6SSO

EDN mutant L45H

PDB DOI: https://doi.org/10.2210/pdb6SSO/pdb

Classification: HYDROLASE
Organism(s): Homo sapiens
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2019-09-08 Released: 2021-10-06
Deposition Author(s): Fernandez-Millan, P., Prats-Ejarque, G., Vazquez-Monteagudo, S., Boix, E.
Funding Organization(s): Spanish Ministry of Economy and Competitiveness

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.21 Å
R-Value Free: 0.151
R-Value Work: 0.135
R-Value Observed: 0.136

wwPDB Validation 3D Report Full Report

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

Literature

Structural and functional characterization of new family enzymes derivates from human RNase 1 and 3 with antimicrobial and ribonuclease activity

Fernandez-Millan, P., Prats-Ejarque, G., Vazquez-Monteagudo, S., Boix, E.

To be published.

Macromolecule Content

Total Structure Weight: 15.7 kDa
Atom Count: 1,410
Modelled Residue Count: 135
Deposited Residue Count: 135
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Non-secretory ribonuclease	A	135	Homo sapiens	Mutation(s): 1 Gene Names: RNASE2, EDN, RNS2 EC: 4.6.1.18
UniProt & NIH Common Fund Data Resources
Find proteins for P10153 (Homo sapiens) Explore P10153 Go to UniProtKB: P10153
PHAROS: P10153 GTEx: ENSG00000169385
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P10153
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
ACT Query on ACT Download Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A]	B [auth A]	ACETATE ION C₂ H₃ O₂ QTBSBXVTEAMEQO-UHFFFAOYSA-M		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.21 Å
R-Value Free: 0.151
R-Value Work: 0.135
R-Value Observed: 0.136
Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 42.12	α = 90
b = 52.47	β = 90
c = 56.63	γ = 90

Software Package:

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

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2021-10-06

Deposition Author(s):

Fernandez-Millan, P.

Prats-Ejarque, G.

Vazquez-Monteagudo, S.

Funding Organization	Location	Grant Number
Spanish Ministry of Economy and Competitiveness	Spain	SAF2015-66007-P

Revision History (Full details and data files)

Version 1.0: 2021-10-06
Type: Initial release
Version 1.1: 2024-01-24
Changes: Data collection, Refinement description

RCSB PDB Core Operations are 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.