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Yorodumi- PDB-1kmr: Solution NMR Structure of Surfactant Protein B (11-25) (SP-B11-25) -
+Open data
-Basic information
Entry | Database: PDB / ID: 1kmr | ||||||
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Title | Solution NMR Structure of Surfactant Protein B (11-25) (SP-B11-25) | ||||||
Components | PULMONARY SURFACTANT-ASSOCIATED PROTEIN B | ||||||
Keywords | LIPID BINDING PROTEIN / HELIX | ||||||
Function / homology | Function and homology information Defective pro-SFTPB causes SMDP1 and RDS / multivesicular body lumen / lamellar body / alveolar lamellar body / Defective CSF2RB causes SMDP5 / Defective CSF2RA causes SMDP4 / clathrin-coated endocytic vesicle / sphingolipid metabolic process / respiratory gaseous exchange by respiratory system / Surfactant metabolism ...Defective pro-SFTPB causes SMDP1 and RDS / multivesicular body lumen / lamellar body / alveolar lamellar body / Defective CSF2RB causes SMDP5 / Defective CSF2RA causes SMDP4 / clathrin-coated endocytic vesicle / sphingolipid metabolic process / respiratory gaseous exchange by respiratory system / Surfactant metabolism / multivesicular body / animal organ morphogenesis / lysosome / endoplasmic reticulum membrane / extracellular region Similarity search - Function | ||||||
Method | SOLUTION NMR / simulated annealing | ||||||
Authors | Kurutz, J.W. / Lee, K.Y.C. | ||||||
Citation | Journal: Biochemistry / Year: 2002 Title: NMR structure of lung surfactant peptide SP-B(11-25). Authors: Kurutz, J.W. / Lee, K.Y. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1kmr.cif.gz | 79.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1kmr.ent.gz | 54.3 KB | Display | PDB format |
PDBx/mmJSON format | 1kmr.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1kmr_validation.pdf.gz | 335.5 KB | Display | wwPDB validaton report |
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Full document | 1kmr_full_validation.pdf.gz | 400.2 KB | Display | |
Data in XML | 1kmr_validation.xml.gz | 5.4 KB | Display | |
Data in CIF | 1kmr_validation.cif.gz | 8.5 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/km/1kmr ftp://data.pdbj.org/pub/pdb/validation_reports/km/1kmr | HTTPS FTP |
-Related structure data
Related structure data | |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein/peptide | Mass: 1702.183 Da / Num. of mol.: 1 Fragment: SEQUENCE DATABASE RESIDUES 211-225, NUMBERED 11-25 Source method: obtained synthetically Details: THE PROTEIN WAS CHEMICALLY SYNTHESIZED. THE SEQUENCE OF THE PROTEIN IS NATURALLY FOUND IN HOMO SAPIENS (HUMANS). References: UniProt: P07988 |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR |
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NMR experiment | Type: 2D NOESY |
NMR details | Text: WET water suppression |
-Sample preparation
Details | Contents: 1.25 mM peptide, 0.1 mM DSS-d6 Solvent system: Partially deuterated methanol (CD3OH), 98% D |
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Sample conditions | Ionic strength: no additional salt or buffer / pH: 5.5 / Pressure: ambient / Temperature: 278 K |
Crystal grow | *PLUS Method: other / Details: NMR |
-NMR measurement
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M |
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Radiation wavelength | Relative weight: 1 |
NMR spectrometer | Type: Varian INOVA / Manufacturer: Varian / Model: INOVA / Field strength: 600 MHz |
-Processing
NMR software |
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Refinement | Method: simulated annealing / Software ordinal: 1 | ||||||||||||||||||||||||||||
NMR representative | Selection criteria: lowest energy | ||||||||||||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 78 / Conformers submitted total number: 17 |