3R8E

Crystal structure of a putative sugar kinase (CHU_1875) from Cytophaga hutchinsonii ATCC 33406 at 1.65 A resolution

PDB DOI: https://doi.org/10.2210/pdb3R8E/pdb

Classification: TRANSFERASE
Organism(s): Cytophaga hutchinsonii ATCC 33406
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2011-03-23 Released: 2011-05-18
Deposition Author(s): Joint Center for Structural Genomics (JCSG)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.65 Å
R-Value Free: 0.235
R-Value Work: 0.214
R-Value Observed: 0.215

wwPDB Validation 3D Report Full Report

This is version 1.4 of the entry. See complete history.

Literature

Crystal structure of a Hypothetical sugar kinase (CHU_1875) from CYTOPHAGA HUTCHINSONII ATCC 33406 at 1.65 A resolution

Joint Center for Structural Genomics (JCSG)

To be published.

Macromolecule Content

Total Structure Weight: 35.33 kDa
Atom Count: 2,915
Modelled Residue Count: 301
Deposited Residue Count: 321
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Hypothetical sugar kinase	A	321	Cytophaga hutchinsonii ATCC 33406	Mutation(s): 0 Gene Names: glk, CHU_1875
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations Expand
Reference Sequence

Small Molecules

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE Query on MSE	A	L-PEPTIDE LINKING	C₅ H₁₁ N O₂ Se		MET

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.65 Å
R-Value Free: 0.235
R-Value Work: 0.214
R-Value Observed: 0.215
Space Group: P 2₁ 2₁ 2
Diffraction Data: https://doi.org/10.18430/M33R8E

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 71.827	α = 90
b = 78.359	β = 90
c = 65.744	γ = 90

Software Package:

Software Name	Purpose
MolProbity	model building
PDB_EXTRACT	data extraction
SOLVE	phasing
SCALA	data scaling
BUSTER-TNT	refinement
Xpleo	model building
MOSFLM	data reduction
BUSTER	refinement

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2011-05-18

Deposition Author(s):

Joint Center for Structural Genomics (JCSG)

Revision History (Full details and data files)

Version 1.0: 2011-05-18
Type: Initial release
Version 1.1: 2011-07-13
Changes: Version format compliance
Version 1.2: 2014-12-24
Changes: Structure summary
Version 1.3: 2017-11-08
Changes: Refinement description
Version 1.4: 2023-02-01
Changes: Database references, Derived calculations

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.