4V0N

Crystal structure of BBS1N in complex with ARL6DN, soaked with mercury


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.13 Å
  • R-Value Free: 0.249 
  • R-Value Work: 0.213 
  • R-Value Observed: 0.214 

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Ligand Structure Quality Assessment 


This is version 1.3 of the entry. See complete history


Literature

Structural Basis for Membrane Targeting of the Bbsome by Arl6

Mourao, A.Nager, A.R.Nachury, M.V.Lorentzen, E.

(2014) Nat Struct Mol Biol 21: 1035

  • DOI: https://doi.org/10.1038/nsmb.2920
  • Primary Citation of Related Structures:  
    4V0K, 4V0L, 4V0M, 4V0N, 4V0O

  • PubMed Abstract: 

    The BBSome is a coat-like ciliary trafficking complex composed of proteins mutated in Bardet-Biedl syndrome (BBS). A critical step in BBSome-mediated sorting is recruitment of the BBSome to membranes by the GTP-bound Arf-like GTPase ARL6. We have determined crystal structures of Chlamydomonas reinhardtii ARL6-GDP, ARL6-GTP and the ARL6-GTP-BBS1 complex. The structures demonstrate how ARL6-GTP binds the BBS1 β-propeller at blades 1 and 7 and explain why GTP- but not GDP-bound ARL6 can recruit the BBSome to membranes. Single point mutations in the ARL6-GTP-BBS1 interface abolish the interaction of ARL6 with the BBSome and prevent the import of BBSomes into cilia. Furthermore, we show that BBS1 with the M390R mutation, responsible for 30% of all reported BBS disease cases, fails to interact with ARL6-GTP, thus providing a molecular rationale for patient pathologies.


  • Organizational Affiliation

    Department of Structural Cell Biology, Max-Planck-Institute of Biochemistry, Martinsried, Germany.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
ARF-LIKE SMALL GTPASE
A, C, E, G
169Chlamydomonas reinhardtiiMutation(s): 0 
UniProt
Find proteins for A8JF99 (Chlamydomonas reinhardtii)
Explore A8JF99 
Go to UniProtKB:  A8JF99
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA8JF99
Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
BARDET-BIEDL SYNDROME 1 PROTEIN
B, D, F, H
425Chlamydomonas reinhardtiiMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
GTP
Query on GTP

Download Ideal Coordinates CCD File 
EB [auth G],
I [auth A],
NA [auth E],
Y [auth C]
GUANOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O14 P3
XKMLYUALXHKNFT-UUOKFMHZSA-N
HG
Query on HG

Download Ideal Coordinates CCD File 
AA [auth C]
AB [auth F]
BA [auth D]
BB [auth F]
CA [auth D]
AA [auth C],
AB [auth F],
BA [auth D],
BB [auth F],
CA [auth D],
CB [auth F],
DA [auth D],
DB [auth F],
EA [auth D],
FA [auth D],
GA [auth D],
GB [auth G],
HA [auth D],
HB [auth H],
IA [auth D],
IB [auth H],
JA [auth D],
JB [auth H],
K [auth A],
KA [auth D],
KB [auth H],
L [auth B],
LA [auth D],
LB [auth H],
M [auth B],
MA [auth D],
MB [auth H],
N [auth B],
NB [auth H],
O [auth B],
OB [auth H],
P [auth B],
PA [auth E],
PB [auth H],
Q [auth B],
QA [auth F],
QB [auth H],
R [auth B],
RA [auth F],
RB [auth H],
S [auth B],
SA [auth F],
SB [auth H],
T [auth B],
TA [auth F],
TB [auth H],
U [auth B],
UA [auth F],
UB [auth H],
V [auth B],
VA [auth F],
W [auth B],
WA [auth F],
X [auth B],
XA [auth F],
YA [auth F],
ZA [auth F]
MERCURY (II) ION
Hg
BQPIGGFYSBELGY-UHFFFAOYSA-N
MG
Query on MG

Download Ideal Coordinates CCD File 
FB [auth G],
J [auth A],
OA [auth E],
Z [auth C]
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.13 Å
  • R-Value Free: 0.249 
  • R-Value Work: 0.213 
  • R-Value Observed: 0.214 
  • Space Group: P 31 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 123.745α = 90
b = 123.745β = 90
c = 443.709γ = 120
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2014-11-19
    Type: Initial release
  • Version 1.1: 2014-11-26
    Changes: Database references
  • Version 1.2: 2014-12-17
    Changes: Database references
  • Version 1.3: 2019-04-03
    Changes: Data collection, Other, Source and taxonomy