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- PDB-2lc4: Solution Structure of PilP from Pseudomonas aeruginosa -

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Basic information

Entry
Database: PDB / ID: 2lc4
TitleSolution Structure of PilP from Pseudomonas aeruginosa
ComponentsPilP protein
KeywordsSTRUCTURAL PROTEIN / Type IV Pilus
Function / homologySH3 type barrels. - #830 / Type IV pilus inner membrane component PilP / Pilus assembly protein, PilP / SH3 type barrels. / Prokaryotic membrane lipoprotein lipid attachment site profile. / Roll / Mainly Beta / PilP protein
Function and homology information
Biological speciesPseudomonas aeruginosa (bacteria)
MethodSOLUTION NMR / torsion angle dynamics
Model detailslowest energy, model 1
AuthorsHowell, P. / Tammam, S. / Chong, P. / Forman-Kay, J.D.
CitationJournal: Mol.Microbiol. / Year: 2011
Title: Characterization of the PilN, PilO and PilP type IVa pilus subcomplex.
Authors: Tammam, S. / Sampaleanu, L.M. / Koo, J. / Sundaram, P. / Ayers, M. / Andrew Chong, P. / Forman-Kay, J.D. / Burrows, L.L. / Howell, P.L.
History
DepositionApr 22, 2011Deposition site: BMRB / Processing site: RCSB
Revision 1.0Dec 21, 2011Provider: repository / Type: Initial release
Revision 1.1Dec 28, 2011Group: Database references
Revision 1.2Jun 14, 2023Group: Database references / Other
Category: database_2 / pdbx_database_status / struct_ref_seq_dif
Item: _database_2.pdbx_DOI / _database_2.pdbx_database_accession ..._database_2.pdbx_DOI / _database_2.pdbx_database_accession / _pdbx_database_status.status_code_nmr_data / _struct_ref_seq_dif.details
Revision 1.3May 15, 2024Group: Data collection / Database references / Category: chem_comp_atom / chem_comp_bond / database_2 / Item: _database_2.pdbx_DOI

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Structure visualization

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Assembly

Deposited unit
A: PilP protein


Theoretical massNumber of molelcules
Total (without water)12,4271
Polymers12,4271
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 / 100structures with the lowest energy
RepresentativeModel #1lowest energy

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Components

#1: Protein PilP protein / Type 4 fimbrial biogenesis protein PilP


Mass: 12427.045 Da / Num. of mol.: 1 / Fragment: sequence database residues 72-174
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Pseudomonas aeruginosa (bacteria) / Strain: mPAO1 / Gene: PA5041, pilP / Production host: Escherichia coli (E. coli) / References: UniProt: Q51354

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Experimental details

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Experiment

ExperimentMethod: SOLUTION NMR
NMR experiment
Conditions-IDExperiment-IDSolution-IDType
1112D 1H-15N HSQC
1213D HN(CA)CB
1313D CBCA(CO)NH
1413D HCC-TOCSY
1513D CCC-TOCSY
1612D 1H-13C HSQC aliphatic
1713D 1H-15N NOESY
1813D 1H-13C NOESY

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Sample preparation

DetailsContents: 150 mM sodium chloride, 20 mM TRIS, 90% H2O/10% D2O
Solvent system: 90% H2O/10% D2O
Sample
Conc. (mg/ml)ComponentSolution-ID
150 mMsodium chloride-11
20 mMTRIS-21
Sample conditionsIonic strength: 0.15 / pH: 7.5 / Pressure: ambient / Temperature: 298 K

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NMR measurement

NMR spectrometer
TypeManufacturerModelField strength (MHz)Spectrometer-ID
Varian INOVAVarianINOVA5001
Varian INOVAVarianINOVA6002

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Processing

NMR software
NameDeveloperClassification
CYANAGuntert, Mumenthaler and Wuthrichstructure solution
NMRViewJohnson, One Moon Scientificchemical shift assignment
NMRViewJohnson, One Moon Scientificpeak picking
NMRPipeDelaglio, Grzesiek, Vuister, Zhu, Pfeifer and Baxdata analysis
TALOSCornilescu, Delaglio and Baxgeometry optimization
NMRDrawDelaglio, Grzesiek, Vuister, Zhu, Pfeifer and Baxdata analysis
CYANArefinement
RefinementMethod: torsion angle dynamics / Software ordinal: 1
NMR representativeSelection criteria: lowest energy
NMR ensembleConformer selection criteria: structures with the lowest energy
Conformers calculated total number: 100 / Conformers submitted total number: 20

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