[English] 日本語
![](img/lk-miru.gif)
- PDB-1nhj: Crystal structure of N-terminal 40KD MutL/A100P mutant protein co... -
+
Open data
-
Basic information
Entry | Database: PDB / ID: 1nhj | ||||||
---|---|---|---|---|---|---|---|
Title | Crystal structure of N-terminal 40KD MutL/A100P mutant protein complex with ADPnP and one sodium | ||||||
![]() | DNA mismatch repair protein mutL | ||||||
![]() | REPLICATION / SIGNALING PROTEIN / DNA mismatch repair / MutL / ATPase / Rubidium | ||||||
Function / homology | ![]() single-stranded DNA-dependent ATP-dependent DNA helicase complex / mismatch repair involved in maintenance of fidelity involved in DNA-dependent DNA replication / mismatch repair complex / regulation of DNA recombination / nucleotide-excision repair, DNA duplex unwinding / mismatched DNA binding / ATP-dependent DNA damage sensor activity / mismatch repair / ATP hydrolysis activity / DNA binding ...single-stranded DNA-dependent ATP-dependent DNA helicase complex / mismatch repair involved in maintenance of fidelity involved in DNA-dependent DNA replication / mismatch repair complex / regulation of DNA recombination / nucleotide-excision repair, DNA duplex unwinding / mismatched DNA binding / ATP-dependent DNA damage sensor activity / mismatch repair / ATP hydrolysis activity / DNA binding / ATP binding / identical protein binding Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Hu, X. / Machius, M. / Yang, W. | ||||||
![]() | ![]() Title: Monovalent cation dependence and preference of GHKL ATPases and kinases Authors: Hu, X. / Machius, M. / Yang, W. | ||||||
History |
|
-
Structure visualization
Structure viewer | Molecule: ![]() ![]() |
---|
-
Downloads & links
-
Download
PDBx/mmCIF format | ![]() | 86.1 KB | Display | ![]() |
---|---|---|---|---|
PDB format | ![]() | 62.9 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 772.7 KB | Display | ![]() |
---|---|---|---|---|
Full document | ![]() | 780.1 KB | Display | |
Data in XML | ![]() | 17.5 KB | Display | |
Data in CIF | ![]() | 24.8 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1nhhC ![]() 1nhiC ![]() 1b63S S: Starting model for refinement C: citing same article ( |
---|---|
Similar structure data |
-
Links
-
Assembly
Deposited unit | ![]()
| ||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|
1 | ![]()
| ||||||||||
Unit cell |
|
-
Components
#1: Protein | Mass: 37241.383 Da / Num. of mol.: 1 / Fragment: N-terminal 40KD ATPase fragment (LN40) / Mutation: A100P Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() |
---|---|
#2: Chemical | ChemComp-NA / |
#3: Chemical | ChemComp-MG / |
#4: Chemical | ChemComp-ANP / |
#5: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
---|
-
Sample preparation
Crystal | Density Matthews: 2.7 Å3/Da / Density % sol: 54.1 % | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Crystal grow | Temperature: 293 K / Method: evaporation, recrystallization / pH: 8.2 Details: PEG 4000, ammonium sulfate, potassium choloride, megnesium choloride, DTT, EDTA, pH 8.2, EVAPORATION, RECRYSTALLIZATION, temperature 20K | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 20 ℃ / pH: 8.5 / Method: vapor diffusion, hanging drop / Details: Ban, C., (1999) Cell(Cambridge,Mass.), 97, 85. | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
|
-Data collection
Diffraction | Mean temperature: 98 K |
---|---|
Diffraction source | Source: ![]() |
Detector | Type: RIGAKU RAXIS IV / Detector: IMAGE PLATE / Date: Aug 10, 2002 / Details: mirrors |
Radiation | Monochromator: NI FILTER / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2.3→20 Å / Num. all: 37150 / Num. obs: 33550 / % possible obs: 90.3 % / Observed criterion σ(I): -3 |
Reflection shell | Resolution: 2.3→2.34 Å / % possible all: 93.5 |
Reflection | *PLUS Highest resolution: 2.3 Å / % possible obs: 93.6 % / Rmerge(I) obs: 0.054 |
Reflection shell | *PLUS % possible obs: 93.5 % / Rmerge(I) obs: 0.49 |
-
Processing
Software |
| ||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 1B63 Resolution: 2.3→20 Å / Cross valid method: THROUGHOUT / σ(F): 0 / Stereochemistry target values: Engh & Huber
| ||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.3→20 Å
| ||||||||||||||||||||||||||||||||||||||||
Refine LS restraints |
| ||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Highest resolution: 2.3 Å / Lowest resolution: 20 Å / Rfactor Rfree: 0.266 / Rfactor Rwork: 0.217 | ||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
|