- PDB-6kzj: Crystal structure of Ankyrin B/NdeL1 complex -
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Basic information
Entry
Database: PDB / ID: 6kzj
Title
Crystal structure of Ankyrin B/NdeL1 complex
Components
Ankyrin-2
Nuclear distribution protein nudE-like 1
Keywords
PROTEIN BINDING / PROTEIN TRANSPORT / STRUCTURAL PROTEIN
Function / homology
Function and homology information
neurofilament cytoskeleton / protein localization to T-tubule / atrial cardiac muscle cell to AV node cell communication / SA node cell to atrial cardiac muscle cell communication / regulation of calcium ion transmembrane transporter activity / positive regulation of calcium ion transmembrane transporter activity / cerebral cortex radially oriented cell migration / establishment of chromosome localization / central nervous system neuron axonogenesis / protein localization to M-band ...neurofilament cytoskeleton / protein localization to T-tubule / atrial cardiac muscle cell to AV node cell communication / SA node cell to atrial cardiac muscle cell communication / regulation of calcium ion transmembrane transporter activity / positive regulation of calcium ion transmembrane transporter activity / cerebral cortex radially oriented cell migration / establishment of chromosome localization / central nervous system neuron axonogenesis / protein localization to M-band / positive regulation of potassium ion transmembrane transporter activity / T-tubule organization / SA node cell action potential / radial glia-guided pyramidal neuron migration / Amplification of signal from unattached kinetochores via a MAD2 inhibitory signal / membrane depolarization during SA node cell action potential / protein localization to organelle / paranodal junction assembly / central region of growth cone / oligopeptidase activity / Mitotic Prometaphase / EML4 and NUDC in mitotic spindle formation / Resolution of Sister Chromatid Cohesion / phosphorylation-dependent protein binding / regulation of SA node cell action potential / regulation of atrial cardiac muscle cell action potential / nuclear membrane disassembly / RHO GTPases Activate Formins / Separation of Sister Chromatids / positive regulation of cation channel activity / atrial cardiac muscle cell action potential / protein localization to endoplasmic reticulum / vesicle transport along microtubule / sarcoplasmic reticulum calcium ion transport / cytoskeletal anchor activity / neurofilament cytoskeleton organization / microtubule nucleation / lysosome localization / atrial septum development / positive regulation of potassium ion transport / axon hillock / ventricular cardiac muscle cell action potential / costamere / response to methylmercury / regulation of release of sequestered calcium ion into cytosol / positive regulation of calcium ion transport / regulation of ventricular cardiac muscle cell membrane repolarization / M band / regulation of cardiac muscle cell contraction / activation of GTPase activity / regulation of cardiac muscle contraction by calcium ion signaling / protein localization to cell surface / positive regulation of ruffle assembly / retrograde axonal transport / Interaction between L1 and Ankyrins / mitotic centrosome separation / A band / microtubule associated complex / centrosome localization / inner cell mass cell proliferation / microtubule organizing center / regulation of neuron projection development / neuron projection extension / kinesin complex / spectrin binding / cell leading edge / beta-tubulin binding / positive regulation of axon regeneration / regulation of intracellular protein transport / regulation of heart rate by cardiac conduction / establishment of mitotic spindle orientation / regulation of calcium ion transport / intercalated disc / regulation of cardiac muscle contraction / alpha-tubulin binding / regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion / positive regulation of axon extension / COPI-mediated anterograde transport / axon cytoplasm / T-tubule / regulation of heart rate / positive regulation of GTPase activity / chromosome segregation / protein localization to plasma membrane / neuron migration / regulation of protein stability / protein localization / recycling endosome / structural constituent of cytoskeleton / sarcolemma / kinetochore / Z disc / microtubule cytoskeleton organization / intracellular calcium ion homeostasis / spindle / endocytosis / neuron projection development / protein transport / cell migration / synaptic vesicle Similarity search - Function
NUDE domain / NUDE family / NUDE protein, C-terminal conserved region / Ankyrin, UPA domain / UPA domain / Domain present in ZO-1 and Unc5-like netrin receptors / ZU5 domain / ZU5 domain / ZU5 domain profile. / Death domain profile. ...NUDE domain / NUDE family / NUDE protein, C-terminal conserved region / Ankyrin, UPA domain / UPA domain / Domain present in ZO-1 and Unc5-like netrin receptors / ZU5 domain / ZU5 domain / ZU5 domain profile. / Death domain profile. / DEATH domain, found in proteins involved in cell death (apoptosis). / Death domain / Death domain / Ankyrin repeats (many copies) / Death-like domain superfamily / Ankyrin repeat / Ankyrin repeats (3 copies) / Ankyrin repeat profile. / Ankyrin repeat region circular profile. / ankyrin repeats / Ankyrin repeat / Ankyrin repeat-containing domain superfamily Similarity search - Domain/homology
Method to determine structure: AB INITIO PHASING / Resolution: 1.5→10 Å / Cor.coef. Fo:Fc: 0.966 / Cor.coef. Fo:Fc free: 0.953 / SU B: 2.842 / SU ML: 0.048 / SU R Cruickshank DPI: 0.0836 / Cross valid method: THROUGHOUT / σ(F): 0 / ESU R: 0.084 / ESU R Free: 0.077 Details: U VALUES : WITH TLS ADDED HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
Rfactor
Num. reflection
% reflection
Selection details
Rfree
0.2108
1063
4.8 %
RANDOM
Rwork
0.1605
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obs
0.1628
20976
94.53 %
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Solvent computation
Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å
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