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- PDB-3t98: Molecular Architecture of the Transport Channel of the Nuclear Po... -
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Open data
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Basic information
Entry | Database: PDB / ID: 3t98 | ||||||
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Title | Molecular Architecture of the Transport Channel of the Nuclear Pore Complex: Nup54/Nup58 | ||||||
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![]() | PROTEIN TRANSPORT / Nup58 / Nup54 / Nup62 complex / nuclear import / coiled-coil / helix / hairpin / FG-repeat / nucleoporin / NPC / nuclear tranport / transport channel / Nup62 / Nup45 / Nup93 / karyopherin / nuclear pore complex / nuclear pore domain / nuclear envelope | ||||||
Function / homology | ![]() Transport of the SLBP independent Mature mRNA / Transport of the SLBP Dependant Mature mRNA / Transport of Mature mRNA Derived from an Intronless Transcript / Transport of Mature mRNA derived from an Intron-Containing Transcript / snRNP Assembly / SUMOylation of ubiquitinylation proteins / Nuclear Pore Complex (NPC) Disassembly / SUMOylation of SUMOylation proteins / SUMOylation of chromatin organization proteins / SUMOylation of RNA binding proteins ...Transport of the SLBP independent Mature mRNA / Transport of the SLBP Dependant Mature mRNA / Transport of Mature mRNA Derived from an Intronless Transcript / Transport of Mature mRNA derived from an Intron-Containing Transcript / snRNP Assembly / SUMOylation of ubiquitinylation proteins / Nuclear Pore Complex (NPC) Disassembly / SUMOylation of SUMOylation proteins / SUMOylation of chromatin organization proteins / SUMOylation of RNA binding proteins / SUMOylation of DNA replication proteins / Transcriptional regulation by small RNAs / Regulation of Glucokinase by Glucokinase Regulatory Protein / SUMOylation of DNA damage response and repair proteins / regulation of protein import into nucleus / protein localization to nuclear inner membrane / Regulation of HSF1-mediated heat shock response / nuclear pore central transport channel / nuclear pore organization / structural constituent of nuclear pore / nucleocytoplasmic transport / nuclear localization sequence binding / NLS-bearing protein import into nucleus / mRNA transport / protein targeting / nuclear pore / protein transport / nuclear envelope / nuclear membrane / protein-containing complex binding / protein-containing complex / identical protein binding Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Solmaz, S.R. / Blobel, G. / Melcak, I. | ||||||
![]() | ![]() Title: Molecular architecture of the transport channel of the nuclear pore complex. Authors: Solmaz, S.R. / Chauhan, R. / Blobel, G. / Melcak, I. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 46.1 KB | Display | ![]() |
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PDB format | ![]() | 33.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 448.1 KB | Display | ![]() |
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Full document | ![]() | 452.1 KB | Display | |
Data in XML | ![]() | 9.3 KB | Display | |
Data in CIF | ![]() | 11.7 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 on special symmetry positions |
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Details | THE BIOLOGICAL UNIT IS A 32MER OF THE ASYMMETRIC UNIT IN THE SHAPE OF A SPIRAL. |
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Components
#1: Protein | Mass: 6003.876 Da / Num. of mol.: 2 / Fragment: UNP residues 445-494 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() #2: Protein | | Mass: 10781.189 Da / Num. of mol.: 1 / Fragment: UNP residues 327-415 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.15 Å3/Da / Density % sol: 60.99 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 4 Details: Protein concentration 14-17 mg/ml Drop size 2.4 ul Reservoir: 0.1 M Sodium Acetate pH 3.8-4.1 and 0.08-0.1 M CaCl2 , VAPOR DIFFUSION, HANGING DROP, temperature 293K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 315r / Detector: CCD / Date: Aug 15, 2008 |
Radiation | Monochromator: Double crystal, Si(111) / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9796 Å / Relative weight: 1 |
Reflection | Resolution: 2.5→50 Å / Num. all: 11076 / Num. obs: 11076 / % possible obs: 99.9 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 13.1 % / Biso Wilson estimate: 54 Å2 / Rsym value: 0.098 / Net I/σ(I): 23 |
Reflection shell | Resolution: 2.5→2.59 Å / Redundancy: 11.3 % / Mean I/σ(I) obs: 4.6 / Rsym value: 0.43 / % possible all: 99.8 |
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Processing
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Refinement | Method to determine structure: ![]()
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Refinement step | Cycle: LAST / Resolution: 2.5→50 Å
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Refine LS restraints |
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