Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 97.49 kDa 
• Atom Count: 6783 
• Modelled Residue Count: 856 
• Deposited Residue Count: 863 
• Unique protein chains: 2

5IJ9

Cryo EM density of microtubule assembled from human TUBB3-D417H mutant

• PDB DOI: 10.2210/pdb5IJ9/pdb
• EM Map EMD-8095: EMDB EMDataResource

• Classification: STRUCTURAL PROTEIN
• Organism(s): Homo sapiens
• Expression System: Trichoplusia ni
• Mutation(s): Yes 


• Deposited: 2016-03-01 Released: 2016-04-20 
• Deposition Author(s): Ti, S.C., Pamula, M.C., Howes, S.C., Duellberg, C., Cade, N.I., Kleiner, R.E., Forth, S., Surrey, T., Nogales, E., Kapoor, T.M.
• Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.70 Å
• Aggregation State: HELICAL ARRAY 
• Reconstruction Method: HELICAL 

Literature

Mutations in Human Tubulin Proximal to the Kinesin-Binding Site Alter Dynamic Instability at Microtubule Plus- and Minus-Ends.

Ti, S.C., Pamula, M.C., Howes, S.C., Duellberg, C., Cade, N.I., Kleiner, R.E., Forth, S., Surrey, T., Nogales, E., Kapoor, T.M.

(2016) Dev Cell 37: 72-84

• PubMed: 27046833 
• DOI: 10.1016/j.devcel.2016.03.003
• Primary Citation of Related Structures:  
  5IJ0, 5IJ9


• PubMed Abstract: 
  

The assembly of microtubule-based cellular structures depends on regulated tubulin polymerization and directional transport. Here, we purify and characterize tubulin heterodimers that have human β-tubulin isotype III (TUBB3), as well as heterodimers with one of two β-tubulin mutations (D417H or R262H). Both point mutations are proximal to the kinesin-binding site and have been linked to an ocular motility disorder in humans. Compared to wild-type, microtubules with these mutations have decreased catastrophe frequencies and increased average lifetimes of plus- and minus-end-stabilizing caps. Importantly, the D417H mutation does not alter microtubule lattice structure or Mal3 binding to growing filaments. Instead, this mutation reduces the affinity of tubulin for TOG domains and colchicine, suggesting that the distribution of tubulin heterodimer conformations is changed. Together, our findings reveal how residues on the surface of microtubules, distal from the GTP-hydrolysis site and inter-subunit contacts, can alter polymerization dynamics at the plus- and minus-ends of microtubules.

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Organizational Affiliation: 

Laboratory of Chemistry and Cell Biology, The Rockefeller University, 1230 York Avenue, New York, NY 10065, USA. Electronic address: [e-mail].

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Tubulin alpha-1B chain	A	437	Homo sapiens	Mutation(s): 0  Gene Names: TUBA1B
UniProt & NIH Common Fund Data Resources
Find proteins for P68363 (Homo sapiens) Explore P68363  Go to UniProtKB:  P68363
PHAROS:  P68363

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Tubulin beta-3 chain	B	426	Homo sapiens	Mutation(s): 1  Gene Names: TUBB3, TUBB4
UniProt & NIH Common Fund Data Resources
Find proteins for Q13509 (Homo sapiens) Explore Q13509  Go to UniProtKB:  Q13509
PHAROS:  Q13509

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GTP	C [auth A]	GUANOSINE-5'-TRIPHOSPHATE C10 H16 N5 O14 P3 XKMLYUALXHKNFT-UUOKFMHZSA-N
GDP	E [auth B]	GUANOSINE-5'-DIPHOSPHATE C10 H15 N5 O11 P2 QGWNDRXFNXRZMB-UUOKFMHZSA-N
MG	D [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.70 Å
• Aggregation State: HELICAL ARRAY 
• Reconstruction Method: HELICAL 

Structure Validation

Entry History & Funding Information

Deposition Data

• Deposited Date: 2016-03-01 
• Released Date: 2016-04-20 
Deposition Author(s): Ti, S.C., Pamula, M.C., Howes, S.C., Duellberg, C., Cade, N.I., Kleiner, R.E., Forth, S., Surrey, T., Nogales, E., Kapoor, T.M.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	GM65933
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	GM051487

Revision History  

• Version 1.0: 2016-04-20
  Type: Initial release
  
• Version 1.1: 2017-09-27
  Changes: Author supporting evidence, Data collection
• Version 1.2: 2019-12-25
  Changes: Author supporting evidence