7R24 | pdb_00007r24

Crystal structure of rat Arc CTD in complex with two anti-Arc nanobodies

PDB DOI: https://doi.org/10.2210/pdb7R24/pdb

Classification: STRUCTURAL PROTEIN
Organism(s): Rattus norvegicus, Vicugna pacos
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2022-02-04 Released: 2022-06-01
Deposition Author(s): Markusson, S., Kursula, P.
Funding Organization(s): Norwegian Research Council

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.70 Å
R-Value Free:
0.274 (Depositor), 0.274 (DCC)
R-Value Work:
0.257 (Depositor), 0.257 (DCC)
R-Value Observed:
0.259 (Depositor)

Starting Models: experimental
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wwPDB Validation 3D Report Full Report

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This is version 1.2 of the entry. See complete history.

Literature

Crystal structure of rat Arc CTD in complex with two anti-Arc nanobodies

Markusson, S., Kursula, P.

To be published.

Macromolecule Content

Total Structure Weight: 72.26 kDa
Atom Count: 3,168
Modeled Residue Count: 393
Deposited Residue Count: 645
Unique protein chains: 3

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Activity-regulated cytoskeleton-associated protein	A	397	Rattus norvegicus	Mutation(s): 7 Gene Names: Arc
UniProt
Find proteins for Q63053 (Rattus norvegicus) Explore Q63053 Go to UniProtKB: Q63053
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q63053
Sequence Annotations Expand
Reference Sequence

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Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
anti-Arc nanobody	B [auth C]	120	Vicugna pacos	Mutation(s): 0

Find similar proteins by:

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
anti-Arc nanobody	C [auth E]	128	Vicugna pacos	Mutation(s): 0

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.70 Å
R-Value Free: 0.274 (Depositor), 0.274 (DCC)
R-Value Work: 0.257 (Depositor), 0.257 (DCC)
R-Value Observed: 0.259 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 40.88	α = 90
b = 92.81	β = 90
c = 114.65	γ = 90

Software Package:

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

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2022-06-01

Deposition Author(s):

Funding Organization	Location	Grant Number
Norwegian Research Council	Norway	249951

Revision History (Full details and data files)

Version 1.0: 2022-06-01
Type: Initial release
Version 1.1: 2024-01-31
Changes: Data collection, Refinement description
Version 1.2: 2024-11-13
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.