8C8F | pdb_00008c8f

Crystal structure of the E. coli maltodextrin-binding protein

PDB DOI: https://doi.org/10.2210/pdb8C8F/pdb

Classification: SUGAR BINDING PROTEIN
Organism(s): Escherichia coli BL21
Mutation(s): No

Deposited: 2023-01-19 Released: 2023-02-22
Deposition Author(s): Marquez Espinoza, A., Rodrigues, M.J., Olieric, V., Freisinger, E.
Funding Organization(s): Swiss National Science Foundation

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.15 Å
R-Value Free:
0.152 (Depositor), 0.150 (DCC)
R-Value Work:
0.124 (Depositor), 0.120 (DCC)
R-Value Observed:
0.125 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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

Literature

Crystal structure of the E. coli maltodextrin-binding protein

Marquez Espinoza, A., Rodrigues, M.J., Olieric, V., Freisinger, E.

To be published.

Macromolecule Content

Total Structure Weight: 43.54 kDa
Atom Count: 3,358
Modeled Residue Count: 370
Deposited Residue Count: 396
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Maltose/maltodextrin-binding periplasmic protein	A	396	Escherichia coli BL21	Mutation(s): 0
UniProt
Find proteins for P0AEX9 (Escherichia coli (strain K12)) Explore P0AEX9 Go to UniProtKB: P0AEX9
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P0AEX9
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
PEG Query on PEG 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]	DI(HYDROXYETHYL)ETHER C₄ H₁₀ O₃ MTHSVFCYNBDYFN-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.15 Å
R-Value Free: 0.152 (Depositor), 0.150 (DCC)
R-Value Work: 0.124 (Depositor), 0.120 (DCC)
R-Value Observed: 0.125 (Depositor)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 43.709	α = 90
b = 64.961	β = 101.05
c = 57.09	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2023-02-22

Deposition Author(s):

Marquez Espinoza, A.

Rodrigues, M.J.

Funding Organization	Location	Grant Number
Swiss National Science Foundation	Switzerland	--

Revision History (Full details and data files)

Version 1.0: 2023-02-22
Type: Initial release
Version 1.1: 2024-06-19
Changes: Data collection

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.