6WMZ | pdb_00006wmz

Crystal structure of human SFPQ/NONO complex

PDB DOI: https://doi.org/10.2210/pdb6WMZ/pdb

Classification: NUCLEAR PROTEIN
Organism(s): Homo sapiens
Expression System: Escherichia coli BL21(DE3), Escherichia coli
Mutation(s): No

Deposited: 2020-04-22 Released: 2021-04-28
Deposition Author(s): Lee, M., Bond, C.S.
Funding Organization(s): National Health and Medical Research Council (NHMRC, Australia), Australian Research Council (ARC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.85 Å
R-Value Free:
0.283 (Depositor), 0.278 (DCC)
R-Value Work:
0.236 (Depositor), 0.238 (DCC)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 6WMZ

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

Literature

Structure analysis of human SFPQ/NONO complex

Lee, M., Bond, C.S.

To be published.

Macromolecule Content

Total Structure Weight: 150.17 kDa
Atom Count: 8,954
Modeled Residue Count: 1,085
Deposited Residue Count: 1,298
Unique protein chains: 2

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Splicing factor, proline- and glutamine-rich	A, C	388	Homo sapiens	Mutation(s): 0 Gene Names: SFPQ, PSF
UniProt & NIH Common Fund Data Resources
Find proteins for P23246 (Homo sapiens) Explore P23246 Go to UniProtKB: P23246
PHAROS: P23246 GTEx: ENSG00000116560
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P23246
Sequence Annotations Expand
Reference Sequence

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Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Non-POU domain-containing octamer-binding protein	B, D	261	Homo sapiens	Mutation(s): 0 Gene Names: NONO, NRB54
UniProt & NIH Common Fund Data Resources
Find proteins for Q15233 (Homo sapiens) Explore Q15233 Go to UniProtKB: Q15233
PHAROS: Q15233 GTEx: ENSG00000147140
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q15233
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 E [auth D] MOL2 format, chain E [auth D] mmCIF format, chain E [auth D]	E [auth D]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain E [auth D] Interactions & Density Focus chain E [auth D]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.85 Å
R-Value Free: 0.283 (Depositor), 0.278 (DCC)
R-Value Work: 0.236 (Depositor), 0.238 (DCC)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 66.63	α = 90
b = 112.94	β = 90
c = 204.62	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2021-04-28

Deposition Author(s):

Funding Organization	Location	Grant Number
National Health and Medical Research Council (NHMRC, Australia)	Australia	513935
Australian Research Council (ARC)	Australia	DE150101243

Revision History (Full details and data files)

Version 1.0: 2021-04-28
Type: Initial release
Version 1.1: 2023-10-18
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.