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- PDB-1rml: NMR STUDY OF ACID FIBROBLAST GROWTH FACTOR BOUND TO 1,3,6-NAPHTHA... -

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Entry
Database: PDB / ID: 1rml
TitleNMR STUDY OF ACID FIBROBLAST GROWTH FACTOR BOUND TO 1,3,6-NAPHTHALENE TRISULPHONATE, 26 STRUCTURES
ComponentsACIDIC FIBROBLAST GROWTH FACTOR
KeywordsGROWTH FACTOR / FIBROBLAST GROWTH FACTOR / ANTITUMORAL / NAPHTHALENE
Function / homology
Function and homology information


mesonephric epithelium development / branch elongation involved in ureteric bud branching / regulation of endothelial tube morphogenesis / FGFR3b ligand binding and activation / FGFR2b ligand binding and activation / regulation of endothelial cell chemotaxis to fibroblast growth factor / FGFR2c ligand binding and activation / Activated point mutants of FGFR2 / Phospholipase C-mediated cascade; FGFR2 / Signaling by activated point mutants of FGFR3 ...mesonephric epithelium development / branch elongation involved in ureteric bud branching / regulation of endothelial tube morphogenesis / FGFR3b ligand binding and activation / FGFR2b ligand binding and activation / regulation of endothelial cell chemotaxis to fibroblast growth factor / FGFR2c ligand binding and activation / Activated point mutants of FGFR2 / Phospholipase C-mediated cascade; FGFR2 / Signaling by activated point mutants of FGFR3 / FGFR3c ligand binding and activation / Phospholipase C-mediated cascade; FGFR3 / positive regulation of cholesterol biosynthetic process / fibroblast growth factor receptor binding / FGFR4 ligand binding and activation / FGFR1b ligand binding and activation / Phospholipase C-mediated cascade; FGFR4 / Signaling by activated point mutants of FGFR1 / organ induction / FGFR1c ligand binding and activation / Downstream signaling of activated FGFR1 / Phospholipase C-mediated cascade: FGFR1 / S100 protein binding / positive regulation of hepatocyte proliferation / positive regulation of intracellular signal transduction / Signaling by FGFR2 IIIa TM / PI-3K cascade:FGFR2 / PI-3K cascade:FGFR3 / PI-3K cascade:FGFR4 / positive regulation of sprouting angiogenesis / PI-3K cascade:FGFR1 / positive regulation of cell division / PI3K Cascade / fibroblast growth factor receptor signaling pathway / anatomical structure morphogenesis / SHC-mediated cascade:FGFR2 / SHC-mediated cascade:FGFR3 / SHC-mediated cascade:FGFR4 / SHC-mediated cascade:FGFR1 / FRS-mediated FGFR2 signaling / FRS-mediated FGFR3 signaling / Signaling by FGFR2 in disease / FRS-mediated FGFR4 signaling / Signaling by FGFR3 in disease / FRS-mediated FGFR1 signaling / Signaling by FGFR1 in disease / Hsp70 protein binding / activation of protein kinase B activity / regulation of cell migration / positive regulation of endothelial cell migration / extracellular matrix / epithelial cell proliferation / animal organ morphogenesis / Negative regulation of FGFR2 signaling / Negative regulation of FGFR3 signaling / lung development / Negative regulation of FGFR4 signaling / Negative regulation of FGFR1 signaling / growth factor activity / positive regulation of MAP kinase activity / wound healing / positive regulation of angiogenesis / Constitutive Signaling by Aberrant PI3K in Cancer / integrin binding / PIP3 activates AKT signaling / heparin binding / cell cortex / cellular response to heat / PI5P, PP2A and IER3 Regulate PI3K/AKT Signaling / RAF/MAP kinase cascade / angiogenesis / positive regulation of ERK1 and ERK2 cascade / cell differentiation / positive regulation of cell migration / positive regulation of cell population proliferation / positive regulation of gene expression / signal transduction / positive regulation of transcription by RNA polymerase II / extracellular space / extracellular region / nucleoplasm / nucleus / cytosol / cytoplasm
Similarity search - Function
HBGF/FGF family signature. / Fibroblast growth factor family / Fibroblast growth factor / Acidic and basic fibroblast growth factor family. / Cytokine IL1/FGF / Trefoil (Acidic Fibroblast Growth Factor, subunit A) - #50 / Trefoil (Acidic Fibroblast Growth Factor, subunit A) / Trefoil / Mainly Beta
Similarity search - Domain/homology
NAPHTHALENE TRISULFONATE / Fibroblast growth factor 1
Similarity search - Component
Biological speciesHomo sapiens (human)
MethodSOLUTION NMR / VARIABLE TARGET FUNCTION
AuthorsLozano, R.M. / Jimenez, M.A. / Santoro, J. / Rico, M. / Gimenez-Gallego, G.
Citation
Journal: J.Mol.Biol. / Year: 1998
Title: Solution structure of acidic fibroblast growth factor bound to 1,3, 6-naphthalenetrisulfonate: a minimal model for the anti-tumoral action of suramins and suradistas.
Authors: Lozano, R.M. / Jimenez, M. / Santoro, J. / Rico, M. / Gimenez-Gallego, G.
#1: Journal: J.Mol.Biol. / Year: 1996
Title: Three-Dimensional Structure of Acidic Fibroblast Growth Factor in Solution: Effects of Binding to a Heparin Functional Analog
Authors: Pineda-Lucena, A. / Jimenez, M.A. / Lozano, R.M. / Nieto, J.L. / Santoro, J. / Rico, M. / Gimenez-Gallego, G.
#2: Journal: J.Mol.Biol. / Year: 1994
Title: 1H-NMR Assignment and Solution Structure of Human Acidic Fibroblast Growth Factor Activated by Inositol Hexasulfate
Authors: Pineda-Lucena, A. / Jimenez, M.A. / Nieto, J.L. / Santoro, J. / Rico, M. / Gimenez-Gallego, G.
#3: Journal: J.Mol.Biol. / Year: 1994
Title: Erratum. 1H-NMR Assignment and Solution Structure of Human Acidic Fibroblast Growth Factor Activated by Inositol Hexasulfate
Authors: Pineda-Lucena, A. / Jimenez, M.A. / Nieto, J.L. / Santoro, J. / Rico, M. / Gimenez-Gallego, G.
History
DepositionMay 21, 1998Processing site: BNL
Revision 1.0Nov 11, 1998Provider: repository / Type: Initial release
Revision 1.1Mar 24, 2008Group: Version format compliance
Revision 1.2Jul 13, 2011Group: Version format compliance
Revision 1.3Mar 2, 2022Group: Database references / Derived calculations / Other
Category: database_2 / pdbx_database_status ...database_2 / pdbx_database_status / pdbx_struct_assembly / pdbx_struct_oper_list / struct_site
Item: _database_2.pdbx_DOI / _database_2.pdbx_database_accession ..._database_2.pdbx_DOI / _database_2.pdbx_database_accession / _pdbx_database_status.process_site / _struct_site.pdbx_auth_asym_id / _struct_site.pdbx_auth_comp_id / _struct_site.pdbx_auth_seq_id
Revision 1.4May 22, 2024Group: Data collection / Category: chem_comp_atom / chem_comp_bond

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

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Assembly

Deposited unit
A: ACIDIC FIBROBLAST GROWTH FACTOR
hetero molecules


Theoretical massNumber of molelcules
Total (without water)17,8482
Polymers17,4831
Non-polymers3651
Water00
1


  • Idetical with deposited unit
  • defined by author
TypeNameSymmetry operationNumber
identity operation1_555x,y,z1
NMR ensembles
DataCriteria
Number of conformers (submitted / calculated)26 / 26
Representative

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Components

#1: Protein ACIDIC FIBROBLAST GROWTH FACTOR / HEPARIN-BINDING GROWTH FACTOR 1


Mass: 17482.697 Da / Num. of mol.: 1 / Fragment: RESIDUES 23 - 154
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Homo sapiens (human) / Plasmid: PMG47 / Production host: Escherichia coli (E. coli) / References: UniProt: P05230
#2: Chemical ChemComp-NTS / NAPHTHALENE TRISULFONATE


Mass: 365.336 Da / Num. of mol.: 1 / Source method: obtained synthetically / Formula: C10H5O9S3

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Experimental details

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Experiment

ExperimentMethod: SOLUTION NMR
NMR experiment
Conditions-IDExperiment-IDSolution-IDType
111COSY
121TOCSY
131NOESY

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Sample preparation

DetailsContents: WATER
Sample conditionspH: 6 / Temperature: 298 K
Crystal grow
*PLUS
Method: other / Details: NMR

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NMR measurement

NMR spectrometerType: Bruker AMX 600 / Manufacturer: Bruker / Model: AMX 600 / Field strength: 600 MHz

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Processing

NMR software
NameDeveloperClassification
DIANAGUNTERT, BRAUNrefinement
DIANAstructure solution
RefinementMethod: VARIABLE TARGET FUNCTION / Software ordinal: 1
NMR ensembleConformers calculated total number: 26 / Conformers submitted total number: 26

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