6CMV

Crystal structure of Archaeal Biofilm Regulator (AbfR2) from Sulfolobus acidocaldarius


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.45 Å
  • R-Value Free: 0.217 
  • R-Value Work: 0.166 
  • R-Value Observed: 0.168 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Crystal structure of an Lrs14-like archaeal biofilm regulator from Sulfolobus acidocaldarius.

Vogt, M.S.Volpel, S.L.Albers, S.V.Essen, L.O.Banerjee, A.

(2018) Acta Crystallogr D Struct Biol 74: 1105-1114

  • DOI: https://doi.org/10.1107/S2059798318014146
  • Primary Citation of Related Structures:  
    6CMV

  • PubMed Abstract: 

    The small winged helix-turn-helix (wHTH) proteins of the Lrs14 family are major transcriptional regulators and act as archaeal biofilm regulators (AbfRs) in the crenarchaeote Sulfolobus acidocaldarius. Here, the first crystal structure of an AbfR ortholog, AbfR2, the deletion of which is known to impair biofilm formation, is presented. Like most other wHTH orthologs, AbfR2 is dimeric in solution as well as in its 2.45 Å resolution crystal structure. Given the presence of three independent AbfR2 dimers in the asymmetric unit, the crystal structure shows a considerable degree of conformational variation within the dimer, the antiparallel orientations of which are stabilized by coiled-coil interaction between H4 helices. Conserved anchor interactions between helices H0 and H4 of AbfR2 further contribute to dimer stabilization. The combined structural and bioinformatic analysis reveals cluster-specific structural differences between different members of the Lrs14 protein family.


  • Organizational Affiliation

    Structural Biochemistry - Department of Chemistry, Philipps University Marburg, Hans-Meerwein Strasse 4, 35032 Marburg, Germany.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Transcriptional regulator Lrs14-like protein
A, B, C, D, E
A, B, C, D, E, F
139Sulfolobus acidocaldariusMutation(s): 0 
Gene Names: ATY89_00385ATZ20_03430
UniProt
Find proteins for Q4J9G1 (Sulfolobus acidocaldarius (strain ATCC 33909 / DSM 639 / JCM 8929 / NBRC 15157 / NCIMB 11770))
Explore Q4J9G1 
Go to UniProtKB:  Q4J9G1
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ4J9G1
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
MPD
Query on MPD

Download Ideal Coordinates CCD File 
J [auth A]
K [auth A]
L [auth A]
M [auth B]
Q [auth C]
J [auth A],
K [auth A],
L [auth A],
M [auth B],
Q [auth C],
R [auth D],
S [auth D],
T [auth D],
U [auth E],
W [auth F],
X [auth F]
(4S)-2-METHYL-2,4-PENTANEDIOL
C6 H14 O2
SVTBMSDMJJWYQN-YFKPBYRVSA-N
GOL
Query on GOL

Download Ideal Coordinates CCD File 
G [auth A]
H [auth A]
I [auth A]
N [auth C]
O [auth C]
G [auth A],
H [auth A],
I [auth A],
N [auth C],
O [auth C],
P [auth C],
V [auth F]
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Modified Residues  1 Unique
IDChains TypeFormula2D DiagramParent
MSE
Query on MSE
A, B, C, D, E
A, B, C, D, E, F
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.45 Å
  • R-Value Free: 0.217 
  • R-Value Work: 0.166 
  • R-Value Observed: 0.168 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 72.859α = 90
b = 94.314β = 112
c = 78.909γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
SCALAdata scaling
CRANK2phasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Sonderforschungsbereich (SFB)Germany987

Revision History  (Full details and data files)

  • Version 1.0: 2018-11-14
    Type: Initial release