2VZ5

Structure of the PDZ domain of Tax1 (human T-cell leukemia virus type I) binding protein 3

PDB DOI: https://doi.org/10.2210/pdb2VZ5/pdb

Classification: PROTEIN BINDING
Organism(s): Homo sapiens
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2008-07-30 Released: 2008-08-12
Deposition Author(s): Murray, J.W., Shafqat, N., Yue, W., Pilka, E., Johannsson, C., Salah, E., Cooper, C., Elkins, J.M., Pike, A.C., Roos, A., Filippakopoulos, P., von Delft, F., Wickstroem, M., Bountra, C., Edwards, A.M., Arrowsmith, C.H., Oppermann, U.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.74 Å
R-Value Free: 0.226
R-Value Work: 0.173
R-Value Observed: 0.176

wwPDB Validation 3D Report Full Report

This is version 1.3 of the entry. See complete history.

Literature

The Structure of the Pdz Domain of Tax1BP

Murray, J.W., Shafqat, N., Yue, W., Pilka, E., Johannsson, C., Salah, E., Cooper, C., Elkins, J.M., Pike, A.C., Roos, A., Filippakopoulos, P., von Delft, F., Wickstroem, M., Bountra, C., Edwards, A.M., Arrowsmith, C.H., Oppermann, U.

To be published.

Macromolecule Content

Total Structure Weight: 15.96 kDa
Atom Count: 1,014
Modelled Residue Count: 111
Deposited Residue Count: 139
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
TAX1-BINDING PROTEIN 3	A	139	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for O14907 (Homo sapiens) Explore O14907 Go to UniProtKB: O14907
PHAROS: O14907 GTEx: ENSG00000213977
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	O14907
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
IMD Query on IMD Download Ideal Coordinates CCD File SDF format, chain B [auth A] SDF format, chain C [auth A] MOL2 format, chain B [auth A] MOL2 format, chain C [auth A]	B [auth A], C [auth A]	IMIDAZOLE C₃ H₅ N₂ RAXXELZNTBOGNW-UHFFFAOYSA-O		Interactions Focus chain B [auth A] Focus chain C [auth A] Interactions & Density Focus chain B [auth A] Focus chain C [auth A]
ZN Query on ZN Download Ideal Coordinates CCD File SDF format, chain D [auth A] SDF format, chain E [auth A] MOL2 format, chain D [auth A] MOL2 format, chain E [auth A]	D [auth A], E [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N		Interactions Focus chain D [auth A] Focus chain E [auth A] Interactions & Density Focus chain D [auth A] Focus chain E [auth A]
CL Query on CL Download Ideal Coordinates CCD File SDF format, chain F [auth A] MOL2 format, chain F [auth A]	F [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M		Interactions Focus chain F [auth A] Interactions & Density Focus chain F [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.74 Å
R-Value Free: 0.226
R-Value Work: 0.173
R-Value Observed: 0.176
Space Group: P 6₅ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 59.813	α = 90
b = 59.813	β = 90
c = 121.289	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
MOSFLM	data reduction
SCALA	data scaling
BALBES	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2008-08-12

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2008-08-12
Type: Initial release
Version 1.1: 2017-01-25
Changes: Atomic model, Non-polymer description, Other, Version format compliance
Version 1.2: 2018-01-24
Changes: Database references, Structure summary
Version 1.3: 2023-12-13
Changes: Data collection, Database references, Derived calculations, Other, Refinement description

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2VZ5

Structure of the PDZ domain of Tax1 (human T-cell leukemia virus type I) binding protein 3

The Structure of the Pdz Domain of Tax1BP

Entity ID: 1

UniProt & NIH Common Fund Data Resources

Entity Groups

Sequence Annotations

Expand

Experimental Data

Structure Validation

Deposition Data

Revision History (Full details and data files)