7CI1 | pdb_00007ci1

Crystal structure of AcrVA2

PDB DOI: https://doi.org/10.2210/pdb7CI1/pdb

Classification: HYDROLASE INHIBITOR
Organism(s): Moraxella bovoculi
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2020-07-07 Released: 2020-10-14
Deposition Author(s): Chen, P., Cheng, Z., Wang, Y.
Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.30 Å
R-Value Free:
0.251 (Depositor), 0.252 (DCC)
R-Value Work:
0.229 (Depositor), 0.230 (DCC)
R-Value Observed:
0.230 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 7CI1

This is version 1.5 of the entry. See complete history.

Literature

Structural Study on Anti-CRISPR Protein AcrVA2

Chen, P., Sun, W., Cheng, Z., Yang, J., Wang, M., Wang, J., Chen, H., Liu, L., Wang, Y.

(2021) PROG BIOCHEM BIOPHYS

DOI: https://doi.org/10.16476/j.pibb.2020.0223

Macromolecule Content

Total Structure Weight: 74.75 kDa
Atom Count: 4,879
Modeled Residue Count: 591
Deposited Residue Count: 646
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
AcrVA2	A, B	323	Moraxella bovoculi	Mutation(s): 0
UniProt
Find proteins for A0A7M4DUH0 (Moraxella bovoculi) Explore A0A7M4DUH0 Go to UniProtKB: A0A7M4DUH0
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A7M4DUH0
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
SPD Query on SPD Download:Ideal Coordinates CCD File SDF format, chain C [auth A] SDF format, chain K [auth A] SDF format, chain L [auth B] MOL2 format, chain C [auth A] MOL2 format, chain K [auth A] MOL2 format, chain L [auth B] mmCIF format, chain C [auth A] mmCIF format, chain K [auth A] mmCIF format, chain L [auth B]	C [auth A], K [auth A], L [auth B]	SPERMIDINE C₇ H₁₉ N₃ ATHGHQPFGPMSJY-UHFFFAOYSA-N		Interactions Focus chain C [auth A] Focus chain K [auth A] Focus chain L [auth B] Interactions & Density Focus chain C [auth A] Focus chain K [auth A] Focus chain L [auth B]
EDO Query on EDO Download:Ideal Coordinates CCD File SDF format, chain D [auth A] SDF format, chain E [auth A] SDF format, chain F [auth A] SDF format, chain G [auth A] SDF format, chain H [auth A] SDF format, chain I [auth A] SDF format, chain J [auth A] SDF format, chain M [auth B] SDF format, chain N [auth B] MOL2 format, chain D [auth A] MOL2 format, chain E [auth A] MOL2 format, chain F [auth A] MOL2 format, chain G [auth A] MOL2 format, chain H [auth A] MOL2 format, chain I [auth A] MOL2 format, chain J [auth A] MOL2 format, chain M [auth B] MOL2 format, chain N [auth B] mmCIF format, chain D [auth A] mmCIF format, chain E [auth A] mmCIF format, chain F [auth A] mmCIF format, chain G [auth A] mmCIF format, chain H [auth A] mmCIF format, chain I [auth A] mmCIF format, chain J [auth A] mmCIF format, chain M [auth B] mmCIF format, chain N [auth B]	D [auth A] E [auth A] F [auth A] G [auth A] H [auth A] D [auth A], E [auth A], F [auth A], G [auth A], H [auth A], I [auth A], J [auth A], M [auth B], N [auth B]	1,2-ETHANEDIOL C₂ H₆ O₂ LYCAIKOWRPUZTN-UHFFFAOYSA-N		Interactions Focus chain D [auth A] Focus chain E [auth A] Focus chain F [auth A] Focus chain G [auth A] Focus chain H [auth A] Focus chain I [auth A] Focus chain J [auth A] Focus chain M [auth B] Focus chain N [auth B] Interactions & Density Focus chain D [auth A] Focus chain E [auth A] Focus chain F [auth A] Focus chain G [auth A] Focus chain H [auth A] Focus chain I [auth A] Focus chain J [auth A] Focus chain M [auth B] Focus chain N [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.30 Å
R-Value Free: 0.251 (Depositor), 0.252 (DCC)
R-Value Work: 0.229 (Depositor), 0.230 (DCC)
R-Value Observed: 0.230 (Depositor)

Space Group: P 6₅

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 84.287	α = 90
b = 84.287	β = 90
c = 264.171	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHASER	phasing

Structure Validation

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View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2020-10-14

Deposition Author(s):

Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	91440201
National Natural Science Foundation of China (NSFC)	China	31700662

Revision History (Full details and data files)

Version 1.0: 2020-10-14
Type: Initial release
Version 1.1: 2020-10-28
Changes: Database references
Version 1.2: 2020-12-30
Changes: Structure summary
Version 1.3: 2021-01-13
Changes: Derived calculations
Version 1.4: 2021-04-28
Changes: Database references
Version 1.5: 2024-03-27
Changes: Data collection, Database references

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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.