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- PDB-1b5n: NMR STRUCTURE OF PSP1, PLASMATOCYTE-SPREADING PEPTIDE FROM PSEUDO... -

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Basic information

Entry
Database: PDB / ID: 1b5n
TitleNMR STRUCTURE OF PSP1, PLASMATOCYTE-SPREADING PEPTIDE FROM PSEUDOPLUSIA INCLUDENS
ComponentsPROTEIN (PLASMATOCYTE-SPREADING PEPTIDE)
KeywordsSIGNALING PROTEIN / INSECT CYTOKINE / PLASMATOCYTE-SPREADING / EGF-LIKE
Function / homologyParalytic/GBP/PSP peptide / Paralytic/GBP/PSP peptide / cytokine activity / extracellular space / Plasmatocyte-spreading peptide
Function and homology information
MethodSOLUTION NMR / torsion angle dynamics
AuthorsVolkman, B.F. / Clark, K.D. / Anderson, M.E. / Pech, L.L. / Markley, J.L. / Strand, M.R.
CitationJournal: J.Biol.Chem. / Year: 1999
Title: Structure of the insect cytokine peptide plasmatocyte-spreading peptide 1 from Pseudoplusia includens.
Authors: Volkman, B.F. / Anderson, M.E. / Clark, K.D. / Hayakawa, Y. / Strand, M.R. / Markley, J.L.
History
DepositionJan 7, 1999Deposition site: BNL / Processing site: RCSB
Revision 1.0Jan 13, 1999Provider: repository / Type: Initial release
Revision 1.1Apr 27, 2008Group: Version format compliance
Revision 1.2Jul 13, 2011Group: Version format compliance
Revision 1.3Feb 16, 2022Group: Database references / Derived calculations
Category: database_2 / pdbx_struct_assembly / pdbx_struct_oper_list
Item: _database_2.pdbx_DOI / _database_2.pdbx_database_accession
Revision 1.4Dec 27, 2023Group: 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: PROTEIN (PLASMATOCYTE-SPREADING PEPTIDE)


Theoretical massNumber of molelcules
Total (without water)2,5121
Polymers2,5121
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)1 / -LOWEST TARGET FUNCTION
Representative

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Components

#1: Protein/peptide PROTEIN (PLASMATOCYTE-SPREADING PEPTIDE) / PSP1


Mass: 2511.835 Da / Num. of mol.: 1 / Source method: obtained synthetically
Details: THE PEPTIDE WAS CHEMICALLY SYNTHESIZED BY SOLID-STATE PEPTIDE SYNTHESIS WITH T-BOC METHOD. THE SEQUENCE OF THIS PEPTIDE IS NATURALLY FOUND IN THE HEMOLYMPH TISSUE OF PSEUDOPLUSIA INCLUDENS (SOYBEAN LOOPER MOTH).
References: UniProt: O61704

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Experimental details

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Experiment

ExperimentMethod: SOLUTION NMR
NMR experiment
Conditions-IDExperiment-IDSolution-IDType
111TOCSY
121NOESY
NMR detailsText: MEAN STRUCTURE. BOTH: QUADRATURE IN INDIRECT DIM. WAS OBTAINED WITH STATES- TPPI. WATER SUPPRESION WAS ACHIEVED WITH A WATERGATE SEQ. WITH A 3-9-19 SELECTIVE INVERSION

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Sample preparation

Sample conditionsIonic strength: 50 mM PO4 BUFFER / pH: 6.0 / Pressure: 1 atm / Temperature: 283 K
Crystal grow
*PLUS
Method: other / Details: NMR

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NMR measurement

NMR spectrometer
TypeManufacturerModelField strength (MHz)Spectrometer-ID
Bruker DMX500BrukerDMX5005001
Bruker DMX750BrukerDMX7507502

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Processing

NMR software
NameVersionDeveloperClassification
DYANA1.5R. GUNTERT, C. MUMENTHALER, K. WUTHRICHrefinement
DYANAstructure solution
GARANTstructure solution
XEASYstructure solution
RefinementMethod: torsion angle dynamics / Software ordinal: 1
Details: THE FILES IN THE DATABASE SHOULD BE SUFFICIENT TO RECONSTRUCT THE STRUCTURE. ALSO REFER TO THE REF. ABOVE AND THE PSP1 PAPER.
NMR ensembleConformer selection criteria: LOWEST TARGET FUNCTION / Conformers submitted total number: 1

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