2MPR | pdb_00002mpr

MALTOPORIN FROM SALMONELLA TYPHIMURIUM

PDB DOI: https://doi.org/10.2210/pdb2MPR/pdb

Classification: OUTER MEMBRANE PROTEIN
Organism(s): Salmonella enterica subsp. enterica serovar Typhimurium
Mutation(s): No
Membrane Protein: Yes OPM PDBTM MemProtMD mpstruc

Deposited: 1997-02-07 Released: 1997-04-01
Deposition Author(s): Meyer, J.E.W., Schulz, G.E.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.40 Å
R-Value Free:
0.222 (Depositor), 0.200 (DCC)
R-Value Work:
0.191 (Depositor), 0.195 (DCC)
R-Value Observed:
0.191 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

This is version 2.2 of the entry. See complete history.

Literature

Structure of maltoporin from Salmonella typhimurium ligated with a nitrophenyl-maltotrioside.

Meyer, J.E., Hofnung, M., Schulz, G.E.

(1997) J Mol Biology 266: 761-775

PubMed: 9102468 Search on PubMed
DOI: https://doi.org/10.1006/jmbi.1996.0823
Primary Citation Related Structures:
1MPR, 2MPR

PubMed Abstract:
The maltodextrin-specific (malto-)porin from Salmonella typhimurium has been crystallized. Its three-dimensional structure was determined at 2.4 A resolution (1 A = 0.1 nm). A comparison with the structure of the homologous porin from Escherichia coli as well as with the sequences of other related porins showed that there are regions of appreciable sequence and structure variability, despite close overall similarity. The maltoporin structure was analyzed with a bound nitrophenyl-maltotrioside as well as without ligand. Maltotrioside binding had a negligible effect on the polypeptide structure. It binds at the pore eyelet assuming a conformation close to the natural amylose helix.

Organizational Affiliation

Institut für Organische Chemie und Biochemie Albert-Ludwigs-Universität, Freiburg im Breisgau Germany.

Macromolecule Content

Total Structure Weight: 145.75 kDa
Atom Count: 10,719
Modeled Residue Count: 1,263
Deposited Residue Count: 1,281
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
MALTOPORIN	A, B, C	427	Salmonella enterica subsp. enterica serovar Typhimurium	Mutation(s): 0 Membrane Entity: Yes
UniProt
Find proteins for P26466 (Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)) Explore P26466 Go to UniProtKB: P26466
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P26466
Sequence Annotations Expand
Reference Sequence

Oligosaccharides

Help

Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	D Interactions
alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-beta-D-glucopyranose	D, E, F	3		N/A	Interactions Focus chain D Focus chain E Focus chain F Interactions & Density Focus chain D Focus chain E Focus chain F
Glycosylation Resources
GlyTouCan: G00395FS GlyCosmos: G00395FS GlyGen: G00395FS

Small Molecules

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

Biologically Interesting Molecules (External Reference)

1 Unique

Entity ID: 2
ID	Chains	Name	Type/Class	2D Diagram	3D Interactions
PRD_900065 Query on PRD_900065	D, E, F	beta-maltotriose	Oligosaccharide / Nutrient		Interactions Focus chain D Focus chain E Focus chain F Interactions & Density Focus chain D Focus chain E Focus chain F

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.40 Å
R-Value Free: 0.222 (Depositor), 0.200 (DCC)
R-Value Work: 0.191 (Depositor), 0.195 (DCC)
R-Value Observed: 0.191 (Depositor)

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 124.5	α = 90
b = 211.8	β = 90
c = 184.3	γ = 90

Software Package:

Software Name	Purpose
XDS	data scaling
XSCALE	data scaling
AMoRE	phasing
RAVE	model building
X-PLOR	model building
X-PLOR	refinement
XDS	data reduction
RAVE	phasing
X-PLOR	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 1997-04-01

Deposition Author(s):

Meyer, J.E.W.

Schulz, G.E.

Revision History (Full details and data files)

Version 1.0: 1997-04-01
Type: Initial release
Version 1.1: 2008-03-03
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Version format compliance
Version 1.3: 2018-04-04
Changes: Advisory, Data collection
Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Atomic model, Data collection, Derived calculations, Structure summary
Version 2.1: 2023-08-09
Changes: Advisory, Database references, Refinement description, Structure summary
Version 2.2: 2024-10-23
Changes: Data collection, Structure summary