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- PDB-1b9g: INSULIN-LIKE-GROWTH-FACTOR-1 -

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Basic information

Entry
Database: PDB / ID: 1b9g
TitleINSULIN-LIKE-GROWTH-FACTOR-1
ComponentsPROTEIN (GROWTH FACTOR IGF-1)
KeywordsGROWTH FACTOR / GROWTH FACTOR IGF-1
Function / homology
Function and homology information


glycolate metabolic process / muscle hypertrophy / negative regulation of oocyte development / positive regulation of trophectodermal cell proliferation / skeletal muscle satellite cell maintenance involved in skeletal muscle regeneration / insulin-like growth factor binding protein complex / insulin-like growth factor ternary complex / myotube cell development / proteoglycan biosynthetic process / neuronal dense core vesicle lumen ...glycolate metabolic process / muscle hypertrophy / negative regulation of oocyte development / positive regulation of trophectodermal cell proliferation / skeletal muscle satellite cell maintenance involved in skeletal muscle regeneration / insulin-like growth factor binding protein complex / insulin-like growth factor ternary complex / myotube cell development / proteoglycan biosynthetic process / neuronal dense core vesicle lumen / positive regulation of transcription regulatory region DNA binding / positive regulation of cell growth involved in cardiac muscle cell development / negative regulation of neuroinflammatory response / Signaling by Type 1 Insulin-like Growth Factor 1 Receptor (IGF1R) / IRS-related events triggered by IGF1R / bone mineralization involved in bone maturation / negative regulation of vascular associated smooth muscle cell apoptotic process / exocytic vesicle / positive regulation of glycoprotein biosynthetic process / myoblast differentiation / positive regulation of calcineurin-NFAT signaling cascade / cell activation / positive regulation of myelination / positive regulation of insulin-like growth factor receptor signaling pathway / alphav-beta3 integrin-IGF-1-IGF1R complex / cell surface receptor signaling pathway via STAT / muscle organ development / positive regulation of activated T cell proliferation / activation of protein kinase B activity / positive regulation of smooth muscle cell migration / positive regulation of DNA binding / growth hormone receptor signaling pathway / negative regulation of interleukin-1 beta production / negative regulation of release of cytochrome c from mitochondria / positive regulation of cardiac muscle hypertrophy / negative regulation of amyloid-beta formation / positive regulation of osteoblast differentiation / myoblast proliferation / negative regulation of smooth muscle cell apoptotic process / epithelial to mesenchymal transition / Synthesis, secretion, and deacylation of Ghrelin / negative regulation of tumor necrosis factor production / skeletal system development / positive regulation of glycogen biosynthetic process / protein kinase activator activity / postsynaptic modulation of chemical synaptic transmission / positive regulation of vascular associated smooth muscle cell proliferation / SHC-related events triggered by IGF1R / positive regulation of Ras protein signal transduction / insulin-like growth factor receptor signaling pathway / insulin-like growth factor receptor binding / positive regulation of D-glucose import across plasma membrane / positive regulation of mitotic nuclear division / positive regulation of epithelial cell proliferation / positive regulation of smooth muscle cell proliferation / positive regulation of glycolytic process / platelet alpha granule lumen / positive regulation of fibroblast proliferation / negative regulation of extrinsic apoptotic signaling pathway / positive regulation of protein secretion / wound healing / insulin receptor binding / growth factor activity / circadian rhythm / hormone activity / integrin binding / insulin receptor signaling pathway / cell population proliferation / Regulation of Insulin-like Growth Factor (IGF) transport and uptake by Insulin-like Growth Factor Binding Proteins (IGFBPs) / osteoblast differentiation / cellular response to amyloid-beta / regulation of gene expression / Platelet degranulation / response to heat / positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction / positive regulation of MAPK cascade / Ras protein signal transduction / positive regulation of ERK1 and ERK2 cascade / postsynapse / protein stabilization / positive regulation of cell migration / negative regulation of gene expression / positive regulation of gene expression / positive regulation of cell population proliferation / negative regulation of apoptotic process / positive regulation of DNA-templated transcription / glutamatergic synapse / signal transduction / positive regulation of transcription by RNA polymerase II / : / extracellular region
Similarity search - Function
Insulin-like, subunit E / Insulin-like / Insulin-like growth factor I / Insulin-like growth factor / Insulin family / Insulin-like / Insulin/IGF/Relaxin family / Insulin / insulin-like growth factor / relaxin family. / Insulin, conserved site / Insulin family signature. ...Insulin-like, subunit E / Insulin-like / Insulin-like growth factor I / Insulin-like growth factor / Insulin family / Insulin-like / Insulin/IGF/Relaxin family / Insulin / insulin-like growth factor / relaxin family. / Insulin, conserved site / Insulin family signature. / Insulin-like superfamily / Orthogonal Bundle / Mainly Alpha
Similarity search - Domain/homology
Insulin-like growth factor 1 / Insulin-like growth factor 1
Similarity search - Component
Biological speciesHomo sapiens (human)
MethodSOLUTION NMR / distance geometry
AuthorsDe Wolf, E. / Gill, R. / Geddes, S. / Pitts, J. / Wollmer, A. / Grotzinger, J.
CitationJournal: Protein Sci. / Year: 1996
Title: Solution structure of a mini IGF-1.
Authors: De Wolf, E. / Gill, R. / Geddes, S. / Pitts, J. / Wollmer, A. / Grotzinger, J.
History
DepositionFeb 11, 1999Deposition site: PDBE / Processing site: RCSB
Revision 1.0Feb 23, 1999Provider: repository / Type: Initial release
Revision 1.1Apr 26, 2008Group: Version format compliance
Revision 1.2Jul 13, 2011Group: Version format compliance
Revision 1.3Feb 16, 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 1.4Dec 27, 2023Group: Data collection / Category: chem_comp_atom / chem_comp_bond
Revision 1.5Nov 13, 2024Group: Structure summary / Category: pdbx_entry_details / pdbx_modification_feature

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

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Assembly

Deposited unit
A: PROTEIN (GROWTH FACTOR IGF-1)


Theoretical massNumber of molelcules
Total (without water)6,3121
Polymers6,3121
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 / 15LEAST RESTRAINT VIOLATIONS
Representative

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Components

#1: Protein PROTEIN (GROWTH FACTOR IGF-1)


Mass: 6312.325 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Details: C-REGION DELETED / Source: (natural) Homo sapiens (human) / References: UniProt: P01343, UniProt: P05019*PLUS
Has protein modificationY

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Experimental details

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Experiment

ExperimentMethod: SOLUTION NMR
NMR detailsText: MEAN STRUCTURE.

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Sample preparation

Sample conditionspH: 1.9 / Temperature: 293 K
Crystal grow
*PLUS
Method: other / Details: NMR

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NMR measurement

NMR spectrometerType: Varian UNITY / Manufacturer: Varian / Model: UNITY / Field strength: 500 MHz

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Processing

NMR software
NameVersionDeveloperClassification
DISTANCE GEOMETRYGEOMETRYSCHEEKrefinement
NMRViewstructure solution
SNARFstructure solution
RefinementMethod: distance geometry / Software ordinal: 1
NMR ensembleConformer selection criteria: LEAST RESTRAINT VIOLATIONS / Conformers calculated total number: 15 / Conformers submitted total number: 1

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