4TO8

Methicillin-Resistant Staphylococcus Aureus Class IIb Fructose 1,6-Bisphosphate Aldolase


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.10 Å
  • R-Value Free: 0.228 
  • R-Value Work: 0.176 
  • R-Value Observed: 0.179 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Structural and Functional Characterization of Methicillin-Resistant Staphylococcus aureus's Class IIb Fructose 1,6-Bisphosphate Aldolase.

Capodagli, G.C.Lee, S.A.Boehm, K.J.Brady, K.M.Pegan, S.D.

(2014) Biochemistry 53: 7604-7614

  • DOI: 10.1021/bi501141t
  • Primary Citation of Related Structures:  
    4TO8

  • PubMed Abstract: 
  • Staphylococcus aureus is one of the most common nosocomial sources of soft-tissue and skin infections and has more recently become prevalent in the community setting as well. Since the use of penicillins to combat S. aureus infections in the 1940s, t ...

    Staphylococcus aureus is one of the most common nosocomial sources of soft-tissue and skin infections and has more recently become prevalent in the community setting as well. Since the use of penicillins to combat S. aureus infections in the 1940s, the bacterium has been notorious for developing resistances to antibiotics, such as methicillin-resistant Staphylococcus aureus (MRSA). With the persistence of MRSA as well as many other drug resistant bacteria and parasites, there is a growing need to focus on new pharmacological targets. Recently, class II fructose 1,6-bisphosphate aldolases (FBAs) have garnered attention to fill this role. Regrettably, scarce biochemical data and no structural data are currently available for the class II FBA found in MRSA (SaFBA). With the recent finding of a flexible active site zinc-binding loop (Z-Loop) in class IIa FBAs and its potential for broad spectrum class II FBA inhibition, the lack of information regarding this feature of class IIb FBAs, such as SaFBA, has been limiting for further Z-loop inhibitor development. Therefore, we elucidated the crystal structure of SaFBA to 2.1 Å allowing for a more direct structural analysis of SaFBA. Furthermore, we determined the KM for one of SaFBA's substrates, fructose 1,6-bisphosphate, as well as performed mode of inhibition studies for an inhibitor that takes advantage of the Z-loop's flexibility. Together the data offers insight into a class IIb FBA from a pervasively drug resistant bacterium and a comparison of Z-loops and other features between the different subtypes of class II FBAs.


    Organizational Affiliation

    Department of Chemistry and Biochemistry, University of Denver , Denver, Colorado 80208, United States.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Fructose-1,6-bisphosphate aldolase, class IIAB292Staphylococcus aureusMutation(s): 0 
Gene Names: 
fbaCH52_08335X998_2104fbaABN1321_340064BTN44_12980C7P97_10735CSC87_01035DD547_02160DDL17_08025DQV20_13150DQV53_12325E3A28_11775E3K14_11365E4U00_11995EP54_10805EQ90_06700ERS072840_01845ERS140147_01907FA040_09600FVP29_00690G0V24_09885G0X12_09145G0X27_13450G0Y02_05175G0Z08_01535G0Z18_06760G6W67_09740G6W97_02720G6X24_09785G6X31_13080G6X35_09405G6Y10_08895G6Y24_04935G6Y28_13010G6Y30_13275GF545_08805GF559_08820GIX97_06980GO706_09355GO746_02570GO788_11415GO803_09400GO805_08090GO810_01725GO821_03470GO894_11225GO915_05910GO942_06245HMPREF2819_03610HMPREF3211_02594M1K003_2242NCTC10654_02288NCTC10702_03354NCTC10988_02509NCTC5664_01834NCTC9944_02271RK64_11285SAMEA1029528_02112SAMEA1029547_01855SAMEA1029553_01793SAMEA1469856_02150SAMEA1469884_01936SAMEA1531680_02137SAMEA1531701_02054SAMEA1964876_01989SAMEA1965205_01976SAMEA1966505_01931SAMEA1969349_02067SAMEA1969845_02285SAMEA1971706_01841SAMEA1972827_02175SAMEA2076212_02124SAMEA2076218_02288SAMEA2076220_02276SAMEA2076226_02068SAMEA2076463_01718SAMEA2076464_01847SAMEA2076470_01823SAMEA2076472_01889SAMEA2076478_02035SAMEA2076480_01816SAMEA2076481_02075SAMEA2076743_01861SAMEA2076745_02030SAMEA2076746_01978SAMEA2076747_01971SAMEA2076749_01364SAMEA2076751_01849SAMEA2076752_01788SAMEA2076755_01743SAMEA2076756_01825SAMEA2076758_01824SAMEA2076759_01723SAMEA2076761_01298SAMEA2076762_02401SAMEA2076763_02427SAMEA2076764_01982SAMEA2076765_01865SAMEA2077023_01898SAMEA2077025_01777SAMEA2077027_01911SAMEA2077029_01882SAMEA2077031_01999SAMEA2077034_02353SAMEA2077035_01811SAMEA2077039_01822SAMEA2077040_01653SAMEA2077041_01847SAMEA2077044_02049SAMEA2077045_01731SAMEA2077046_01782SAMEA2077293_02014SAMEA2077294_01963SAMEA2077295_01915SAMEA2077297_01804SAMEA2077300_02050SAMEA2077301_01891SAMEA2077302_01763SAMEA2077303_01892SAMEA2077307_01706SAMEA2077832_01830SAMEA2078252_02092SAMEA2078256_01888SAMEA2078307_02003SAMEA2078308_01849SAMEA2078553_01909SAMEA2078558_02010SAMEA2078560_00691SAMEA2078569_02130SAMEA2078570_01936SAMEA2078572_00923SAMEA2078824_01757SAMEA2078837_01962SAMEA2079048_02181SAMEA2079051_01857SAMEA2079277_02416SAMEA2079291_02174SAMEA2079503_01894SAMEA2079507_01935SAMEA2079512_02090SAMEA2079517_01941SAMEA2079724_02052SAMEA2079727_02285SAMEA2079728_00485SAMEA2079732_02206SAMEA2079742_02207SAMEA2079946_02272SAMEA2079949_02113SAMEA2079951_02219SAMEA2079952_02278SAMEA2079957_02382SAMEA2079958_02185SAMEA2079960_02210SAMEA2079961_02233SAMEA2079968_02195SAMEA2080329_02324SAMEA2080330_02276SAMEA2080334_02281SAMEA2080433_02402SAMEA2080812_02045SAMEA2080898_01745SAMEA2080900_02097SAMEA2080904_01817SAMEA2080913_01754SAMEA2081043_02040SAMEA2081053_01841SAMEA2081054_01800SAMEA2081055_01828SAMEA2081060_02245SAMEA2081211_01809SAMEA2081213_01906SAMEA2081218_02186SAMEA2081341_02057SAMEA2081342_02167SAMEA2081349_02228SAMEA2081359_02157SAMEA2081362_02245SAMEA2081468_01865SAMEA2081474_02004SAMEA2081475_01965SAMEA2081476_01705SAMEA2081479_01776SAMEA2081480_02058SAMEA2081560_01929SAMEA2081561_01898SAMEA2081564_02063SAMEA2081567_02024SAMEA2081568_02056SAMEA2081569_01829SAMEA2081570_02063SAMEA2081571_01875SAMEA2081572_01928SAMEA2081573_01719SAMEA2081575_01843SAMEA2081577_01719SAMEA2081578_01956SAMEA2081579_02003SAMEA2081581_01668SAMEA2081582_02082SAMEA2081673_02155SAMEA2081674_02216SAMEA958766_02168SAMEA958770_00125SAMEA958772_02042SAMEA958778_01794SAMEA958779_01042SAMEA958785_01979SAMEA958793_01913SAMEA958804_01984SAMEA958810_02028SAMEA958836_02275SAMEA958838_01433SAMEA958845_01845SAMEA958846_01974SAMEA958848_01851SAMEA958855_01417SAMEA958858_01870SAMEA958870_01986SAMEA958898_00386SAMEA958906_01252SAMEA958924_01708SAMEA958925_00415SAMEA958951_00190SAMEA958953_02210SAMEA958961_02699SAMEA958979_01922SAMEA958987_01048SAMEA958995_02059SAST44_02379SAST45_02355

EC: 4.1.2.13
Find proteins for W8TRN9 (Staphylococcus aureus)
Explore W8TRN9 
Go to UniProtKB:  W8TRN9
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
FLC
Query on FLC

Download Ideal Coordinates CCD File 
A, B
CITRATE ANION
C6 H5 O7
KRKNYBCHXYNGOX-UHFFFAOYSA-K
 Ligand Interaction
ZN
Query on ZN

Download Ideal Coordinates CCD File 
A, B
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
FLCIC50:  56900000   nM  Binding MOAD
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.10 Å
  • R-Value Free: 0.228 
  • R-Value Work: 0.176 
  • R-Value Observed: 0.179 
  • Space Group: P 21 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 76.464α = 90
b = 96.054β = 90
c = 101.231γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2014-11-26
    Type: Initial release
  • Version 1.1: 2014-12-24
    Changes: Database references
  • Version 1.2: 2017-09-06
    Changes: Author supporting evidence, Database references, Derived calculations, Other, Source and taxonomy
  • Version 1.3: 2018-04-18
    Changes: Data collection