEROL GLYCERIN; PROPANE-1,2,3-TRIOL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Ligand Interaction

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.19 Å
R-Value Free: 0.267
R-Value Work: 0.221
Space Group: C 1 2 1

Unit Cell:

Length (Å)	Angle (°)
a = 128.596	α = 90.00
b = 41.672	β = 99.41
c = 156.764	γ = 90.00

Software Package:

Software Name	Purpose
PHENIX	refinement
MOLREP	phasing
Aimless	data scaling
XDS	data reduction

Structure Validation

View Full Validation Report or Ramachandran Plots

Entry History & Funding Information

Deposition Data

Deposited Date: 2017-11-13
Released Date: 2018-11-21
Deposition Author(s): Hong, N.-S., Jackson, C.J., Carr, P.D.

Funding Organization	Location	Grant Number
	Australia	--

Revision History

Version 1.0: 2018-11-21
Type: Initial release

The RCSB PDB is funded by a grant (DBI-1338415) from the National Science Foundation, the National Institutes of Health, and the US Department of Energy.