1OH2 | pdb_00001oh2

Sucrose-Specific Porin, with Bound Sucrose Molecules

• PDB DOI: https://doi.org/10.2210/pdb1OH2/pdb

• Classification: MEMBRANE PROTEIN
• Organism(s): Salmonella enterica subsp. enterica serovar Typhimurium
• Expression System: Escherichia coli
• Mutation(s): Yes 
• Membrane Protein: Yes  PDBTMMemProtMD


• Deposited: 2003-05-21 Released: 2003-05-29 
• Deposition Author(s): Diederichs, K., Welte, W.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 
  0.246 (Depositor) 
• R-Value Work: 
  0.207 (Depositor) 
• R-Value Observed: 
  0.207 (Depositor) 

Starting Model: experimental

Literature

Sucrose-Specific Porin, with Bound Sucrose Molecules

Diederichs, K., Welte, W.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Homo 3-mer - A3 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 137.76 kDa 
• Atom Count: 9,717 
• Modeled Residue Count: 1,239 
• Deposited Residue Count: 1,239 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Sucrose porin	A [auth P], C [auth R]	413	Salmonella enterica subsp. enterica serovar Typhimurium	Mutation(s): 0  Gene Names: scrY Membrane Entity: Yes
UniProt
Find proteins for P22340 (Salmonella typhimurium) Explore P22340  Go to UniProtKB:  P22340

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Sucrose porin	B [auth Q]	413	Salmonella enterica subsp. enterica serovar Typhimurium	Mutation(s): 7  Gene Names: scrY Membrane Entity: Yes
UniProt
Find proteins for P22340 (Salmonella typhimurium) Explore P22340  Go to UniProtKB:  P22340

Oligosaccharides

Help

Entity ID: 3
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
beta-D-fructofuranose-(2-1)-alpha-D-glucopyranose	D [auth A], E [auth B], F [auth C], G [auth D], H [auth E], I [auth F]	2		N/A
Glycosylation Resources
GlyTouCan:  G05551OP GlyCosmos:  G05551OP

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CA	J [auth P], K [auth Q], L [auth R]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Biologically Interesting Molecules (External Reference) 1 Unique

Entity ID: 3
ID	Chains	Name	Type/Class	2D Diagram	3D Interactions
PRD_900003	D [auth A], E [auth B], F [auth C], G [auth D], H [auth E], I [auth F]	sucrose	Oligosaccharide / Nutrient

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free:  0.246 (Depositor) 
• R-Value Work:  0.207 (Depositor) 
• R-Value Observed: 0.207 (Depositor) 

Space Group: P 3₂

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 111.8	α = 90
b = 111.8	β = 90
c = 147.8	γ = 120

Software Package:

Software Name	Purpose
X-PLOR	refinement
XDS	data reduction
XSCALE	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2003-05-29 
Deposition Author(s): Diederichs, K., Welte, W.

Revision History  

• Version 1.0: 2003-05-29
  Type: Initial release
  
• Version 1.1: 2013-03-06
  Changes: Data collection, Database references, Derived calculations, Other, Source and taxonomy, Structure summary, Version format compliance
• Version 1.2: 2018-11-21
  Changes: Data collection, Database references, Source and taxonomy, Structure summary
• Version 1.3: 2019-05-15
  Changes: Data collection, Experimental preparation
• 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: 2023-12-13
  Changes: Data collection, Database references, Derived calculations, Refinement description, Structure summary