4R2Z | pdb_00004r2z

Molecular Analysis of the PDZ4 Domain of Mouse PDZK1

PDB DOI: https://doi.org/10.2210/pdb4R2Z/pdb

Classification: TRANSPORT PROTEIN
Organism(s): Mus musculus
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2014-08-13 Released: 2015-08-19
Deposition Author(s): Birrane, G., Kocher, O., Krieger, M.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.70 Å
R-Value Free:
0.227 (Depositor), 0.239 (DCC)
R-Value Work:
0.187 (Depositor), 0.198 (DCC)
R-Value Observed:
0.189 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 4R2Z

This is version 1.1 of the entry. See complete history.

Literature

Molecular Analysis of the PDZ4 domain from Mouse PDZK1

Birrane, G., Kocher, O., Krieger, M.

To be published.

Macromolecule Content

Total Structure Weight: 20.27 kDa
Atom Count: 1,437
Modeled Residue Count: 165
Deposited Residue Count: 182
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Na(+)/H(+) exchange regulatory cofactor NHE-RF3	A, B	91	Mus musculus	Mutation(s): 0 Gene Names: Pdzk1, Cap70, Nherf3
UniProt & NIH Common Fund Data Resources
Find proteins for Q9JIL4 (Mus musculus) Explore Q9JIL4 Go to UniProtKB: Q9JIL4
IMPC: MGI:1928901
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q9JIL4
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
PG0 Query on PG0 Download:Ideal Coordinates CCD File SDF format, chain D [auth A] MOL2 format, chain D [auth A] mmCIF format, chain D [auth A]	D [auth A]	2-(2-METHOXYETHOXY)ETHANOL C₅ H₁₂ O₃ SBASXUCJHJRPEV-UHFFFAOYSA-N		Interactions Focus chain D [auth A] Interactions & Density Focus chain D [auth A]
GOL Query on GOL Download:Ideal Coordinates CCD File SDF format, chain E [auth B] SDF format, chain C [auth A] MOL2 format, chain E [auth B] MOL2 format, chain C [auth A] mmCIF format, chain E [auth B] mmCIF format, chain C [auth A]	C [auth A], E [auth B]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Interactions Focus chain C [auth A] Focus chain E [auth B] Interactions & Density Focus chain C [auth A] Focus chain E [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.70 Å
R-Value Free: 0.227 (Depositor), 0.239 (DCC)
R-Value Work: 0.187 (Depositor), 0.198 (DCC)
R-Value Observed: 0.189 (Depositor)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 31.256	α = 90
b = 89.214	β = 113.41
c = 33.809	γ = 90

Software Package:

Software Name	Purpose
CBASS	data collection
PHASER	phasing
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

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View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2015-08-19

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2015-08-19
Type: Initial release
Version 1.1: 2024-02-28
Changes: Data collection, Database references, Derived calculations

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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.