1LUQ | pdb_00001luq

Full Matrix Error Analysis of Streptavidin

• PDB DOI: https://doi.org/10.2210/pdb1LUQ/pdb

• Classification: BINDING PROTEIN
• Organism(s): Streptomyces avidinii
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2002-05-23 Released: 2003-09-09 
• Deposition Author(s): Merritt, E.A., Le Trong, I.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 0.96 Å
• R-Value Free: 
  0.165 (Depositor) 
• R-Value Work: 
  0.139 (Depositor) 

Starting Model: experimental

Literature

Full Matrix Error Analysis of Streptavidin

Merritt, E.A., Le Trong, I.

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 27.23 kDa 
• Atom Count: 2,236 
• Modeled Residue Count: 239 
• Deposited Residue Count: 254 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Streptavidin	A, B	127	Streptomyces avidinii	Mutation(s): 1
UniProt
Find proteins for P22629 (Streptomyces avidinii) Explore P22629  Go to UniProtKB:  P22629

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
BTN	C [auth A], F [auth B]	BIOTIN C10 H16 N2 O3 S YBJHBAHKTGYVGT-ZKWXMUAHSA-N
MPD	E [auth A]	(4S)-2-METHYL-2,4-PENTANEDIOL C6 H14 O2 SVTBMSDMJJWYQN-YFKPBYRVSA-N
GOL	D [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
BTN	BindingDB:  1LUQ	Kd: 0 (nM) from 1 assay(s)
		ΔG: min: -1.23e+2, max: -6.69e+1 (kJ/mol) from 12 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 0.96 Å
• R-Value Free:  0.165 (Depositor) 
• R-Value Work:  0.139 (Depositor) 

Space Group: I 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 46.027	α = 90
b = 93.54	β = 90
c = 104.17	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
SHELXS	phasing
SHELXL-97	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2003-09-09 
Deposition Author(s): Merritt, E.A., Le Trong, I.

Revision History  

• Version 1.0: 2003-09-09
  Type: Initial release
  
• Version 1.1: 2008-04-28
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Non-polymer description, Version format compliance
• Version 1.3: 2021-10-27
  Changes: Database references, Derived calculations
• Version 1.4: 2024-02-14
  Changes: Data collection, Refinement description