spacer
spacer

PDBsum entry 1n6m
Go to PDB code: 
protein ligands metals Protein-protein interface(s) links
Cell cycle PDB id
1n6m

 

 

 

 

Loading ...

 
JSmol PyMol  
Contents
Protein chains
362 a.a. *
335 a.a. *
Ligands
ADP ×2
Metals
_MG ×2
Waters ×281
* Residue conservation analysis
PDB id:
1n6m
Name: Cell cycle
Title: Rotation of the stalk/neck and one head in a new crystal structure of the kinesin motor protein, ncd
Structure: Claret segregational protein. Chain: a, b. Fragment: ncd. Synonym: microtubule motor protein. Engineered: yes. Mutation: yes
Source: Drosophila melanogaster. Fruit fly. Organism_taxid: 7227. Expressed in: escherichia coli bl21(de3). Expression_system_taxid: 469008.
Biol. unit: Dimer (from PQS)
Resolution:
2.50Å     R-factor:   0.260     R-free:   0.302
Authors: M.Yun,C.E.Bronner,C.-G.Park,S.-S.Cha,H.-W.Park,S.A.Endow
Key ref: M.Yun et al. (2003). Rotation of the stalk/neck and one head in a new crystal structure of the kinesin motor protein, Ncd. Embo J, 22, 5382-5389. PubMed id: 14532111
Date:
11-Nov-02     Release date:   28-Oct-03    
PROCHECK
Go to PROCHECK summary
 Headers
 References

Protein chain
Pfam   ArchSchema ?
P20480  (NCD_DROME) -  Protein claret segregational from Drosophila melanogaster
Seq:
Struc: 		 
Seq:
Struc: 		700 a.a.
362 a.a.*
Protein chain
Pfam   ArchSchema ?
P20480  (NCD_DROME) -  Protein claret segregational from Drosophila melanogaster
Seq:
Struc: 		 
Seq:
Struc: 		700 a.a.
335 a.a.*
Key:    PfamA domain  Secondary structure  CATH domain
* PDB and UniProt seqs differ at 4 residue positions (black crosses)

 Enzyme reactions 
   Enzyme class: Chains A, B: E.C.3.6.4.-  - ?????
[IntEnz]   [ExPASy]   [KEGG]   [BRENDA]

 

 
Embo J 22:5382-5389 (2003)
PubMed id: 14532111  
 
 
Rotation of the stalk/neck and one head in a new crystal structure of the kinesin motor protein, Ncd.
M.Yun, C.E.Bronner, C.G.Park, S.S.Cha, H.W.Park, S.A.Endow.
 
  ABSTRACT  
 
Molecular motors undergo conformational changes to produce force and move along cytoskeletal filaments. Structural changes have been detected in kinesin motors; however, further changes are expected because previous crystal structures are in the same or closely related conformations. We report here a 2.5 A crystal structure of the minus-end kinesin, Ncd, with the coiled-coil stalk/neck and one head rotated by approximately 75 degrees relative to the other head. The two heads are asymmetrically positioned with respect to the stalk and show asymmetry of nucleotide state: one head is fully occupied, but the other is unstably bound to ADP. Unlike previous structures, our new atomic model can be fit into cryoelectron microscopy density maps of the motor attached to microtubules, where it appears to resemble a one-head-bound motor with the stalk rotated towards the minus end. Interactions between neck and motor core residues, observed in the head that moves with the stalk, are disrupted in the other head, permitting rotation of the stalk/neck. The rotation could represent a force-producing stroke that directs the motor to the minus end.
 

Literature references that cite this PDB file's key reference

  PubMed id Reference
21277856 N.Naber, A.Larson, S.Rice, R.Cooke, and E.Pate (2011).
Multiple conformations of the nucleotide site of Kinesin family motors in the triphosphate state.
  J Mol Biol, 408, 628-642.  
20602775 E.Heuston, C.E.Bronner, F.J.Kull, and S.A.Endow (2010).
A kinesin motor in a force-producing conformation.
  BMC Struct Biol, 10, 19.
PDB code: 3l1c
20731883 R.A.Cross (2010).
Kinesin-14: the roots of reversal.
  BMC Biol, 8, 107.  
19530174 A.Marx, A.Hoenger, and E.Mandelkow (2009).
Structures of kinesin motor proteins.
  Cell Motil Cytoskeleton, 66, 958-966.  
19858211 E.Kocik, K.J.Skowronek, and A.A.Kasprzak (2009).
Interactions between subunits in heterodimeric Ncd molecules.
  J Biol Chem, 284, 35735-35745.  
19490122 S.Adio, and G.Woehlke (2009).
Properties of the kinesin-3 NcKin3 motor domain and implications for neck function.
  FEBS J, 276, 3641-3655.  
19242550 S.Adio, J.Jaud, B.Ebbing, M.Rief, and G.Woehlke (2009).
Dissection of kinesin's processivity.
  PLoS ONE, 4, e4612.  
18202824 L.A.Amos (2008).
Molecular motors: not quite like clockwork.
  Cell Mol Life Sci, 65, 509-515.  
17382884 J.S.Allingham, L.R.Sproul, I.Rayment, and S.P.Gilbert (2007).
Vik1 modulates microtubule-Kar3 interactions through a motor domain that lacks an active site.
  Cell, 128, 1161-1172.
PDB code: 2o0a
17989090 L.A.Amos, and K.Hirose (2007).
A cool look at the structural changes in kinesin motor domains.
  J Cell Sci, 120, 3919-3927.  
16362723 A.Marx, J.Müller, E.M.Mandelkow, A.Hoenger, and E.Mandelkow (2006).
Interaction of kinesin motors, microtubules, and MAPs.
  J Muscle Res Cell Motil, 27, 125-137.  
16973442 K.Hirose, E.Akimaru, T.Akiba, S.A.Endow, and L.A.Amos (2006).
Large conformational changes in a kinesin motor catalyzed by interaction with microtubules.
  Mol Cell, 23, 913-923.  
16382238 N.F.Endres, C.Yoshioka, R.A.Milligan, and R.D.Vale (2006).
A lever-arm rotation drives motility of the minus-end-directed kinesin Ncd.
  Nature, 439, 875-878.  
16698919 Q.Shao, and Y.Q.Gao (2006).
On the hand-over-hand mechanism of kinesin.
  Proc Natl Acad Sci U S A, 103, 8072-8077.  
17012747 S.Adio, M.Bloemink, M.Hartel, S.Leier, M.A.Geeves, and G.Woehlke (2006).
Kinetic and mechanistic basis of the nonprocessive Kinesin-3 motor NcKin3.
  J Biol Chem, 281, 37782-37793.  
17085593 T.Shima, T.Kon, K.Imamula, R.Ohkura, and K.Sutoh (2006).
Two modes of microtubule sliding driven by cytoplasmic dynein.
  Proc Natl Acad Sci U S A, 103, 17736-17740.  
16190984 C.J.Sciambi, D.J.Komma, H.N.Sköld, K.Hirose, and S.A.Endow (2005).
A bidirectional kinesin motor in live Drosophila embryos.
  Traffic, 6, 1036-1046.  
16107877 H.M.Chu, M.Yun, D.E.Anderson, H.Sage, H.W.Park, and S.A.Endow (2005).
Kar3 interaction with Cik1 alters motor structure and function.
  EMBO J, 24, 3214-3223.  
14973135 E.P.Sablin, and R.J.Fletterick (2004).
Coordination between motor domains in processive kinesins.
  J Biol Chem, 279, 15707-15710.  
14988396 M.V.Vinogradova, V.S.Reddy, A.S.Reddy, E.P.Sablin, and R.J.Fletterick (2004).
Crystal structure of kinesin regulated by Ca(2+)-calmodulin.
  J Biol Chem, 279, 23504-23509.
PDB code: 1sdm
14980225 T.Ogawa, R.Nitta, Y.Okada, and N.Hirokawa (2004).
A common mechanism for microtubule destabilizers-M type kinesins stabilize curling of the protofilament using the class-specific neck and loops.
  Cell, 116, 591-602.
PDB codes: 1v8j 1v8k
14638852 L.Wordeman (2003).
Breathing down the neck of Unc104.
  J Cell Biol, 163, 693-695.  
The most recent references are shown first. Citation data come partly from CiteXplore and partly from an automated harvesting procedure. Note that this is likely to be only a partial list as not all journals are covered by either method. However, we are continually building up the citation data so more and more references will be included with time. Where a reference describes a PDB structure, the PDB code is shown on the right.

 

spacer
spacer