7RUO | pdb_00007ruo

Crystal structure of human UTP15

PDB DOI: https://doi.org/10.2210/pdb7RUO/pdb

Classification: RNA BINDING PROTEIN
Organism(s): Homo sapiens
Expression System: Spodoptera frugiperda
Mutation(s): No

Deposited: 2021-08-17 Released: 2021-11-10
Deposition Author(s): Dehghani-Tafti, S., Dong, A., Zeng, H., Hutchinson, A., Seitova, A., Loppnau, P., Arrowsmith, C.H., Edwards, A.M., Halabelian, L., Structural Genomics Consortium (SGC)
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free:
0.263 (Depositor), 0.268 (DCC)
R-Value Work:
0.231 (Depositor), 0.239 (DCC)
R-Value Observed:
0.233 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 7RUO

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

Literature

Crystal structure of human UTP15

Dehghani-Tafti, S., Dong, A., Zeng, H., Hutchinson, A., Seitova, A., Loppnau, P., Arrowsmith, C.H., Edwards, A.M., Halabelian, L., Structural Genomics Consortium (SGC)

To be published.

Macromolecule Content

Total Structure Weight: 88.08 kDa
Atom Count: 5,020
Modeled Residue Count: 601
Deposited Residue Count: 776
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
U3 small nucleolar RNA-associated protein 15 homolog	A, B	388	Homo sapiens	Mutation(s): 0 Gene Names: UTP15
UniProt & NIH Common Fund Data Resources
Find proteins for Q8TED0 (Homo sapiens) Explore Q8TED0 Go to UniProtKB: Q8TED0
PHAROS: Q8TED0 GTEx: ENSG00000164338
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q8TED0
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
UNX Query on UNX Download:Ideal Coordinates CCD File SDF format, chain G [auth B] SDF format, chain F [auth B] SDF format, chain E [auth A] SDF format, chain D [auth A] SDF format, chain C [auth A] MOL2 format, chain G [auth B] MOL2 format, chain F [auth B] MOL2 format, chain E [auth A] MOL2 format, chain D [auth A] MOL2 format, chain C [auth A] mmCIF format, chain G [auth B] mmCIF format, chain F [auth B] mmCIF format, chain E [auth A] mmCIF format, chain D [auth A] mmCIF format, chain C [auth A]	C [auth A], D [auth A], E [auth A], F [auth B], G [auth B]	UNKNOWN ATOM OR ION X		Interactions Focus chain C [auth A] Focus chain D [auth A] Focus chain E [auth A] Focus chain F [auth B] Focus chain G [auth B] Interactions & Density Focus chain C [auth A] Focus chain D [auth A] Focus chain E [auth A] Focus chain F [auth B] Focus chain G [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free: 0.263 (Depositor), 0.268 (DCC)
R-Value Work: 0.231 (Depositor), 0.239 (DCC)
R-Value Observed: 0.233 (Depositor)

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 58.327	α = 90.11
b = 59.085	β = 66.82
c = 61.868	γ = 62.87

Software Package:

Software Name	Purpose
REFMAC	refinement
Aimless	data scaling
XDS	data processing
Aimless	data processing
PDB_EXTRACT	data extraction
BALBES	phasing

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2021-11-10

Deposition Author(s):

Dehghani-Tafti, S.

Arrowsmith, C.H.

Structural Genomics Consortium (SGC)

Funding Organization	Location	Grant Number
Not funded	Canada	--

Revision History (Full details and data files)

Version 1.0: 2021-11-10
Type: Initial release
Version 1.1: 2024-05-22
Changes: Data collection

RCSB PDB is hosted by

RCSB PDB is a member of

RCSB Partners
Nucleic Acid Knowledgebase

CoreTrustSeal

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.