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- PDB-1eg4: STRUCTURE OF A DYSTROPHIN WW DOMAIN FRAGMENT IN COMPLEX WITH A BE... -
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Basic information
Entry | Database: PDB / ID: 1eg4 | ||||||
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Title | STRUCTURE OF A DYSTROPHIN WW DOMAIN FRAGMENT IN COMPLEX WITH A BETA-DYSTROGLYCAN PEPTIDE | ||||||
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![]() | STRUCTURAL PROTEIN / EF-hand like domain / WW domain / Polyproline type II (PPII) helix | ||||||
Function / homology | ![]() Defective POMT2 causes MDDGA2, MDDGB2 and MDDGC2 / Defective POMT1 causes MDDGA1, MDDGB1 and MDDGC1 / dystroglycan complex / nerve maturation / muscle attachment / Defective POMGNT1 causes MDDGA3, MDDGB3 and MDDGC3 / positive regulation of basement membrane assembly involved in embryonic body morphogenesis / retrograde trans-synaptic signaling by trans-synaptic protein complex / regulation of embryonic cell shape / O-linked glycosylation ...Defective POMT2 causes MDDGA2, MDDGB2 and MDDGC2 / Defective POMT1 causes MDDGA1, MDDGB1 and MDDGC1 / dystroglycan complex / nerve maturation / muscle attachment / Defective POMGNT1 causes MDDGA3, MDDGB3 and MDDGC3 / positive regulation of basement membrane assembly involved in embryonic body morphogenesis / retrograde trans-synaptic signaling by trans-synaptic protein complex / regulation of embryonic cell shape / O-linked glycosylation / regulation of muscle system process / regulation of cellular response to growth factor stimulus / regulation of skeletal muscle contraction / contractile ring / syntrophin complex / regulation of gastrulation / synaptic signaling / cardiac muscle cell action potential / microtubule anchoring / regulation of voltage-gated calcium channel activity / negative regulation of peptidyl-cysteine S-nitrosylation / calcium-dependent cell-matrix adhesion / morphogenesis of an epithelial sheet / positive regulation of sodium ion transmembrane transporter activity / dystrophin-associated glycoprotein complex / regulation of skeletal muscle contraction by regulation of release of sequestered calcium ion / laminin-1 binding / response to denervation involved in regulation of muscle adaptation / peptide biosynthetic process / cell-substrate junction / motile cilium assembly / basement membrane organization / positive regulation of myelination / regulation of epithelial to mesenchymal transition / skeletal muscle tissue regeneration / dystroglycan binding / cellular response to cholesterol / nerve development / vinculin binding / photoreceptor ribbon synapse / EGR2 and SOX10-mediated initiation of Schwann cell myelination / myelination in peripheral nervous system / branching involved in salivary gland morphogenesis / muscle cell development / node of Ranvier / costamere / angiogenesis involved in wound healing / commissural neuron axon guidance / neuron projection terminus / Striated Muscle Contraction / filopodium membrane / response to muscle activity / regulation of neurotransmitter receptor localization to postsynaptic specialization membrane / postsynaptic cytosol / muscle organ development / axon regeneration / positive regulation of cell-matrix adhesion / structural constituent of muscle / negative regulation of MAPK cascade / epithelial tube branching involved in lung morphogenesis / positive regulation of oligodendrocyte differentiation / muscle cell cellular homeostasis / myosin binding / maintenance of blood-brain barrier / regulation of synapse organization / nitric-oxide synthase binding / alpha-actinin binding / negative regulation of peptidyl-serine phosphorylation / plasma membrane raft / membrane protein ectodomain proteolysis / Non-integrin membrane-ECM interactions / basement membrane / ECM proteoglycans / GABA-ergic synapse / neuron development / negative regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction / regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion / heart morphogenesis / regulation of release of sequestered calcium ion into cytosol by sarcoplasmic reticulum / cardiac muscle contraction / laminin binding / skeletal muscle tissue development / regulation of ryanodine-sensitive calcium-release channel activity / response to muscle stretch / positive regulation of neuron differentiation / regulation of heart rate / tubulin binding / SH2 domain binding / negative regulation of cell migration / nuclear periphery / filopodium / morphogenesis of an epithelium / adherens junction / axon guidance / regulation of synaptic plasticity / protein localization / structural constituent of cytoskeleton / sarcolemma / response to peptide hormone / Regulation of expression of SLITs and ROBOs Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Huang, X. / Poy, F. / Zhang, R. / Joachimiak, A. / Sudol, M. / Eck, M.J. | ||||||
![]() | ![]() Title: Structure of a WW domain containing fragment of dystrophin in complex with beta-dystroglycan. Authors: Huang, X. / Poy, F. / Zhang, R. / Joachimiak, A. / Sudol, M. / Eck, M.J. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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PDBx/mmCIF format | ![]() | 73.3 KB | Display | ![]() |
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PDB format | ![]() | 53.8 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 372.4 KB | Display | ![]() |
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Full document | ![]() | 381.8 KB | Display | |
Data in XML | ![]() | 8.2 KB | Display | |
Data in CIF | ![]() | 13.3 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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Unit cell |
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Components
#1: Protein/peptide | Mass: 1746.036 Da / Num. of mol.: 1 / Source method: obtained synthetically Details: This peptide was chemically synthesized and occurs naturally in Homo Sapiens (Human) References: UniProt: Q14118 |
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#2: Protein | Mass: 29845.232 Da / Num. of mol.: 1 / Fragment: WW DOMAIN Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() |
#3: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.16 Å3/Da / Density % sol: 43.17 % | ||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 7 Details: ammonium sulfate, glycerol, DTT, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K | ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 22 ℃ / pH: 6.5 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 213 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: APS-1 / Detector: CCD / Date: Apr 12, 1999 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.07 Å / Relative weight: 1 |
Reflection | Resolution: 1.9→25 Å / Num. all: 120237 / Num. obs: 21895 / % possible obs: 98.3 % / Observed criterion σ(I): -3 / Redundancy: 5.5 % / Biso Wilson estimate: 24 Å2 / Rmerge(I) obs: 0.052 / Net I/σ(I): 12.6 |
Reflection shell | Resolution: 1.9→1.97 Å / Redundancy: 5 % / Rmerge(I) obs: 0.295 / Num. unique all: 2146 / % possible all: 95.3 |
Reflection | *PLUS Num. measured all: 120237 |
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Processing
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Refinement | Resolution: 2→20 Å / σ(F): 2 / Stereochemistry target values: Engh & Huber
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Refinement step | Cycle: LAST / Resolution: 2→20 Å
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Refine LS restraints |
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Software | *PLUS Name: ![]() | |||||||||||||||||||||||||
Refinement | *PLUS Highest resolution: 2 Å / Lowest resolution: 20 Å / σ(F): 2 / Rfactor obs: 0.197 | |||||||||||||||||||||||||
Solvent computation | *PLUS | |||||||||||||||||||||||||
Displacement parameters | *PLUS |