The three-dimensional model of Dictyostelium discoideum racE based on the human rhoA-GDP crystal structure

Journal of Molecular Graphics and Modelling

Volumn 21, Issue 1, 2002, Pages 3-18

  Agarwal, Madhavi ^a   Nelson, Donald J ^a   Larochelle, Denis A ^a  

^a CLARK UNIVERSITY   (United States)

Author keywords

Modeling; Molecular dynamics; racE; rhoA

Indexed keywords

NUCLEOTIDES;

COMPUTER SIMULATION; CRYSTAL STRUCTURE; HYDROLYSIS; MOLECULAR DYNAMICS; POSITIVE IONS; PROTEINS;

MOLECULAR GRAPHICS;

ASPARAGINE; ASPARTIC ACID; GLUTAMINE; GUANINE NUCLEOTIDE BINDING PROTEIN; METAL ION; NUCLEOTIDE; PHOSPHATE; PROTEIN RACE; PROTOZOAL PROTEIN; RAS PROTEIN; RHOA GUANINE NUCLEOTIDE BINDING PROTEIN; THREONINE; UNCLASSIFIED DRUG; VALINE; WATER;

ALPHA HELIX; ARTICLE; BINDING SITE; CONTROLLED STUDY; CRYSTAL STRUCTURE; DICTYOSTELIUM DISCOIDEUM; GENE INSERTION; HUMAN; MOLECULAR DYNAMICS; MOLECULAR MODEL; NONHUMAN; PREDICTION; PRIORITY JOURNAL; PROTEIN DOMAIN; PROTEIN FOLDING; PROTEIN FUNCTION; PROTEIN HYDROLYSIS; PROTEIN INTERACTION; PROTEIN SECONDARY STRUCTURE; PROTEIN STRUCTURE; PROTEIN TERTIARY STRUCTURE; SEQUENCE HOMOLOGY; SIMULATION;

AMINO ACID SEQUENCE; ANIMALS; BINDING SITES; COMPUTER SIMULATION; CRYSTALLOGRAPHY, X-RAY; DICTYOSTELIUM; GUANOSINE DIPHOSPHATE; HUMANS; MODELS, MOLECULAR; MOLECULAR SEQUENCE DATA; PROTEIN STRUCTURE, SECONDARY; PROTEIN STRUCTURE, TERTIARY; PROTOZOAN PROTEINS; RAC GTP-BINDING PROTEINS; RHOA GTP-BINDING PROTEIN; SEQUENCE ALIGNMENT;

DICTYOSTELIUM; DICTYOSTELIUM DISCOIDEUM; INSERTION SEQUENCES;

EID: 0036283753     PISSN: 10933263     EISSN: None     Source Type: Journal    
DOI: 10.1016/S1093-3263(01)00137-1     Document Type: Article

References (52)

1. Three-dimensional structure of an oncogenic protein: Catalytic domain of human c-H-ras p21
2. The crystal structure of human rac1, a member of the rho-family complexed with a GTP analogue
3. Crystal structure of human RhoA in a dominantly active form complexed with a GTP analogue
4. Crystal structure of a small G protein in complex with the GTPase-activating protein rhoGAP
5. Crystal structure of RhoA-GDP and its functional implications
6. The GTPase superfamily: Conserved structure and molecular mechanism
7. G proteins: Transducers of receptor-generated signals
8. The role of guanosine 5′-triphosphate in polypeptide chain elongation
9. G proteins: A family of signal transducers
10. Small GTP-binding proteins and the regulation of the action cytoskeleton
11. The small GTP-binding protein rho regulates the assembly of focal adhesions and actin stress fibers in response to growth factors
12. Regulation of cytoplasmic division of Xenopus embryo by rho p21 and its inhibitory GDP/GTP exchange protein (rho GDI)
13. A rho-like protein is involved in the organisation of the contractile ring in dividing sand dollar eggs
14. A novel member of the rho family of small GTP-binding proteins is specifically required for cytokinesis
15. Structure and function of the cytoskeleton of a Dictyostelium myosin-defective mutant
16. Role of Dictyostelium racE in cytokinesis: Mutational analysis and localization studies by use of green fluorescent protein
17. A role for Dictyostelium racE in cortical tension and cleavage furrow progression
18. Molecular analysis of racE function in Dictyostelium
19. Cloning and characterization of seven novel Dictyostelium discoideum rac-related genes belonging to the rho family of GTPases
20. Basic local alignment search tool
21. SAWTED: Structure assignment with text description-enhanced detection of remote homologues with automated SWISS-PROT annotation comparisons
22. Jpred: A consensus secondary structure prediction server
23. SWISS-MODEL and the Swiss-PdbViewer: An environment for comparative protein modeling
24. Analysis of six protein structures predicted by comparative modeling techniques
25. Large-scale comparative protein modelling
26. Protein modelling by E-Mail
27. ProMod: Automated knowledge-based protein modelling tool
28. ProMod and Swiss-Model: Internet-based tools for automated comparative protein modelling
29. Large scale protein modelling and model repository
30. Rac insert region is a novel effector region that is implicated in the activation of NADPH oxidase, but not PAK65
31. Regulation of the human NADPH oxidase by rho-related G-Proteins
32. Molecular modelling of proteins
33. Protein modelling for all
34. High protein-crunch
35. The effector interactions of p21ras
36. Interaction of Rac with p67phox and regulation of phagocytic NADPH oxidase activity
37. Ras effector-homologue region on Rac regulates protein associations in the neutrophil respiratory burst oxidase complex
38. Differing structural requirements for GTPase-activating protein responsiveness and NADPH oxidase activation by Rac
39. Characterization of the effector-specifying domain of Rac involved in NADPH oxidase activation
40. Sema3A-induced growth-cone collapse is mediated by Rac1 amino acids 17-32
41. G proteins, effectors and GAPs: Structure and mechanism
42. Molecular switch for signal transduction: Structural differences between active and inactive forms of protooncogenic ras proteins
43. Solution structure and dynamics of ras p21.GDP determined by heteronuclear three- and four-dimensional NMR spectroscopy
44. Structure of the guanine-nucleotide-binding domain of the Ha-ras oncogene product p21 in the triphosphate conformation
45. GTPase-activating proteins and their complexes
46. GTPase-activating proteins: Helping hands to complement an active site
47. The Ras-RasGAP complex: Structural basis for GTPase activation and its loss in oncogenic Ras mutants
48. Biological and biochemical properties of human RasH genes mutated at codon 61
49. Structural requirements for the interaction of p21ras with GAP, exchange factors, and its biological effector target
50. Mutational analysis of novel effector domains in Rac1 involved in the activation of nicotinamide adenine dinucleotide phosphate (reduced) oxidase
51. Peptide walking is a novel method for mapping functional domains of proteins
52. PROCHECK: A program to check the stereochemical quality of protein structures