7ALX

Sav-SOD: Chimeric Streptavidin-cSOD as Host for Artificial Metalloenzymes

PDB DOI: https://doi.org/10.2210/pdb7ALX/pdb

Classification: METAL BINDING PROTEIN
Organism(s): Streptomyces avidinii, Mycobacterium tuberculosis variant bovis AF2122/97
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2020-10-07 Released: 2021-07-14
Deposition Author(s): Igareta, N.V., Christoffel, F., Peterson, R.L., Ward, T.R.
Funding Organization(s): Swiss National Science Foundation, European Research Council (ERC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free: 0.218
R-Value Work: 0.179

wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

This is version 2.1 of the entry. See complete history.

Literature

Design and evolution of chimeric streptavidin for protein-enabled dual gold catalysis

Christoffel, F., Igareta, N.V., Pellizzoni, M.M., Tiessler-Sala, L., Lozhkin, B., Spiess, D.C., Lledos, A., Marechal, J.D., Peterson, R.L., Ward, T.R.

(2021) Nat Catal 4: 643-653

DOI: https://doi.org/10.1038/s41929-021-00651-9

Macromolecule Content

Total Structure Weight: 41.66 kDa
Atom Count: 2,086
Modelled Residue Count: 249
Deposited Residue Count: 388
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Streptavidin,Superoxide dismutase [Cu-Zn],Streptavidin	A [auth AAA], B [auth BBB]	194	Streptomyces avidinii, Mycobacterium tuberculosis variant bovis AF2122/97	Mutation(s): 1 EC: 1.15.1.1
UniProt
Find proteins for P22629 (Streptomyces avidinii) Explore P22629 Go to UniProtKB: P22629
Find proteins for P0A609 (Mycobacterium bovis (strain ATCC BAA-935 / AF2122/97)) Explore P0A609 Go to UniProtKB: P0A609
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Groups	P22629P0A609
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
UFW (Subject of Investigation/LOI) Query on UFW Download Ideal Coordinates CCD File SDF format, chain C [auth AAA] SDF format, chain D [auth BBB] MOL2 format, chain C [auth AAA] MOL2 format, chain D [auth BBB]	C [auth AAA], D [auth BBB]	((4S)-1,3-dimesityl-4-((5-((3aS,4S,6aR)-2-oxohexahydro-1H-thieno[3,4-d]imidazol-4-yl)pentanamido)methyl)imidazolidin-2-yl)gold C₃₂ H₄₃ Au N₅ O₂ S MQANASQMIINTPK-INIVJQHFSA-N		Interactions Focus chain C [auth AAA] Focus chain D [auth BBB] Interactions & Density Focus chain C [auth AAA] Focus chain D [auth BBB]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free: 0.218
R-Value Work: 0.179
Space Group: P 4₂ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 102.525	α = 90
b = 102.525	β = 90
c = 59.077	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
PHASER	phasing
Aimless	data scaling

Structure Validation

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Ligand Structure Quality Assessment

Entry History & Funding Information

Deposition Data

Released Date: 2021-07-14

Deposition Author(s):

Funding Organization	Location	Grant Number
Swiss National Science Foundation	Switzerland	200020_182046
European Research Council (ERC)	Switzerland	694424

Revision History (Full details and data files)

Version 1.0: 2021-07-14
Type: Initial release
Version 2.0: 2021-11-17
Changes: Atomic model, Data collection, Database references
Version 2.1: 2024-01-31
Changes: Data collection, Derived calculations, Refinement description

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7ALX

Sav-SOD: Chimeric Streptavidin-cSOD as Host for Artificial Metalloenzymes

Design and evolution of chimeric streptavidin for protein-enabled dual gold catalysis

Entity ID: 1

UniProt

Entity Groups

Sequence Annotations

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Experimental Data

Structure Validation

Ligand Structure Quality Assessment

Deposition Data

Revision History (Full details and data files)