Macromolecule Content

Total Structure Weight: 8.86 kDa
Atom Count: 689
Modelled Residue Count: 76
Deposited Residue Count: 76
Unique protein chains: 1

5X3N

Crystal structure of DiUb-K6

PDB DOI: 10.2210/pdb5X3N/pdb

Classification: PROTEIN BINDING
Organism(s): Homo sapiens
Expression System: Escherichia coli K-12
Mutation(s): No

Deposited: 2017-02-06 Released: 2017-04-12
Deposition Author(s): Man, P., Shuai, G., Qian, Q., Lei, L.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.65 Å
R-Value Free: 0.276
R-Value Work: 0.216
R-Value Observed: 0.219

wwPDB Validation 3D Report Full Report

This is version 1.0 of the entry. See complete history.

Literature

Structure of p-Ub-S65-NH2 at 1.82 Angstroms resolution.

Man, P., Shuai, G., Qian, Q., Lei, L.

To be published.

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Polyubiquitin-B	A	76	Homo sapiens	Mutation(s): 0 Gene Names: UBB
UniProt & NIH Common Fund Data Resources
Find proteins for P0CG47 (Homo sapiens) Explore P0CG47 Go to UniProtKB: P0CG47
PHAROS: P0CG47
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P0CG47
Protein Feature View Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
PO4 Query on PO4 Download Ideal Coordinates CCD File SDF format, chain B [auth A] SDF format, chain C [auth A] SDF format, chain D [auth A] MOL2 format, chain B [auth A] MOL2 format, chain C [auth A] MOL2 format, chain D [auth A]	B [auth A], C [auth A], D [auth A]	PHOSPHATE ION O₄ P NBIIXXVUZAFLBC-UHFFFAOYSA-K		Ligand Interaction

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.65 Å
R-Value Free: 0.276
R-Value Work: 0.216
R-Value Observed: 0.219
Space Group: P -1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 26.048	α = 102.05
b = 26.278	β = 94.14
c = 46.193	γ = 99.63

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-3000	data reduction

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Deposited Date: 2017-02-06
Released Date: 2017-04-12

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2017-04-12
Type: Initial release

RCSB PDB is funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.