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Open data
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Basic information
Entry | Database: PDB / ID: 1kpf | ||||||
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Title | PKCI-SUBSTRATE ANALOG | ||||||
![]() | PROTEIN KINASE C INTERACTING PROTEIN | ||||||
![]() | PROTEIN KINASE INHIBITOR / PKCI-1 / HIT PROTEIN FAMILY / HISTIDINE TRIAD PROTEIN FAMILY / NUCLEOTIDYL HYDROLASE / NUCLEOTIDYL TRANSFERASE | ||||||
Function / homology | ![]() purine ribonucleotide catabolic process / adenylylsulfatase activity / Hydrolases; Acting on phosphorus-nitrogen bonds / adenosine 5'-monophosphoramidase activity / deSUMOylase activity / protein desumoylation / sulfur compound metabolic process / histone deacetylase complex / intrinsic apoptotic signaling pathway by p53 class mediator / positive regulation of calcium-mediated signaling ...purine ribonucleotide catabolic process / adenylylsulfatase activity / Hydrolases; Acting on phosphorus-nitrogen bonds / adenosine 5'-monophosphoramidase activity / deSUMOylase activity / protein desumoylation / sulfur compound metabolic process / histone deacetylase complex / intrinsic apoptotic signaling pathway by p53 class mediator / positive regulation of calcium-mediated signaling / protein kinase C binding / Hydrolases; Acting on peptide bonds (peptidases); Cysteine endopeptidases / cytoskeleton / hydrolase activity / nucleotide binding / regulation of DNA-templated transcription / signal transduction / proteolysis / extracellular exosome / nucleoplasm / nucleus / plasma membrane / cytoplasm / cytosol Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() | ||||||
![]() | Lima, C.D. / Klein, M.G. / Hendrickson, W.A. | ||||||
![]() | ![]() Title: Structure-based analysis of catalysis and substrate definition in the HIT protein family. Authors: Lima, C.D. / Klein, M.G. / Hendrickson, W.A. #1: ![]() Title: Three-Dimensional Structure of Human Protein Kinase C Interacting Protein 1, a Member of the Hit Family of Proteins Authors: Lima, C.D. / Klein, M.G. / Weinstein, I.B. / Hendrickson, W.A. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 39.5 KB | Display | ![]() |
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PDB format | ![]() | 26.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 437.9 KB | Display | ![]() |
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Full document | ![]() | 438.7 KB | Display | |
Data in XML | ![]() | 4.1 KB | Display | |
Data in CIF | ![]() | 6.8 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
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Links
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Assembly
Deposited unit | ![]()
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1 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 13718.772 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() |
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#2: Chemical | ChemComp-AMP / |
#3: Water | ChemComp-HOH / |
Nonpolymer details | THE PRODUCT ANALOG (AMP) WAS COCRYSTALLIZED WITH THE PROTEIN. THE AMP STRUCTURE REPORTED HERE ...THE PRODUCT ANALOG (AMP) WAS COCRYSTALL |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.1 Å3/Da / Density % sol: 41.49 % | ||||||||||||||||||||
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Crystal grow | pH: 6.5 / Details: COCRYSTALLIZED WITH AMP FROM PEG8K PH6.5 | ||||||||||||||||||||
Crystal grow | *PLUS Temperature: 20 ℃ / Method: vapor diffusion, hanging dropDetails: Lima, C.D., (1996) Proc.Nat.Acad.Sci.USA, 93, 5357. | ||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 110 K |
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Diffraction source | Wavelength: 1.5418 |
Detector | Type: RIGAKU / Detector: IMAGE PLATE / Date: Jun 1, 1996 |
Radiation | Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 1.4→20 Å / Num. obs: 36893 / % possible obs: 84.5 % / Redundancy: 4.5 % / Rmerge(I) obs: 0.062 |
Reflection shell | Highest resolution: 1.4 Å / Rsym value: 0.259 |
Reflection | *PLUS Num. measured all: 158000 |
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Processing
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Refinement | Resolution: 1.5→8 Å / Data cutoff high absF: 100000 / Data cutoff low absF: 0.1 / σ(F): 2
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Displacement parameters | Biso mean: 12.1 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.5→8 Å
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Refine LS restraints |
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Software | *PLUS Name: ![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Rfactor Rfree: 0.24 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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