6Q3V | pdb_00006q3v

Crystal structure of Human N4BP1 KH domains

PDB DOI: https://doi.org/10.2210/pdb6Q3V/pdb

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

Deposited: 2018-12-04 Released: 2019-12-25
Deposition Author(s): Garg, A., Heinemann, U.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.88 Å
R-Value Free:
0.231 (Depositor), 0.234 (DCC)
R-Value Work:
0.181 (Depositor), 0.184 (DCC)
R-Value Observed:
0.183 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 6Q3V

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

Literature

Crystal structure of Human N4BP1 KH domains

Garg, A., Heinemann, U.

To be published.

Macromolecule Content

Total Structure Weight: 20.85 kDa
Atom Count: 1,568
Modeled Residue Count: 188
Deposited Residue Count: 188
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
NEDD4-binding protein 1	A	188	Homo sapiens	Mutation(s): 0 Gene Names: N4BP1, KIAA0615 EC: 3.1
UniProt & NIH Common Fund Data Resources
Find proteins for O75113 (Homo sapiens) Explore O75113 Go to UniProtKB: O75113
PHAROS: O75113 GTEx: ENSG00000102921
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	O75113
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.88 Å
R-Value Free: 0.231 (Depositor), 0.234 (DCC)
R-Value Work: 0.181 (Depositor), 0.184 (DCC)
R-Value Observed: 0.183 (Depositor)

Space Group: P 6₂

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 108.69	α = 90
b = 108.69	β = 90
c = 27.727	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
PDB_EXTRACT	data extraction
Coot	model building
XSCALE	data scaling
PHASER	phasing
XDS	data reduction

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2019-12-25

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2019-12-25
Type: Initial release
Version 1.1: 2024-05-15
Changes: Data collection, Database references

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.