5I69
MBP-MamC magnetite-interaction component mutant-D70A
- PDB DOI: https://doi.org/10.2210/pdb5I69/pdb
- Classification: Magnetite binding protein
- Organism(s): Escherichia coli, Paramagnetospirillum magneticum AMB-1
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): Yes 
- Deposited: 2016-02-16 Released: 2016-03-23 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.70 Å
- R-Value Free: 0.293 
- R-Value Work: 0.204 
- R-Value Observed: 0.209 
wwPDB Validation   3D Report Full Report
This is version 2.1 of the entry. See complete history. 
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Maltose-binding periplasmic protein,Tightly bound bacterial magnetic particle protein,Maltose-binding periplasmic protein | 412 | Escherichia coli, Paramagnetospirillum magneticum AMB-1 | Mutation(s): 1  Gene Names: malE, b4034, JW3994, mms13, amb0951 | ||
UniProt | |||||
Find proteins for P0AEX9 (Escherichia coli (strain K12)) Explore P0AEX9  Go to UniProtKB:  P0AEX9 | |||||
Find proteins for Q2W8S0 (Magnetospirillum magneticum (strain AMB-1 / ATCC 700264)) Explore Q2W8S0  Go to UniProtKB:  Q2W8S0 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Groups | Q2W8S0P0AEX9 | ||||
Sequence AnnotationsExpand | |||||
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Oligosaccharides
Small Molecules
Ligands 1 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
SO4 Query on SO4 | C [auth A] | SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L |
Biologically Interesting Molecules (External Reference) 1 Unique
Entity ID: 2 | |||||
---|---|---|---|---|---|
ID | Chains | Name | Type/Class | 2D Diagram | 3D Interactions |
PRD_900001 Query on PRD_900001 | B | alpha-maltose | Oligosaccharide / Nutrient |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.70 Å
- R-Value Free: 0.293 
- R-Value Work: 0.204 
- R-Value Observed: 0.209 
- Space Group: P 43 21 2
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 67.236 | α = 90 |
b = 67.236 | β = 90 |
c = 209.019 | γ = 90 |
Software Name | Purpose |
---|---|
REFMAC | refinement |
HKL-2000 | data reduction |
HKL-2000 | data scaling |
PHASER | phasing |
Coot | model building |
Entry History 
Deposition Data
- Released Date: 2016-03-23  Deposition Author(s): Nudelman, H., Tercedor, C.V., Kolusheva, S., Gonzalez, T.P., Widdrat, M., Grimberg, N., Levi, H., Nelkenbaum, O., Davidove, G., Faivre, D., Jimenez-Lopez, C., Zarivach, R.
Revision History (Full details and data files)
- Version 1.0: 2016-03-23
Type: Initial release - Version 1.1: 2016-05-04
Changes: Database references - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Atomic model, Data collection, Derived calculations, Non-polymer description, Structure summary - Version 2.1: 2024-01-10
Changes: Data collection, Database references, Refinement description, Structure summary