2YMS | pdb_00002yms

Structure and assembly of a b-propeller with nine blades and a new conserved repetitive sequence motif

• PDB DOI: https://doi.org/10.2210/pdb2YMS/pdb

• Classification: CHAPERONE
• Organism(s): Escherichia coli BL21
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2012-10-10 Released: 2013-10-30 
• Deposition Author(s): Zeth, K., Albrecht, R.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 
  0.239 (Depositor), 0.240 (DCC) 
• R-Value Work: 
  0.187 (Depositor), 0.190 (DCC) 
• R-Value Observed: 
  0.190 (Depositor) 

Literature

Structure and Assembly of a B-Propeller with Nine Blades and a New Conserved Repetitive Sequence Motif

Albrecht, R., Zeth, K.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 4-mer - A2B1C1 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 4-mer - A3B1 Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 2-mer - A2 

Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content 

• Total Structure Weight: 37.62 kDa 
• Atom Count: 2,689 
• Modeled Residue Count: 347 
• Deposited Residue Count: 353 
• Unique protein chains: 4

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
OUTER MEMBRANE PROTEIN ASSEMBLY FACTOR BAMB	A	130	Escherichia coli BL21	Mutation(s): 0
UniProt
Find proteins for P77774 (Escherichia coli (strain K12)) Explore P77774  Go to UniProtKB:  P77774

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
OUTER MEMBRANE PROTEIN ASSEMBLY FACTOR BAMB	B	74	Escherichia coli BL21	Mutation(s): 0
UniProt
Find proteins for P77774 (Escherichia coli (strain K12)) Explore P77774  Go to UniProtKB:  P77774

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
OUTER MEMBRANE PROTEIN ASSEMBLY FACTOR BAMB	C	75	Escherichia coli BL21	Mutation(s): 0
UniProt
Find proteins for P77774 (Escherichia coli (strain K12)) Explore P77774  Go to UniProtKB:  P77774

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
OUTER MEMBRANE PROTEIN ASSEMBLY FACTOR BAMB	D	74	Escherichia coli BL21	Mutation(s): 0
UniProt
Find proteins for P77774 (Escherichia coli (strain K12)) Explore P77774  Go to UniProtKB:  P77774

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NA	E [auth C]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free:  0.239 (Depositor), 0.240 (DCC) 
• R-Value Work:  0.187 (Depositor), 0.190 (DCC) 
• R-Value Observed: 0.190 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 88.57	α = 90
b = 83.45	β = 118.94
c = 57.37	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XSCALE	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2013-10-30 
Deposition Author(s): Zeth, K., Albrecht, R.

Revision History  

• Version 1.0: 2013-10-30
  Type: Initial release
  
• Version 1.1: 2024-05-08
  Changes: Data collection, Database references, Derived calculations, Other