7VLM | pdb_00007vlm

crystal structure of anti-CRISPR protein AcrIIA18

• PDB DOI: https://doi.org/10.2210/pdb7VLM/pdb

• Classification: RNA BINDING PROTEIN
• Organism(s): Streptococcus macedonicus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2021-10-04 Released: 2021-12-01 
• Deposition Author(s): Zhang, H., Wang, X.S., Li, X.Z.
• Funding Organization(s): Other government

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.38 Å
• R-Value Free: 
  0.202 (Depositor), 0.200 (DCC) 
• R-Value Work: 
  0.182 (Depositor), 0.180 (DCC) 
• R-Value Observed: 
  0.183 (Depositor) 

Literature

Inhibition mechanisms of CRISPR-Cas9 by AcrIIA17 and AcrIIA18

Wang, X., Li, X., Ma, Y., He, J., Liu, X., Yu, G., Yin, H., Zhang, H.

(2022) Nucleic Acids Res 50: 512-521

• DOI: https://doi.org/10.1093/nar/gkab1197

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: equilibrium centrifugation

Macromolecule Content

• Total Structure Weight: 21.61 kDa 
• Atom Count: 1,692 
• Modelled Residue Count: 177 
• Deposited Residue Count: 182 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
H2C7	A	182	Streptococcus macedonicus	Mutation(s): 0  Gene Names: CS010_10295
UniProt
Find proteins for A0A2G3NPZ8 (Streptococcus macedonicus) Explore A0A2G3NPZ8  Go to UniProtKB:  A0A2G3NPZ8

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PEG	C [auth A], D [auth A], F [auth A]	DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N
ACT	B [auth A], E [auth A]	ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M
MG	G [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.38 Å
• R-Value Free:  0.202 (Depositor), 0.200 (DCC) 
• R-Value Work:  0.182 (Depositor), 0.180 (DCC) 
• R-Value Observed: 0.183 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 105.371	α = 90
b = 32.405	β = 120.366
c = 62.594	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
PHENIX	phasing
PHENIX	model building
Coot	model building
HKL-3000	data scaling
HKL-3000	data reduction

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2021-12-01 
Deposition Author(s): Zhang, H., Wang, X.S., Li, X.Z.

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Funding Organization	Location	Grant Number
Other government		--

Revision History  

• Version 1.0: 2021-12-01
  Type: Initial release
  
• Version 1.1: 2021-12-15
  Changes: Database references, Structure summary
• Version 1.2: 2023-07-05
  Changes: Database references
• Version 1.3: 2024-10-30
  Changes: Data collection, Structure summary