8C3K | pdb_00008c3k

PaaR2 N-terminal domin in complex with nanobody 33

PDB DOI: https://doi.org/10.2210/pdb8C3K/pdb

Classification: DNA BINDING PROTEIN
Organism(s): Escherichia coli O157:H7, Lama glama
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2022-12-26 Released: 2024-01-10
Deposition Author(s): Loris, R., Prolic-Kalinsek, M.
Funding Organization(s): Research Foundation - Flanders (FWO)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.75 Å
R-Value Free:
0.233 (Depositor), 0.237 (DCC)
R-Value Work:
0.203 (Depositor), 0.206 (DCC)
R-Value Observed:
0.206 (Depositor)

Starting Model: experimental
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This is version 1.1 of the entry. See complete history.

Literature

PaaR2, the CI equivalent in Escherichia coli O157:H7 cryptic prophage CP-933P

Prolik-Kalinsek, M., Volkov, A., Loris, R.

To be published.

Macromolecule Content

Total Structure Weight: 21.61 kDa
Atom Count: 1,395
Modeled Residue Count: 171
Deposited Residue Count: 191
Unique protein chains: 2

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Phage repressor protein CI	A	74	Escherichia coli O157:H7	Mutation(s): 0 Gene Names: ECs_2279
UniProt
Find proteins for Q8XAD6 (Escherichia coli O157:H7) Explore Q8XAD6 Go to UniProtKB: Q8XAD6
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q8XAD6
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Nanobody 33	B	117	Lama glama	Mutation(s): 0

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.75 Å
R-Value Free: 0.233 (Depositor), 0.237 (DCC)
R-Value Work: 0.203 (Depositor), 0.206 (DCC)
R-Value Observed: 0.206 (Depositor)

Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 67.143	α = 90
b = 67.143	β = 90
c = 69.707	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XDS	data scaling
PHASER	phasing

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2024-01-10

Deposition Author(s):

Prolic-Kalinsek, M.

Funding Organization	Location	Grant Number
Research Foundation - Flanders (FWO)	Belgium	G.0226.17N

Revision History (Full details and data files)

Version 1.0: 2024-01-10
Type: Initial release
Version 1.1: 2024-10-16
Changes: Structure summary

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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.