Biological Assembly 1  

 3D View: Structure | Ligand Interaction

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 5-mer - A2B2C1 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 5-mer - A4B1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 214.83 kDa 
• Atom Count: 14908 
• Modelled Residue Count: 1867 
• Deposited Residue Count: 1889 
• Unique protein chains: 3

6RZA

Cryo-EM structure of the human inner arm dynein DNAH7 microtubule binding domain bound to microtubules

• DOI: 10.2210/pdb6RZA/pdb
• EMDataResource: EMD-10060

• Classification: MOTOR PROTEIN
• Organism(s): Mus musculus, Homo sapiens, Sus scrofa
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2019-06-13 Released: 2019-07-10 
• Deposition Author(s): Lacey, S.E., He, S., Scheres, S.H.W., Carter, A.P.
• Funding Organization(s): Medical Research Council (United Kingdom), Wellcome Trust

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 4.50 Å
• Aggregation State: HELICAL ARRAY 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Cryo-EM of dynein microtubule-binding domains shows how an axonemal dynein distorts the microtubule.

Lacey, S.E., He, S., Scheres, S.H., Carter, A.P.

(2019) Elife 8

• PubMed: 31264960 
• DOI: 10.7554/eLife.47145
• Primary Citation of Related Structures:  
  6RZA, 6RZB


• PubMed Abstract: 
  

Dyneins are motor proteins responsible for transport in the cytoplasm and the beating of axonemes in cilia and flagella. They bind and release microtubules via a compact microtubule-binding domain (MTBD) at the end of a coiled-coil stalk. We address how cytoplasmic and axonemal dynein MTBDs bind microtubules at near atomic resolution. We decorated microtubules with MTBDs of cytoplasmic dynein-1 and axonemal dynein DNAH7 and determined their cryo-EM structures using helical Relion. The majority of the MTBD is rigid upon binding, with the transition to the high-affinity state controlled by the movement of a single helix at the MTBD interface. DNAH7 contains an 18-residue insertion, found in many axonemal dyneins, that contacts the adjacent protofilament. Unexpectedly, we observe that DNAH7, but not dynein-1, induces large distortions in the microtubule cross-sectional curvature. This raises the possibility that dynein coordination in axonemes is mediated via conformational changes in the microtubule.

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Organizational Affiliation: 

MRC Laboratory of Molecular Biology, Cambridge, United Kingdom.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cytoplasmic dynein 1 heavy chain 1,Dynein heavy chain 7, axonemal,Cytoplasmic dynein 1 heavy chain 1	X	163	Mus musculus, Homo sapiens	Mutation(s): 0  Gene Names: Dync1h1, Dhc1, Dnch1, Dnchc1, Dyhc, DNAH7, KIAA0944
Find proteins for Q8WXX0 (Homo sapiens) Explore Q8WXX0  Go to UniProtKB:  Q8WXX0
NIH Common Fund Data Resources
PHAROS:  Q8WXX0 GTEx:  ENSG00000118997
Find proteins for Q9JHU4 (Mus musculus) Explore Q9JHU4  Go to UniProtKB:  Q9JHU4
NIH Common Fund Data Resources
IMPC:  MGI:103147

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Tubulin alpha-1B chain	A, C	437	Sus scrofa	Mutation(s): 0  Gene Names: TUBA1B
Find proteins for Q2XVP4 (Sus scrofa) Explore Q2XVP4  Go to UniProtKB:  Q2XVP4

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Tubulin beta chain	B, D	426	Sus scrofa	Mutation(s): 0
Find proteins for P02554 (Sus scrofa) Explore P02554  Go to UniProtKB:  P02554

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
TA1	B, D	TAXOL C47 H51 N O14 RCINICONZNJXQF-MZXODVADSA-N
GTP	A, C	GUANOSINE-5'-TRIPHOSPHATE C10 H16 N5 O14 P3 XKMLYUALXHKNFT-UUOKFMHZSA-N
GDP	B, D	GUANOSINE-5'-DIPHOSPHATE C10 H15 N5 O11 P2 QGWNDRXFNXRZMB-UUOKFMHZSA-N
MG	A, C	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 4.50 Å
• Aggregation State: HELICAL ARRAY 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History & Funding Information

Deposition Data

• Deposited Date: 2019-06-13 
• Released Date: 2019-07-10 
Deposition Author(s): Lacey, S.E., He, S., Scheres, S.H.W., Carter, A.P.

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Funding Organization	Location	Grant Number
Medical Research Council (United Kingdom)	United Kingdom	MC_UP_A025_1011
Wellcome Trust	United Kingdom	WT210711

Revision History  

• Version 1.0: 2019-07-10
  Type: Initial release
  
• Version 1.1: 2019-07-17
  Changes: Data collection, Database references