5KED

Structure of the 2.65 Angstrom P2(1) crystal of K. pneumonia MrkH

PDB DOI: https://doi.org/10.2210/pdb5KED/pdb

Classification: TRANSFERASE
Organism(s): Klebsiella pneumoniae
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2016-06-09 Released: 2016-08-17
Deposition Author(s): Schumacher, M.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.65 Å
R-Value Free: 0.276
R-Value Work: 0.231
R-Value Observed: 0.234

wwPDB Validation 3D Report Full Report

This is version 1.2 of the entry. See complete history.

Literature

To be released: Structures of K. pneumonia MrkH: dual utilization of the PilZ fold for c-di-GMP and DNA binding by a novel activator of biofilm genes

Schumacher, M.

To be published.

Macromolecule Content

Total Structure Weight: 110.12 kDa
Atom Count: 7,595
Modelled Residue Count: 914
Deposited Residue Count: 940
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Flagellar brake protein YcgR	A [auth D], B [auth A], C [auth B], D [auth C]	235	Klebsiella pneumoniae	Mutation(s): 0 Gene Names: mrkH, ycgR, AOT21_03001, PMK1_00755
UniProt
Find proteins for G3FT00 (Klebsiella pneumoniae) Explore G3FT00 Go to UniProtKB: G3FT00
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	G3FT00
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.65 Å
R-Value Free: 0.276
R-Value Work: 0.231
R-Value Observed: 0.234
Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 53.512	α = 90
b = 207.826	β = 120.17
c = 53.915	γ = 90

Software Package:

Software Name	Purpose
MOSFLM	data reduction
SCALA	data scaling
MOLREP	phasing
PHENIX	refinement
PDB_EXTRACT	data extraction

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2016-08-17

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2016-08-17
Type: Initial release
Version 1.1: 2017-11-01
Changes: Author supporting evidence, Derived calculations
Version 1.2: 2023-09-27
Changes: Data collection, Database references, Refinement description

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 R01GM133198.