5UQI | pdb_00005uqi

E. coli CFT073 c3406 in complex with A5P

PDB DOI: https://doi.org/10.2210/pdb5UQI/pdb

Classification: ISOMERASE
Organism(s): Escherichia coli CFT073
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2017-02-08 Released: 2018-02-21
Deposition Author(s): Cech, D.L., Pratt, A.C., Woodard, R.W.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.62 Å
R-Value Free:
0.201 (Depositor), 0.209 (DCC)
R-Value Work:
0.180 (Depositor)
R-Value Observed:
0.181 (Depositor)

Starting Model: experimental
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Ligand Structure Quality Assessment

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

Literature

Insights into the mechanism of arabinose-5-phosphate isomerases.

Cech, D.L., Pratt, A.C., Cheng, M., Barraza, S., Yep, A., Holler, T.P., Woodard, R.W.

To be published.

Macromolecule Content

Total Structure Weight: 21.14 kDa
Atom Count: 1,525
Modeled Residue Count: 188
Deposited Residue Count: 198
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Phosphosugar isomerase	A	198	Escherichia coli CFT073	Mutation(s): 0 Gene Names: c3406 EC: 5.3.1.13
UniProt
Find proteins for A0A0H2VCL5 (Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC)) Explore A0A0H2VCL5 Go to UniProtKB: A0A0H2VCL5
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A0H2VCL5
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
A5P Query on A5P Download:Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A] mmCIF format, chain B [auth A]	B [auth A]	ARABINOSE-5-PHOSPHATE C₅ H₁₃ O₈ P VJDOAZKNBQCAGE-WDCZJNDASA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.62 Å
R-Value Free: 0.201 (Depositor), 0.209 (DCC)
R-Value Work: 0.180 (Depositor)
R-Value Observed: 0.181 (Depositor)

Space Group: I 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 70.89	α = 90
b = 71.83	β = 90
c = 76.85	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling
MOLREP	phasing

Structure Validation

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Ligand Structure Quality Assessment

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Entry History

Deposition Data

Released Date: 2018-02-21

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2018-02-21
Type: Initial release
Version 1.1: 2018-03-07
Changes: Structure summary
Version 1.2: 2023-10-04
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.