5EY7 | pdb_00005ey7

Crystal structure of Fructokinase from Vibrio cholerae O395 in apo form

PDB DOI: https://doi.org/10.2210/pdb5EY7/pdb

Classification: TRANSFERASE
Organism(s): Vibrio cholerae O395
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2015-11-24 Released: 2016-11-30
Deposition Author(s): Paul, R., Nath, S., Sen, U.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.46 Å
R-Value Free:
0.242 (Depositor), 0.244 (DCC)
R-Value Work:
0.215 (Depositor), 0.225 (DCC)
R-Value Observed:
0.217 (Depositor)

Starting Model: experimental
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This is version 1.2 of the entry. See complete history.

Literature

Crystal structure of Fructokinase from Vibrio cholerae O395 in apo form

Paul, R., Nath, S., Sen, U.

To be published.

Macromolecule Content

Total Structure Weight: 70.01 kDa
Atom Count: 4,627
Modeled Residue Count: 598
Deposited Residue Count: 646
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Fructokinase	A, B	323	Vibrio cholerae O395	Mutation(s): 0 Gene Names: cscK, VC0395_0600 EC: 2.7.1.4
UniProt
Find proteins for A0A0H3AER7 (Vibrio cholerae serotype O1 (strain ATCC 39541 / Classical Ogawa 395 / O395)) Explore A0A0H3AER7 Go to UniProtKB: A0A0H3AER7
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A0H3AER7
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
NA Query on NA Download:Ideal Coordinates CCD File SDF format, chain C [auth A] MOL2 format, chain C [auth A] mmCIF format, chain C [auth A]	C [auth A]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N		Interactions Focus chain C [auth A] Interactions & Density Focus chain C [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.46 Å
R-Value Free: 0.242 (Depositor), 0.244 (DCC)
R-Value Work: 0.215 (Depositor), 0.225 (DCC)
R-Value Observed: 0.217 (Depositor)

Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 107.116	α = 90
b = 99.858	β = 90
c = 61.548	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
AUTOMAR	data reduction
AUTOMAR	data scaling
MOLREP	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2016-11-30

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2016-11-30
Type: Initial release
Version 1.1: 2017-08-16
Changes: Database references
Version 1.2: 2023-11-08
Changes: Data collection, Database references, Refinement description

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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.