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), 0.248 (DCC)
R-Value Work:
0.230 (Depositor), 0.239 (DCC)
R-Value Observed:
0.231 (Depositor)

Starting Model: experimental
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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:

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% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% 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% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% 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), 0.248 (DCC)
R-Value Work: 0.230 (Depositor), 0.239 (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

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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

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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.