7QPS | pdb_00007qps

Structure of Mn-free SpoT

• PDB DOI: https://doi.org/10.2210/pdb7QPS/pdb

• Classification: HYDROLASE
• Organism(s): Acinetobacter baumannii
• Expression System: Escherichia coli 'BL21-Gold(DE3)pLysS AG
• Mutation(s): No 


• Deposited: 2022-01-05 Released: 2023-01-18 
• Deposition Author(s): Garcia-Pino, A., Tamman, H.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.79 Å
• R-Value Free: 
  0.298 (Depositor), 0.280 (DCC) 
• R-Value Work: 
  0.258 (Depositor), 0.250 (DCC) 
• R-Value Observed: 
  0.260 (Depositor) 

Starting Model: experimental

Literature

Structure of Mn-free SpoT

Garcia-Pino, A., Tamman, H.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 77.42 kDa 
• Atom Count: 5,107 
• Modeled Residue Count: 625 
• Deposited Residue Count: 676 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ACT domain protein	A, B	338	Acinetobacter baumannii	Mutation(s): 0  Gene Names:  spoT_1, relA_1, relA_3, spoT, A7M90_14410, AB945B12_01945, Aba9201_15290, ABCAM1_3401, ABKPCSM17A_01292, ABR2091_3374, ABUW_0309, APC21_16100, APD31_02670, AUO97_04875, AYR68_16515, B7L36_04505, B7L45_01975, B9X95_19475, BAA1790NC_0315, BS065_01600, C2U32_12605, C5H40_03430, C6N18_18350, CBE85_06420, CBL15_01550, CSB70_3370, CTZ19_01585, DLI71_12465, DLI72_03665, DOL94_17785, E1A86_17370, E2535_18555, E2539_03475, E2540_19450, EA686_01605, EA706_01570, EA720_012255, EA722_01135, EGM95_01775, EKS29_00960, EP550_01655, EP560_16360, EWO96_11255, F2P40_01005, F4T85_13595, F4T91_15305, FDN00_18830, FE003_01590, FJU36_10385, FJU42_02940, FJU59_00430, FJU76_08505, FR761_17725, GNY86_13750, GSE42_18470, H0529_17955, H1058_16860, HBK86_16410, HIN86_01600, IMO23_16495, NCTC13305_02770, NCTC13421_00317, SAMEA104305281_00293, SAMEA104305340_01315, SAMEA104305385_01516, SI89_16095 EC: 2.7.6.5 (PDB Primary Data), 3.1.7.2 (UniProt)
UniProt
Find proteins for V5V8V7 (Acinetobacter baumannii) Explore V5V8V7  Go to UniProtKB:  V5V8V7

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
AMP	C [auth B]	ADENOSINE MONOPHOSPHATE C10 H14 N5 O7 P UDMBCSSLTHHNCD-KQYNXXCUSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.79 Å
• R-Value Free:  0.298 (Depositor), 0.280 (DCC) 
• R-Value Work:  0.258 (Depositor), 0.250 (DCC) 
• R-Value Observed: 0.260 (Depositor) 

Space Group: P 4₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 90.887	α = 90
b = 90.887	β = 90
c = 262.359	γ = 90

Software Package:

Software Name	Purpose
BUSTER	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-01-18 
Deposition Author(s): Garcia-Pino, A., Tamman, H.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2023-01-18
  Type: Initial release
  
• Version 1.1: 2024-01-31
  Changes: Data collection, Refinement description