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* Residue conservation analysis
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Enzyme class:
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Chain E:
E.C.4.6.1.18
- pancreatic ribonuclease.
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Reaction:
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1.
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an [RNA] containing cytidine + H2O = an [RNA]-3'-cytidine- 3'-phosphate + a 5'-hydroxy-ribonucleotide-3'-[RNA]
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2.
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an [RNA] containing uridine + H2O = an [RNA]-3'-uridine-3'-phosphate + a 5'-hydroxy-ribonucleotide-3'-[RNA]
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Nature
374:183-186
(1995)
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PubMed id:
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A structural basis of the interactions between leucine-rich repeats and protein ligands.
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B.Kobe,
J.Deisenhofer.
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ABSTRACT
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The leucine-rich repeat is a recently characterized structural motif used in
molecular recognition processes as diverse as signal transduction, cell
adhesion, cell development, DNA repair and RNA processing. We present here the
crystal structure at 2.5 A resolution of the complex between ribonuclease A and
ribonuclease inhibitor, a protein built entirely of leucine-rich repeats. The
unusual non-globular structure of ribonuclease inhibitor, its solvent-exposed
parallel beta-sheet and the conformational flexibility of the structure are used
in the interaction; they appear to be the principal reasons for the
effectiveness of leucine-rich repeats as protein-binding motifs. The structure
can serve as a model for the interactions of other proteins containing
leucine-rich repeats with their ligands.
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Literature references that cite this PDB file's key reference
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PubMed id
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Reference
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ARABIDILLO proteins have a novel and conserved domain structure important for the regulation of their stability.
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PDB codes:
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R.M.Harris,
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Quantitative analysis and prediction of curvature in leucine-rich repeat proteins.
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Proteins,
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Molecular basis of the interactions of the Nogo-66 receptor and its homolog NgR2 with myelin-associated glycoprotein: development of NgROMNI-Fc, a novel antagonist of CNS myelin inhibition.
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J Neurosci,
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L.Song,
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Membrane steroid-binding protein 1 (MSBP1) negatively regulates brassinosteroid signaling by enhancing the endocytosis of BAK1.
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Cell Res,
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M.N.O'Connor,
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J.J.Zwaginga,
S.L.Bray,
F.Dudbridge,
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A.H.Goodall,
H.Deckmyn,
D.L.Stemple,
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Functional genomics in zebrafish permits rapid characterization of novel platelet membrane proteins.
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Blood,
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Recent insights into the structure of Toll-like receptors and post-translational modifications of their associated signalling proteins.
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Biochem J,
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(2008).
Crystal structure of bovine mitochondrial factor B at 0.96-A resolution.
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| |
Proc Natl Acad Sci U S A,
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PDB codes:
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J.Pereda,
J.Escobar,
J.Sandoval,
J.L.Rodríguez,
L.Sabater,
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J.Viña,
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Glutamate cysteine ligase up-regulation fails in necrotizing pancreatitis.
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U.Mathesius,
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Bioinformatic analysis of the CLE signaling peptide family.
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BMC Plant Biol,
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The Nod-like receptor (NLR) family: a tale of similarities and differences.
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PLoS ONE,
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P.McGann,
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Differential regulation of Listeria monocytogenes internalin and internalin-like genes by sigmaB and PrfA as revealed by subgenomic microarray analyses.
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Foodborne Pathog Dis,
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Q.R.Fan,
and
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(2008).
Comparative structural analysis of the binding domain of follicle stimulating hormone receptor.
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| |
Proteins,
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T.J.Rutkoski,
and
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Evasion of ribonuclease inhibitor as a determinant of ribonuclease cytotoxicity.
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Two modes of ligand recognition by TLRs.
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J.Ko,
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Leucine-rich repeat proteins of synapses.
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J Neurosci Res,
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Comparative sequence analysis of leucine-rich repeats (LRRs) within vertebrate toll-like receptors.
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Assembly and structural characterization of an authentic complex between human follicle stimulating hormone and a hormone-binding ectodomain of its receptor.
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Mol Cell Endocrinol,
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Inhibition of human pancreatic ribonuclease by the human ribonuclease inhibitor protein.
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| |
J Mol Biol,
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PDB codes:
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R.J.Johnson,
L.D.Lavis,
and
R.T.Raines
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Intraspecies regulation of ribonucleolytic activity.
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Biochemistry,
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Investigation of the mechanism of binding between internalin B and heparin using surface plasmon resonance.
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The crystal structure of the tumor suppressor protein pp32 (Anp32a): structural insights into Anp32 family of proteins.
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PDB codes:
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Y.Tabel,
A.Berdeli,
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Association of TLR2 gene Arg753Gln polymorphism with urinary tract infection in children.
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Unfolding transition state and intermediates of the tumor suppressor p16INK4a investigated by molecular dynamics simulations.
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The streptococcal Blr and Slr proteins define a family of surface proteins with leucine-rich repeats: camouflaging by other surface structures.
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T.Minaguchi,
K.Oda,
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Human homolog of Drosophila tumor suppressor Scribble negatively regulates cell-cycle progression from G1 to S phase by localizing at the basolateral membrane in epithelial cells.
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| |
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PDB codes:
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The trap-like relaxin-binding site of the leucine-rich G-protein-coupled receptor 7.
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Ribonuclease inhibitor: structure and function.
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Prog Nucleic Acid Res Mol Biol,
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A novel degron-mediated degradation of the RTG pathway regulator, Mks1p, by SCFGrr1.
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Mol Biol Cell,
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J.Lu,
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(2005).
Analysis of the interactions of ribonuclease inhibitor with kanamycin.
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J Mol Model,
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A.N.Weber,
M.A.Morse,
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(2004).
Four N-linked glycosylation sites in human toll-like receptor 2 cooperate to direct efficient biosynthesis and secretion.
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J Biol Chem,
279,
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D.A.Halterman,
and
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A single-amino acid substitution in the sixth leucine-rich repeat of barley MLA6 and MLA13 alleviates dependence on RAR1 for disease resistance signaling.
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| |
Plant J,
38,
215-226.
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D.Alvarado,
A.H.Rice,
and
J.B.Duffy
(2004).
Knockouts of Kekkon1 define sequence elements essential for Drosophila epidermal growth factor receptor inhibition.
|
| |
Genetics,
166,
201-211.
|
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|
D.M.Monti,
and
G.D'Alessio
(2004).
Cytosolic RNase inhibitor only affects RNases with intrinsic cytotoxicity.
|
| |
J Biol Chem,
279,
39195-39198.
|
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|
|
F.A.Derheimer,
C.M.MacLaren,
B.P.Weasner,
D.Alvarado,
and
J.B.Duffy
(2004).
Conservation of an inhibitor of the epidermal growth factor receptor, Kekkon1, in dipterans.
|
| |
Genetics,
166,
213-224.
|
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|
|
|
|
|
F.Sica,
A.Di Fiore,
A.Merlino,
and
L.Mazzarella
(2004).
Structure and stability of the non-covalent swapped dimer of bovine seminal ribonuclease: an enzyme tailored to evade ribonuclease protein inhibitor.
|
| |
J Biol Chem,
279,
36753-36760.
|
|
|
PDB code:
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|
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G.Nareyeck,
D.G.Seidler,
D.Troyer,
J.Rauterberg,
H.Kresse,
and
E.Schönherr
(2004).
Differential interactions of decorin and decorin mutants with type I and type VI collagens.
|
| |
Eur J Biochem,
271,
3389-3398.
|
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|
|
K.B.Murray,
W.R.Taylor,
and
J.M.Thornton
(2004).
Toward the detection and validation of repeats in protein structure.
|
| |
Proteins,
57,
365-380.
|
|
|
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|
|
|
K.Kumar,
M.Brady,
and
R.Shapiro
(2004).
Selective abolition of pancreatic RNase binding to its inhibitor protein.
|
| |
Proc Natl Acad Sci U S A,
101,
53-58.
|
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|
L.B.Clark,
P.Viswanathan,
G.Quigley,
Y.C.Chiang,
J.S.McMahon,
G.Yao,
J.Chen,
A.Nelsbach,
and
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PDB codes:
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The most recent references are shown first.
Citation data come partly from CiteXplore and partly
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so more and more references will be included with time.
Where a reference describes a PDB structure, the PDB
codes are
shown on the right.
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