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- PDB-2fly: Proadrenomedullin N-Terminal 20 Peptide -

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Basic information

Entry
Database: PDB / ID: 2fly
TitleProadrenomedullin N-Terminal 20 Peptide
ComponentsProadrenomedullin N-20 terminal peptide
KeywordsHORMONE/GROWTH FACTOR / alpha helix / HORMONE-GROWTH FACTOR COMPLEX
Function / homology
Function and homology information


adrenomedullin receptor binding / positive regulation of progesterone biosynthetic process / vascular associated smooth muscle cell development / neuron projection regeneration / adrenomedullin receptor signaling pathway / spongiotrophoblast layer development / Calcitonin-like ligand receptors / branching involved in labyrinthine layer morphogenesis / positive regulation of vasculogenesis / regulation of systemic arterial blood pressure ...adrenomedullin receptor binding / positive regulation of progesterone biosynthetic process / vascular associated smooth muscle cell development / neuron projection regeneration / adrenomedullin receptor signaling pathway / spongiotrophoblast layer development / Calcitonin-like ligand receptors / branching involved in labyrinthine layer morphogenesis / positive regulation of vasculogenesis / regulation of systemic arterial blood pressure / regulation of the force of heart contraction / regulation of urine volume / G protein-coupled receptor internalization / negative regulation of vascular permeability / negative regulation of vasoconstriction / positive regulation of heart rate / response to starvation / odontogenesis of dentin-containing tooth / cAMP-mediated signaling / androgen metabolic process / developmental growth / vasculogenesis / animal organ regeneration / response to glucocorticoid / female pregnancy / neural tube closure / response to insulin / adenylate cyclase-activating G protein-coupled receptor signaling pathway / hormone activity / receptor internalization / positive regulation of angiogenesis / heart development / positive regulation of cytosolic calcium ion concentration / G alpha (s) signalling events / cell population proliferation / response to lipopolysaccharide / response to hypoxia / inflammatory response / positive regulation of apoptotic process / negative regulation of cell population proliferation / signaling receptor binding / positive regulation of cell population proliferation / signal transduction / extracellular space / extracellular region / cytoplasm
Similarity search - Function
Pro-adrenomedullin / Calcitonin/adrenomedullin / Calcitonin / CGRP / IAPP family
Similarity search - Domain/homology
Biological speciesHomo sapiens (human)
MethodSOLUTION NMR / Distance Geometry Simulated Annealing Torsion Angle Dynamics
AuthorsLucyk, S. / Taha, H. / Yamamoto, H. / Miskolzie, M. / Kotovych, G.
CitationJournal: Biopolymers / Year: 2006
Title: NMR conformational analysis of proadrenomedullin N-terminal 20 peptide, a proangiogenic factor involved in tumor growth
Authors: Lucyk, S. / Taha, H. / Yamamoto, H. / Miskolzie, M. / Kotovych, G.
History
DepositionJan 6, 2006Deposition site: RCSB / Processing site: RCSB
Revision 1.0Mar 28, 2006Provider: repository / Type: Initial release
Revision 1.1May 1, 2008Group: Version format compliance
Revision 1.2Jul 13, 2011Group: Version format compliance
Revision 1.3Mar 9, 2022Group: Database references / Derived calculations
Category: database_2 / pdbx_struct_assembly ...database_2 / pdbx_struct_assembly / pdbx_struct_oper_list / struct_conn / struct_site
Item: _database_2.pdbx_DOI / _database_2.pdbx_database_accession ..._database_2.pdbx_DOI / _database_2.pdbx_database_accession / _struct_conn.pdbx_leaving_atom_flag / _struct_site.pdbx_auth_asym_id / _struct_site.pdbx_auth_comp_id / _struct_site.pdbx_auth_seq_id

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

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Assembly

Deposited unit
A: Proadrenomedullin N-20 terminal peptide


Theoretical massNumber of molelcules
Total (without water)2,4661
Polymers2,4661
Non-polymers00
Water0
1


  • Idetical with deposited unit
  • defined by author
TypeNameSymmetry operationNumber
identity operation1_555x,y,z1
NMR ensembles
DataCriteria
Number of conformers (submitted / calculated)20 / 200structures with the lowest energy
RepresentativeModel #1lowest energy

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Components

#1: Protein/peptide Proadrenomedullin N-20 terminal peptide / ProAM-N20 / ProAM N-terminal 20 peptide / PAMP


Mass: 2465.877 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: P35318

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Experimental details

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Experiment

ExperimentMethod: SOLUTION NMR
NMR experiment
Conditions-IDExperiment-IDSolution-IDType
1112D NOESY
1212D TOCSY
13113C HSQC

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Sample preparation

DetailsContents: 3.6 mg PAMP, TFE/H2O 36%/64%, 1 % 2,2-dimethyl-5-silapropane sulphonate (DSS)
Solvent system: 36% 2,2,2 Trifluoroethanol-d2, 64% H2O
Sample conditionsPressure: ambient / Temperature: 300 K

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NMR measurement

RadiationProtocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M
Radiation wavelengthRelative weight: 1
NMR spectrometer
TypeManufacturerModelField strength (MHz)Spectrometer-ID
Varian INOVAVarianINOVA6001
Varian INOVAVarianINOVA8002

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Processing

NMR software
NameVersionDeveloperClassification
VNMR6.1cVarian Inc.collection
CNS1.1Brunger, A.T.processing
NMRView5.0.3Johnson, B.A. and Blevins, R.A.data analysis
CNS1.1Brunger, A.T.refinement
RefinementMethod: Distance Geometry Simulated Annealing Torsion Angle Dynamics
Software ordinal: 1
NMR representativeSelection criteria: lowest energy
NMR ensembleConformer selection criteria: structures with the lowest energy
Conformers calculated total number: 200 / Conformers submitted total number: 20

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