- PDB-2uv4: Crystal Structure of a CBS domain pair from the regulatory gamma1... -
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ID or keywords:
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Basic information
Entry
Database: PDB / ID: 2uv4
Title
Crystal Structure of a CBS domain pair from the regulatory gamma1 subunit of human AMPK in complex with AMP
Components
5'-AMP-ACTIVATED PROTEIN KINASE SUBUNIT GAMMA-1
Keywords
TRANSFERASE / CBS DOMAIN / LIPID SYNTHESIS / FATTY ACID BIOSYNTHESIS / AMPK GAMMA1 SUBUNIT CBS 3 PLUS 4 AMP REGULATORY SUBUNIT
Function / homology
Function and homology information
Lipophagy / import into nucleus / cAMP-dependent protein kinase regulator activity / nucleotide-activated protein kinase complex / Energy dependent regulation of mTOR by LKB1-AMPK / protein kinase regulator activity / Activation of PPARGC1A (PGC-1alpha) by phosphorylation / regulation of glycolytic process / cAMP-dependent protein kinase activity / Macroautophagy ...Lipophagy / import into nucleus / cAMP-dependent protein kinase regulator activity / nucleotide-activated protein kinase complex / Energy dependent regulation of mTOR by LKB1-AMPK / protein kinase regulator activity / Activation of PPARGC1A (PGC-1alpha) by phosphorylation / regulation of glycolytic process / cAMP-dependent protein kinase activity / Macroautophagy / AMP binding / positive regulation of protein kinase activity / cellular response to nutrient levels / Activation of AMPK downstream of NMDARs / Translocation of SLC2A4 (GLUT4) to the plasma membrane / TP53 Regulates Metabolic Genes / ADP binding / fatty acid biosynthetic process / spermatogenesis / Regulation of TP53 Activity through Phosphorylation / protein kinase activity / protein phosphorylation / positive regulation of gene expression / protein kinase binding / signal transduction / nucleoplasm / ATP binding / membrane / nucleus / cytoplasm / cytosol Similarity search - Function
: / CBS-domain / CBS-domain / CBS domain superfamily / Domain in cystathionine beta-synthase and other proteins. / CBS domain / CBS domain / CBS domain profile. / Roll / Alpha Beta Similarity search - Domain/homology
Type: MARRESEARCH / Detector: CCD / Date: Jun 23, 2004
Radiation
Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray
Radiation wavelength
Wavelength: 0.931 Å / Relative weight: 1
Reflection
Resolution: 1.33→34.92 Å / Num. obs: 31832 / % possible obs: 99 % / Observed criterion σ(I): 0 / Redundancy: 6.18 % / Rmerge(I) obs: 0.07 / Net I/σ(I): 12.5
Reflection shell
Resolution: 1.33→1.38 Å / Rmerge(I) obs: 0.4 / Mean I/σ(I) obs: 3.1 / % possible all: 90.7
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Processing
Software
Name
Version
Classification
REFMAC
5.2.0019G
refinement
d*TREK
datareduction
d*TREK
datascaling
CCP4
phasing
Refinement
Method to determine structure: MIRAS / Resolution: 1.33→34.92 Å / Cor.coef. Fo:Fc: 0.97 / Cor.coef. Fo:Fc free: 0.955 / SU B: 0.938 / SU ML: 0.039 / Cross valid method: THROUGHOUT / ESU R: 0.056 / ESU R Free: 0.061 / Stereochemistry target values: MAXIMUM LIKELIHOOD Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
Rfactor
Num. reflection
% reflection
Selection details
Rfree
0.207
1595
5.1 %
RANDOM
Rwork
0.169
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obs
0.171
29922
99 %
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Solvent computation
Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: BABINET MODEL WITH MASK