6F3A Motor Protein date Nov 28, 2017
title Cryo-Em Structure Of A Single Dynein Tail Domain Bound To Dy Bicd2n
authors L.Urnavicius, C.K.Lau, M.M.Elshenawy, E.Morales-Rios, C.Motz, A.Y A.P.Carter
compound source
Molecule: Arp1 Actin Related Protein 1 Homolog A
Chain: A, B, C, D, E, F, G, I
Other_details: Adp: Adenosine Diphosphate
 Organism_scientific: Sus Scrofa
Organism_common: Pig
Organism_taxid: 9823

Molecule: Actin, Cytoplasmic 1
Chain: H
Synonym: Beta-Actin
Other_details: Atp: Adenosine Triphosphate
Organism_scientific: Sus Scrofa
Organism_common: Pig
Organism_taxid: 9823

Molecule: Actin Related Protein 10 Homolog
Chain: J
Other_details: Adp: Adenosine Diphosphate
Organism_scientific: Sus Scrofa
Organism_common: Pig
Organism_taxid: 9823

Molecule: Capping Protein (Actin Filament) Muscle Z-Line, A
Chain: K
Synonym: F-Actin Capping Protein Alpha 1 Subunit,F-Actin Ca Protein Subunit Alpha 1;
Organism_scientific: Sus Scrofa
Organism_common: Pig
Organism_taxid: 9823

Molecule: F-Actin Capping Protein Beta Subunit
Chain: L
Synonym: F-Actin-Capping Protein Subunit Beta,F-Actin-Cappi Subunit Beta Isoform 1;
Organism_scientific: Sus Scrofa
Organism_common: Pig
Organism_taxid: 9823

Molecule: Dynactin Subunit 2
Chain: M
Organism_scientific: Sus Scrofa
Organism_common: Pig
Organism_taxid: 9823

Molecule: Dynactin Subunit 2
Chain: N
Organism_scientific: Sus Scrofa
Organism_common: Pig
Organism_taxid: 9823

Molecule: Dynactin Subunit 3
Chain: O, P
Organism_scientific: Sus Scrofa
Organism_common: Pig
Organism_taxid: 9823

Molecule: Dynactin Subunit 2
Chain: Q, R
Organism_scientific: Sus Scrofa
Organism_common: Pig
Organism_taxid: 9823

Molecule: Dynactin 6
Chain: U
Organism_scientific: Sus Scrofa
Organism_common: Pig
Organism_taxid: 9823

Molecule: Dynactin Subunit 5
Chain: V
Organism_scientific: Sus Scrofa
Organism_common: Pig
Organism_taxid: 9823

Molecule: Dynactin Subunit 4
Chain: Y
Organism_scientific: Sus Scrofa
Organism_common: Pig
Organism_taxid: 9823

Molecule: Dynactin Subunit 1
Chain: Z
Organism_scientific: Sus Scrofa
Organism_common: Pig
Organism_taxid: 9823

Molecule: Dynactin Subunit 2
Chain: a
Organism_scientific: Sus Scrofa
Organism_common: Pig
Organism_taxid: 9823

Molecule: Dynactin Subunit 2
Chain: b, c, d
Organism_scientific: Sus Scrofa
Organism_common: Pig
Organism_taxid: 9823

Molecule: Cytoplasmic Dynein 1 Heavy Chain 1
Chain: e, f
Synonym: Cytoplasmic Dynein Heavy Chain 1,Dynein Heavy Chai Cytosolic;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Dync1h1, Dhc1, Dnch1, Dncl, Dnecl, Dyhc, Kiaa0325
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108
Expression_system_cell_line: Sf9

Molecule: Cytoplasmic Dynein 1 Intermediate Chain 2
Chain: g, h
Synonym: Cytoplasmic Dynein Intermediate Chain 2,Dynein Int Chain 2,Cytosolic,Dh Ic-2;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Dync1i2, Dnci2, Dncic2
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108
Expression_system_cell_line: Sf9

Molecule: Cytoplasmic Dynein 1 Light Intermediate Chain 2
Chain: j
Synonym: Dynein Light Intermediate Chain 2,Cytosolic,Lic-2,
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Dync1li2, Dncli2, Lic2
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108

Molecule: Dynein Light Chain Roadblock-Type 1
Chain: k, l
Synonym: Bithoraxoid-Like Protein,Blp,Dynein Light Chain 2a Cytoplasmic,Dynein-Associated Protein Km23,Roadblock Domain Containing Protein 1;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Dynlrb1, Bith, Dncl2a, Dnlc2a, Robld1, Hspc162
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108

Molecule: Dynactin Subunit 1
Chain: z
Organism_scientific: Sus Scrofa
Organism_common: Pig
Organism_taxid: 9823

Molecule: Bicd2n
Chain: 5, 6
Engineered: Yes
Organism_scientific: Mus Musculus
Organism_taxid: 10090
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108
symmetry Space Group: P 1
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
1.000 1.000 1.000 90.00 90.00 90.00
method Electron Microscopyresolution 8.20 Å
ligand ADP, ATP enzyme
Gene
Ontology
ChainFunctionProcessComponent
H
  • structural constituent of po...


    • J
  • retrograde axonal transport ...

    • K


    L


    U


    V


    a, d, c, b


    f, e


    h, g


    j


    k, l


    Primary referenceCryo-EM shows how dynactin recruits two dyneins for faster movement., Urnavicius L, Lau CK, Elshenawy MM, Morales-Rios E, Motz C, Yildiz A, Carter AP, Nature. 2018 Feb 7;554(7691):202-206. doi: 10.1038/nature25462. PMID:29420470
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (951 Kb) [Save to disk]
  • Biological Unit Coordinates (6f3a.pdb1.gz) 899 Kb
  • LPC: Ligand-Protein Contacts for 6F3A
  • CSU: Contacts of Structural Units for 6F3A
  • Retrieve 6F3A in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6F3A from S2C, [Save to disk]
    • View 6F3A in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
    • Visual 3D analysis of 6F3A
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6f3a_b] [6f3a_Y] [6f3a_J] [6f3a_c] [6f3a_z] [6f3a_L] [6f3a_U] [6f3a_P] [6f3a_K] [6f3a_j] [6f3a_M] [6f3a_F] [6f3a_N] [6f3a_Z] [6f3a_d] [6f3a_E] [6f3a_g] [6f3a_f] [6f3a_G] [6f3a_V] [6f3a_6] [6f3a_I] [6f3a_H] [6f3a_h] [6f3a_B] [6f3a_e] [6f3a_a] [6f3a_C] [6f3a_l] [6f3a_R] [6f3a_D] [6f3a_O] [6f3a_k] [6f3a_Q] [6f3a_5] [6f3a_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 6F3A
  • Community annotation for 6F3A at PDBWiki (http://pdbwiki.org)

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