5TSJ

Thermus thermophilus V/A-ATPase bound to VH dAbs


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 8.70 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.4 of the entry. See complete history


Literature

Cryo-EM analysis of a domain antibody bound rotary ATPase complex.

Davies, R.B.Smits, C.Wong, A.S.Stock, D.Christie, M.Sandin, S.Stewart, A.G.

(2017) J Struct Biol 197: 350-353

  • DOI: 10.1016/j.jsb.2017.01.002
  • Primary Citation of Related Structures:  
    5TSJ

  • PubMed Abstract: 
  • The bacterial A/V-type ATPase/synthase rotary motor couples ATP hydrolysis/synthesis with proton translocation across biological membranes. The A/V-type ATPase/synthase from Thermus thermophilus has been extensively studied both structurally and functionally for many years ...

    The bacterial A/V-type ATPase/synthase rotary motor couples ATP hydrolysis/synthesis with proton translocation across biological membranes. The A/V-type ATPase/synthase from Thermus thermophilus has been extensively studied both structurally and functionally for many years. Here we provide an 8.7Å resolution cryo-electron microscopy 3D reconstruction of this complex bound to single-domain antibody fragments, small monomeric antibodies containing just the variable heavy domain. Docking of known structures into the density revealed the molecular orientation of the domain antibodies, suggesting that structure determination of co-domain antibody:protein complexes could be a useful avenue for unstable or smaller proteins. Although previous studies suggested that the presence of fluoroaluminate in this complex could change the rotary state of this enzyme, we observed no gross structural rearrangements under these conditions.


    Organizational Affiliation

    Molecular, Structural and Computational Biology Division, The Victor Chang Cardiac Research Institute, Darlinghurst, NSW 2010, Australia; Faculty of Medicine, The University of New South Wales, Sydney, NSW 2052, Australia. Electronic address: a.stewart@victorchang.edu.au.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
V-type ATP synthase alpha chainA, B, C577Thermus thermophilus HB8Mutation(s): 0 
Gene Names: atpATTHA1273
EC: 3.6.3.14 (PDB Primary Data), 7.1.2.2 (UniProt)
UniProt
Find proteins for Q56403 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8))
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UniProt GroupQ56403
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
V-type ATP synthase beta chainD, E, F457Thermus thermophilus HB8Mutation(s): 0 
Gene Names: atpBTTHA1272
UniProt
Find proteins for Q56404 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8))
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UniProt GroupQ56404
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
V-type ATP synthase subunit EG, H186Thermus thermophilus HB8Mutation(s): 0 
Gene Names: atpEvatETTHA1276
UniProt
Find proteins for P74901 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8))
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
V-type ATPase subunit GI, J105Thermus thermophilus HB8Mutation(s): 0 
Gene Names: TTHA1279
UniProt
Find proteins for Q5SIT5 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8))
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
V-type ATP synthase subunit DK210Thermus thermophilus HB8Mutation(s): 0 
Gene Names: atpDvatDTTHA1271
UniProt
Find proteins for O87880 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8))
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UniProt GroupO87880
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
V-type ATP synthase subunit FL100Thermus thermophilus HB8Mutation(s): 0 
Gene Names: atpFvatFTTHA1274
UniProt
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Entity ID: 7
MoleculeChainsSequence LengthOrganismDetailsImage
V-type ATP synthase subunit CM323Thermus thermophilus HB8Mutation(s): 0 
Gene Names: atpCTTHA1275
UniProt
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Entity ID: 8
MoleculeChainsSequence LengthOrganismDetailsImage
Archaeal/vacuolar-type H+-ATPase subunit IN652Thermus thermophilus HB8Mutation(s): 0 
Gene Names: TTHA1278
Membrane Entity: Yes 
UniProt
Find proteins for Q5SIT6 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8))
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Entity ID: 9
MoleculeChainsSequence LengthOrganismDetailsImage
Vacuolar type ATP synthase subunit
O, P, Q, R, S, T, U, V, W, X, Y, Z
O, P, Q, R, S, T, U, V, W, X, Y, Z
99Thermus thermophilus HB8Mutation(s): 0 
Gene Names: TTHA1277
Membrane Entity: Yes 
UniProt
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Entity ID: 10
MoleculeChainsSequence LengthOrganismDetailsImage
Human heavy chain domain antibodyAA [auth 1],
BA [auth 2]
149Homo sapiensMutation(s): 0 
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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 8.70 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Health and Medical Research Council (NHMRC, Australia)Australia1022143
National Health and Medical Research Council (NHMRC, Australia)Australia1047004

Revision History  (Full details and data files)

  • Version 1.0: 2017-02-01
    Type: Initial release
  • Version 1.1: 2017-02-08
    Changes: Database references
  • Version 1.2: 2017-04-05
    Changes: Database references
  • Version 1.3: 2017-09-20
    Changes: Author supporting evidence, Data collection
  • Version 1.4: 2020-01-15
    Changes: Author supporting evidence