4ZNY | pdb_00004zny

Structure of the human TSG101-UEV Domain in complex with the PTAP motif of the p19 gag protein of the Human T-cell Leukemia type I virus

PDB DOI: https://doi.org/10.2210/pdb4ZNY/pdb

Classification: PROTEIN TRANSPORT
Organism(s): Homo sapiens, Human T-cell leukemia virus type I
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2015-05-05 Released: 2016-06-29
Deposition Author(s): Camara-Artigas, A., Bacarizo, J.
Funding Organization(s): MINECO

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.40 Å
R-Value Free:
0.243 (Depositor), 0.250 (DCC)
R-Value Work:
0.230 (Depositor), 0.240 (DCC)
R-Value Observed:
0.231 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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

Literature

Structure of the human TSG101-UEV Domain in complex with the PTAP motif of the p19 gag protein of the Human T-cell Leukemia type I virus

Camara-Artigas, A., Bacarizo, J.

To be published.

Macromolecule Content

Total Structure Weight: 17.54 kDa
Atom Count: 1,168
Modeled Residue Count: 152
Deposited Residue Count: 152
Unique protein chains: 2

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Tumor susceptibility gene 101 protein	A	142	Homo sapiens	Mutation(s): 0 Gene Names: TSG101
UniProt & NIH Common Fund Data Resources
Find proteins for Q99816 (Homo sapiens) Explore Q99816 Go to UniProtKB: Q99816
PHAROS: Q99816 GTEx: ENSG00000074319
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q99816
Sequence Annotations Expand
Reference Sequence

Find similar proteins by: Sequence | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
T-cell leukemia virus type I, partial gag gene; HTLV1 (human T-lymphotropic virus type I)	B	10	Human T-cell leukemia virus type I	Mutation(s): 0
UniProt
Find proteins for P14078 (Human T-cell leukemia virus 1 (isolate Caribbea HS-35 subtype A)) Explore P14078 Go to UniProtKB: P14078
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P14078
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
SO4 Query on SO4 Download Ideal Coordinates CCD File SDF format, chain C [auth A] MOL2 format, chain C [auth A] mmCIF format, chain C [auth A]	C [auth A]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain C [auth A] Interactions & Density Focus chain C [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.40 Å
R-Value Free: 0.243 (Depositor), 0.250 (DCC)
R-Value Work: 0.230 (Depositor), 0.240 (DCC)
R-Value Observed: 0.231 (Depositor)

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 78.622	α = 90
b = 119.743	β = 90
c = 41.641	γ = 90

Software Package:

Software Name	Purpose
Aimless	data scaling
PHASER	phasing
PHENIX	refinement
PDB_EXTRACT	data extraction
XDS	data reduction

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2016-06-29

Deposition Author(s):

Camara-Artigas, A.

Funding Organization	Location	Grant Number
MINECO	Spain	BIO2012-39922-C02-02

Revision History (Full details and data files)

Version 1.0: 2016-06-29
Type: Initial release
Version 1.1: 2024-01-10
Changes: Data collection, Database references, Refinement description

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.