Browsing gene banks for Fe2S2 ferredoxins and structural modeling of 88 plant-type sequences: An analysis of fold and function

Proteins: Structure, Function and Genetics

Volumn 46, Issue 1, 2002, Pages 110-127

  Bertini, Ivano ^a   Luchinat, Claudio ^a,b   Provenzani, Alessandro ^a   Rosato, Antonio ^a   Vasos, Paul R ^a  

^a UNIVERSITY OF FLORENCE   (Italy)

^b Department of Agricultural Biotechnology ^*  (Italy)

Author keywords

Electron transfer; Ferredoxin; Protein protein interaction; Redox potential; Structure modeling

Indexed keywords

ADRENODOXIN; COMPLEMENTARY DNA; FERREDOXIN; IRON SULFUR PROTEIN; PROTEIN PRECURSOR; SOLVENT; VEGETABLE PROTEIN;

AMINO ACID SEQUENCE; ARTICLE; CONTROLLED STUDY; DATA BASE; DNA LIBRARY; ELECTRON TRANSPORT; EXPERIMENTAL MODEL; HYDROPHOBICITY; NONHUMAN; PRIORITY JOURNAL; PROTEIN BINDING; PROTEIN FOLDING; PROTEIN PROTEIN INTERACTION; PROTEIN SECONDARY STRUCTURE; PROTEIN TERTIARY STRUCTURE; RELIABILITY; SEQUENCE ANALYSIS; SEQUENCE HOMOLOGY; STEREOCHEMISTRY; STRUCTURE ACTIVITY RELATION; STRUCTURE ANALYSIS; SURFACE CHARGE; THERMODYNAMICS; UNINDEXED SEQUENCE;

AMINO ACID SEQUENCE; ANIMALS; COMPUTATIONAL BIOLOGY; DATABASES, PROTEIN; FERREDOXIN-NADP REDUCTASE; FERREDOXINS; HUMANS; MODELS, MOLECULAR; MOLECULAR SEQUENCE DATA; OXIDATION-REDUCTION; PLANT PROTEINS; PROTEIN CONFORMATION; PROTEIN FOLDING; SEQUENCE ALIGNMENT; SEQUENCE HOMOLOGY, AMINO ACID;

EID: 0036140264     PISSN: 08873585     EISSN: None     Source Type: Journal    
DOI: 10.1002/prot.10009     Document Type: Article

References (48)

1. Structural and functional diversity of ferredoxins and related proteins
2. Coordination sphere versus protein environment as determinants of electronic and functional properties of iron-sulfur proteins
3. Structure-function studies of [2Fe-2S] ferredoxins
4. + reductase: Site-directed mutagenesis and laser flash photolysis
5. + reductase
6. + reductase for site-specific ferredoxin mutants
7. (+) reductase and sulfite reductase
8. + oxidoreductase: The role of carboxyl groups, electrostatic surface potential, and molecular dipole moment
9. Adrenodoxin: Structure, stability, and electron transfer properties
10. Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
11. The ClustalX windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools
12. PHYLIP - Phylogeny Inference Package (Version 3.2)
13. Comparative protein modelling by satisfaction of spatial restraints
14. The protein data bank
15. 1H and 15N NMR sequential assignment, secondary structure, and tertiary fold of [2Fe-2S] ferredoxin from Synechocystis sp. PCC 6803
16. Recognition of errors in the three-dimensional structures
17. PRO-CHECK: A program to check the stereochemical quality of protein structures
18. MOLMOL: A program for display and analysis of macromolecular structure
19. Electrostatic contributions to the stability of halophilic proteins
20. Insights into protein adaptation to a saturated salt environment from the crystal structure of a halophilic 2Fe-2S ferredoxin
21. Crystal structure determination at 1.4 Å resolution of ferredoxin from the green alga Chlorella fusca
22. Structure of the mutant E92K of [2Fe-2S] ferredoxin I from Spinacia oleracea at 1.7 Åresolution
23. Molecular structure of oxidized, recombinant, h eterocyst 2Fe-2S ferredoxin from Anabaena 7120 determined to 1.7 Å resolution
24. Structure of [2Fe-2S] ferredoxin I from Equisetum arvense at 1.8 Å resolution
25. Solution structure of ferredoxin from the thermophilic cyanobacterium Synechococcus elongatus and its thermostability
26. Tertiary structure of [2Fe-2S] ferredoxin from Spirulina platensis refined at 2.5 Å resolution: Structural comparisons of plant-type ferredoxins and an electrostatic potential analysis
27. Refined X-ray structures of the oxidized, at 1.3 Å, and reduced, at 1.17 Å, [2Fe-2S] ferredoxin from the cyanobacterium Anabaena Pcc7119 show redox-linked conformational changes
28. Structure of the [2Fe-2S] ferredoxin I from the blue-green alga Aphanothece sacrum at 2.2 Å resolution
29. The solution structure of parsley [2Fe-2S] ferredoxin
30. Structure of a thioredoxin-like [2Fe-2S] ferredoxin from Aquifex aeolicus
31. Evaluation of comparative protein modeling by MODELLER
32. Sequence and structure conservation in a protein core
33. Mitochondrial cytochromes c: A comparative analysis
34. ModBase: A database of annotated comparative protein structure models
35. Protein modelling for all
36. Identification of localized redox states in plant-type two-iron ferredoxins using the nuclear overhauser effect
37. 4 ferredoxins
38. In vivo reactivation of catechol 2,3-dioxygenase mediated by a chloroplast-type ferredoxin: A bacterial strategy to expand the substrate specificity of aromatic degradative pathways
39. Characterization of three XylT-like [2Fe-2S] ferredoxins associated with catabolism of cresols or naphthalene: Evidence for their involvement in catechol dioxygenase reactivation
40. Protein-protein interfaces: Analysis of amino acid conservation in homodimers
41. + reductase
42. + reductase system from Anabaena
43. + photoreduction
44. Functional diversity of PH domains: An exhaustive modelling study
45. Classification of protein sequences by homology modeling and quantitative analysis of electrostatic similarity
46. Ligand specificity of brain lipid-binding protein
47. Packaging of proteases and proteoglycans in the granules of mast cells and other hematopoietic cells
48. Comparative protein structure modeling of genes and genomes