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- PDB-1fmm: SOLUTION STRUCTURE OF NFGF-1 -

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Basic information

Entry
Database: PDB / ID: 1fmm
TitleSOLUTION STRUCTURE OF NFGF-1
ComponentsACIDIC FIBROBLAST GROWTH FACTOR
KeywordsHORMONE/GROWTH FACTOR / growth factor / triple resonance / mitogen / wound healing / HORMONE-GROWTH FACTOR COMPLEX
Function / homology
Function and homology information


mesonephric epithelium development / branch elongation involved in ureteric bud branching / positive regulation of cholesterol biosynthetic process / fibroblast growth factor receptor binding / S100 protein binding / positive regulation of intracellular signal transduction / positive regulation of cell division / fibroblast growth factor receptor signaling pathway / growth factor activity / positive regulation of angiogenesis ...mesonephric epithelium development / branch elongation involved in ureteric bud branching / positive regulation of cholesterol biosynthetic process / fibroblast growth factor receptor binding / S100 protein binding / positive regulation of intracellular signal transduction / positive regulation of cell division / fibroblast growth factor receptor signaling pathway / growth factor activity / positive regulation of angiogenesis / integrin binding / heparin binding / cell cortex / angiogenesis / cell differentiation / positive regulation of cell migration / positive regulation of cell population proliferation / positive regulation of transcription by RNA polymerase II / extracellular space / extracellular region / nucleus / cytosol
Similarity search - Function
Fibroblast growth factor 1 / 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
Fibroblast growth factor 1
Similarity search - Component
Biological speciesNotophthalmus viridescens (eastern newt)
MethodSOLUTION NMR / simulated annealing
Model type detailsminimized average
AuthorsArunkumar, A.I. / Srisailam, S. / Kumar, T.K.S. / Chiu, I.M. / Yu, C.
CitationJournal: J.Biol.Chem. / Year: 2002
Title: Structure and stability of an acidic fibroblast growth factor from Notophthalmus viridescens.
Authors: Arunkumar, A.I. / Srisailam, S. / Kumar, T.K. / Kathir, K.M. / Chi, Y.H. / Wang, H.M. / Chang, G.G. / Chiu, I. / Yu, C.
History
DepositionAug 18, 2000Deposition site: RCSB / Processing site: RCSB
Revision 1.0Aug 18, 2001Provider: repository / Type: Initial release
Revision 1.1Apr 27, 2008Group: Version format compliance
Revision 1.2Jul 13, 2011Group: Version format compliance
Revision 1.3Feb 23, 2022Group: Data collection / Database references / Derived calculations
Category: database_2 / pdbx_nmr_software ...database_2 / pdbx_nmr_software / pdbx_struct_assembly / pdbx_struct_oper_list
Item: _database_2.pdbx_DOI / _database_2.pdbx_database_accession / _pdbx_nmr_software.name
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
S: ACIDIC FIBROBLAST GROWTH FACTOR


Theoretical massNumber of molelcules
Total (without water)15,0341
Polymers15,0341
Non-polymers00
Water00
1


  • Idetical with deposited unit
  • defined by author
TypeNameSymmetry operationNumber
identity operation1_555x,y,z1
NMR ensembles
DataCriteria
Number of conformers (submitted / calculated)1 / 50structures with the least restraint violations
RepresentativeModel #1minimized average structure

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Components

#1: Protein ACIDIC FIBROBLAST GROWTH FACTOR / NFGF-1


Mass: 15033.870 Da / Num. of mol.: 1
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Notophthalmus viridescens (eastern newt)
Cell: FIBROBLAST / Plasmid: PET21B / Production host: Escherichia coli (E. coli) / References: UniProt: Q7SIF8

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Experimental details

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Experiment

ExperimentMethod: SOLUTION NMR
NMR experimentType: 3D 13C-separated NOESY

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Sample preparation

DetailsContents: 10 mM phosphate and 100 mM sodium Chloride / Solvent system: water
Sample conditionsIonic strength: 0.1 / pH: 6.0 / Pressure: ambient / Temperature: 298 K
Crystal grow
*PLUS
Method: other / Details: NMR

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NMR measurement

RadiationProtocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M
Radiation wavelengthRelative weight: 1
NMR spectrometerType: Bruker DMX / Manufacturer: Bruker / Model: DMX / Field strength: 600 MHz

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Processing

NMR software
NameVersionDeveloperClassification
AURELIA2.7.5A. I. Arunkumar and S. Srisailamdata analysis
XwinNMR2.6A. I. Arunkumarprocessing
RefinementMethod: simulated annealing / Software ordinal: 1
NMR representativeSelection criteria: minimized average structure
NMR ensembleConformer selection criteria: structures with the least restraint violations
Conformers calculated total number: 50 / Conformers submitted total number: 1

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