8QX4 | pdb_00008qx4

Sulfolobus acidocaldarius Archaellum filament.


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.03 Å
  • Aggregation State: FILAMENT 
  • Reconstruction Method: HELICAL 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Towards a molecular picture of the archaeal cell surface.

Gaines, M.C.Isupov, M.N.McLaren, M.Mollat, C.L.Haque, R.U.Stephenson, J.K.Sivabalasarma, S.Hanus, C.Kattnig, D.Gold, V.A.M.Albers, S.Daum, B.

(2024) Nat Commun 15: 10401-10401

  • DOI: https://doi.org/10.1038/s41467-024-53986-9
  • Primary Citation of Related Structures:  
    8QX4, 8RZL, 9ETS, 9ETT, 9EV0

  • PubMed Abstract: 

    Archaea produce various protein filaments with specialised functions. While some archaea produce only one type of filament, the archaeal model species Sulfolobus acidocaldarius generates four. These include rotary swimming propellers analogous to bacterial flagella (archaella), pili for twitching motility (Aap), adhesive fibres (threads), and filaments facilitating homologous recombination upon UV stress (UV pili). Here, we use cryo-electron microscopy to describe the structure of the S. acidocaldarius archaellum at 2.0 Å resolution, and update the structures of the thread and the Aap pilus at 2.7 Å and 2.6 Å resolution, respectively. We define features unique to archaella of the order Sulfolobales and compare their structure to those of Aap and threads in the context of the S-layer. We define distinct N-glycan patterns in the three filaments and identify a putative O-glycosylation site in the thread. Finally, we ascertain whether N-glycan truncation leads to structural changes in archaella and Aap.


  • Organizational Affiliation
    • Living Systems Institute, University of Exeter, Exeter, UK.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Flagellin293Sulfolobus acidocaldariusMutation(s): 0 
UniProt
Find proteins for M1IUY5 (Sulfolobus acidocaldarius N8)
Explore M1IUY5 
Go to UniProtKB:  M1IUY5
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupM1IUY5
Glycosylation
Glycosylation Sites: 6
Sequence Annotations
Expand
  • Reference Sequence
Oligosaccharides

Help

Entity ID: 2
MoleculeChains Length2D Diagram Glycosylation3D Interactions
6-deoxy-6-sulfo-beta-D-glucopyranose-(1-3)-[alpha-D-mannopyranose-(1-4)][alpha-D-mannopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
AA [auth a],
AD [auth qA],
CC [auth SA],
EB [auth 4],
EE [auth KB],
AA [auth a],
AD [auth qA],
CC [auth SA],
EB [auth 4],
EE [auth KB],
GA [auth g],
GD [auth wA],
IC [auth YA],
KB [auth AA],
MA [auth m],
MD [auth 2A],
OC [auth eA],
QB [auth GA],
SA [auth s],
SD [auth 8A],
U,
UC [auth kA],
WB [auth MA],
YA [auth y],
YD [auth EB]
5N/AN-Glycosylation
Entity ID: 3
MoleculeChains Length2D Diagram Glycosylation3D Interactions
beta-D-glucopyranose-(1-4)-6-deoxy-6-sulfo-beta-D-glucopyranose-(1-3)-[alpha-D-mannopyranose-(1-4)][alpha-D-mannopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
AB [auth 0],
AC [auth QA],
AE [auth GB],
BA [auth b],
BC [auth RA],
AB [auth 0],
AC [auth QA],
AE [auth GB],
BA [auth b],
BC [auth RA],
BD [auth rA],
CA [auth c],
CB [auth 2],
CD [auth sA],
CE [auth IB],
DB [auth 3],
DC [auth TA],
DE [auth JB],
EA [auth e],
EC [auth UA],
ED [auth uA],
FA [auth f],
FB [auth 5],
FD [auth vA],
FE [auth LB],
GB [auth 6],
GC [auth WA],
GE [auth MB],
HA [auth h],
HC [auth XA],
HD [auth xA],
IA [auth i],
IB [auth 8],
ID [auth yA],
IE [auth OB],
JB [auth 9],
JC [auth ZA],
JE [auth PB],
KA [auth k],
KC [auth aA],
KD [auth 0A],
LA [auth l],
LB [auth BA],
LD [auth 1A],
MB [auth CA],
MC [auth cA],
NA [auth n],
NC [auth dA],
ND [auth 3A],
OA [auth o],
OB [auth EA],
OD [auth 4A],
PB [auth FA],
PC [auth fA],
QA [auth q],
QC [auth gA],
QD [auth 6A],
RA [auth r],
RB [auth HA],
RD [auth 7A],
SB [auth IA],
SC [auth iA],
TA [auth t],
TC [auth jA],
TD [auth 9A],
UA [auth u],
UB [auth KA],
UD [auth AB],
V,
VB [auth LA],
VC [auth lA],
W,
WA [auth w],
WC [auth mA],
WD [auth CB],
XA [auth x],
XB [auth NA],
XD [auth DB],
Y,
YB [auth OA],
YC [auth oA],
Z,
ZA [auth z],
ZC [auth pA],
ZD [auth FB]
6N/AN-Glycosylation
Entity ID: 4
MoleculeChains Length2D Diagram Glycosylation3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
BB [auth 1],
BE [auth HB],
DA [auth d],
DD [auth tA],
FC [auth VA],
BB [auth 1],
BE [auth HB],
DA [auth d],
DD [auth tA],
FC [auth VA],
HB [auth 7],
HE [auth NB],
JA [auth j],
JD [auth zA],
LC [auth bA],
NB [auth DA],
PA [auth p],
PD [auth 5A],
RC [auth hA],
TB [auth JA],
VA [auth v],
VD [auth BB],
X,
XC [auth nA],
ZB [auth PA]
2N-Glycosylation
Glycosylation Resources
GlyTouCan:  G42666HT
GlyCosmos:  G42666HT
GlyGen:  G42666HT
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.03 Å
  • Aggregation State: FILAMENT 
  • Reconstruction Method: HELICAL 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTREFMAC5.8.0267
RECONSTRUCTIONcryoSPARC4.4

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
European Research Council (ERC)European Union109784

Revision History  (Full details and data files)

  • Version 1.0: 2024-10-30
    Type: Initial release
  • Version 1.1: 2024-11-13
    Changes: Data collection
  • Version 1.2: 2025-02-05
    Changes: Data collection, Database references