8F8U | pdb_00008f8u

Bifunctional ligase/repressor BirA from Klebsiella pneumoniae (Domain Swapped Dimer)

• PDB DOI: https://doi.org/10.2210/pdb8F8U/pdb

• Classification: TRANSCRIPTION
• Organism(s): Klebsiella pneumoniae subsp. pneumoniae 1158
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2022-11-22 Released: 2022-11-30 
• Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease, Seattle Structural Genomics Center for Infectious Disease (SSGCID)
• Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID), National Institutes of Health/Office of the Director

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.85 Å
• R-Value Free: 
  0.255 (Depositor), 0.252 (DCC) 
• R-Value Work: 
  0.215 (Depositor), 0.217 (DCC) 
• R-Value Observed: 
  0.217 (Depositor) 

Starting Model: experimental

Literature

Bifunctional ligase/repressor BirA from Klebsiella pneumoniae (Domain Swapped Dimer)

Liu, L., Battaile, K.P., Lovell, S.

To be published.

Biological Assembly 1  

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

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

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 73.14 kDa 
• Atom Count: 4,553 
• Modeled Residue Count: 593 
• Deposited Residue Count: 656 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Bifunctional ligase/repressor BirA	A, B	328	Klebsiella pneumoniae subsp. pneumoniae 1158	Mutation(s): 0  Gene Names:  birA, B4U61_27335, B5L96_27980, BL124_00027250, BN49_4485, DDJ63_29720, DRB11_28835, EAO17_15035, FXN67_30565, G7Z27_25945, GJJ08_025595, GNE24_27625, GNG14_18750, HV479_27705, NCTC11679_05451, NCTC204_01612, NCTC3279_04746, NCTC5047_03297, NCTC5052_03568, NCTC8849_00281, NCTC9140_00986, NCTC9637_06311, NCTC9645_02159, NCTC9661_00981, SAMEA3499874_05300, SAMEA3499901_05308, SAMEA3500057_05333, SAMEA3512100_05201, SAMEA3538828_05246, SAMEA3649758_05372, SAMEA3720909_05478, SAMEA3727643_05796, SAMEA3727679_05497, SAMEA4364603_05401 EC: 6.3.4.15
UniProt
Find proteins for A0A0W7ZMT5 (Klebsiella pneumoniae) Explore A0A0W7ZMT5  Go to UniProtKB:  A0A0W7ZMT5

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
IMD	C [auth A], D [auth B]	IMIDAZOLE C3 H5 N2 RAXXELZNTBOGNW-UHFFFAOYSA-O

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.85 Å
• R-Value Free:  0.255 (Depositor), 0.252 (DCC) 
• R-Value Work:  0.215 (Depositor), 0.217 (DCC) 
• R-Value Observed: 0.217 (Depositor) 

Diffraction Data: https://doi.org/10.18430/M38F8U

Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 99.91	α = 90
b = 155.74	β = 90
c = 58.75	γ = 90

Software Package:

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

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2022-11-30 
Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease, Seattle Structural Genomics Center for Infectious Disease (SSGCID)

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	75N93022C00036
National Institutes of Health/Office of the Director	United States	OD030394

Revision History  

• Version 1.0: 2022-11-30
  Type: Initial release
  
• Version 1.1: 2023-11-22
  Changes: Data collection