[English] 日本語
![](img/lk-miru.gif)
- PDB-1qlb: respiratory complex II-like fumarate reductase from Wolinella suc... -
+
Open data
-
Basic information
Entry | Database: PDB / ID: 1qlb | |||||||||
---|---|---|---|---|---|---|---|---|---|---|
Title | respiratory complex II-like fumarate reductase from Wolinella succinogenes | |||||||||
![]() | (FUMARATE REDUCTASE ...![]() | |||||||||
![]() | ![]() ![]() | |||||||||
Function / homology | ![]() : / ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() Similarity search - Function | |||||||||
Biological species | ![]() | |||||||||
Method | ![]() ![]() ![]() | |||||||||
![]() | Lancaster, C.R.D. / Kroeger, A. / Auer, M. / Michel, H. | |||||||||
![]() | ![]() Title: Structure of Fumarate Reductase from Wolinella Succinogenes at 2.2 Angstroms Resolution Authors: Lancaster, C.R.D. / Kroeger, A. / Auer, M. / Michel, H. | |||||||||
History |
|
-
Structure visualization
Structure viewer | Molecule: ![]() ![]() |
---|
-
Downloads & links
-
Download
PDBx/mmCIF format | ![]() | 484.3 KB | Display | ![]() |
---|---|---|---|---|
PDB format | ![]() | 385.3 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
---|
-Related structure data
Related structure data | ![]() 1qla S: Starting model for refinement |
---|---|
Similar structure data |
-
Links
-
Assembly
Deposited unit | ![]()
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||
Unit cell |
| ||||||||
Noncrystallographic symmetry (NCS) | NCS oper: (Code: given Matrix: (0.97509, -0.00632, 0.22173), Vector ![]() |
-
Components
-FUMARATE REDUCTASE ... , 3 types, 6 molecules ADBECF
#1: Protein | Mass: 72941.195 Da / Num. of mol.: 2 / Source method: isolated from a natural source Details: 8-ALPHA-[-N-EPSILON-HISTIDYL] COVALENT BOND BETWEEN FLAVIN ADENINE DINUCLEOTIDE (FAD) AND HIS 43 Source: (natural) ![]() ![]() #2: Protein | Mass: 27197.453 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) ![]() ![]() #3: Protein | Mass: 29759.059 Da / Num. of mol.: 2 / Source method: isolated from a natural source Details: HAEM AXIAL LIGANDS - HIS 44, HIS 93, HIS 143, HIS 182 Source: (natural) ![]() |
---|
-Sugars , 1 types, 2 molecules ![](data/chem/img/LMT.gif)
#11: Sugar |
---|
-Non-polymers , 8 types, 520 molecules ![](data/chem/img/FAD.gif)
![](data/chem/img/FUM.gif)
![](data/chem/img/CA.gif)
![](data/chem/img/FES.gif)
![](data/chem/img/F3S.gif)
![](data/chem/img/SF4.gif)
![](data/chem/img/HEM.gif)
![](data/chem/img/HOH.gif)
![](data/chem/img/FUM.gif)
![](data/chem/img/CA.gif)
![](data/chem/img/FES.gif)
![](data/chem/img/F3S.gif)
![](data/chem/img/SF4.gif)
![](data/chem/img/HEM.gif)
![](data/chem/img/HOH.gif)
#4: Chemical | ![]() #5: Chemical | ![]() #6: Chemical | #7: Chemical | ![]() #8: Chemical | ![]() #9: Chemical | ![]() #10: Chemical | ChemComp-HEM / ![]() #12: Water | ChemComp-HOH / | ![]() |
---|
-Details
Sequence details | FOR RESIDUES 281- 289 (CHAINS A AND D) THERE IS AN ERROR IN THE SEQUENCE REPORTED IN THE SWS ...FOR RESIDUES 281- 289 (CHAINS A AND D) THERE IS AN ERROR IN THE SEQUENCE REPORTED IN THE SWS DATABASE ENTRY P17412, REFERENCE, LAUTERBACH |
---|
-Experimental details
-Experiment
Experiment | Method: ![]() |
---|
-
Sample preparation
Crystal | Density Matthews: 3.64 Å3/Da / Density % sol: 65 % | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Crystal grow![]() | pH: 6 / Details: pH 6.00 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS pH: 6.4 / Method: vapor diffusion | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
|
-Data collection
Diffraction | Mean temperature: 275 K |
---|---|
Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MARRESEARCH / Detector: CCD / Date: Mar 26, 1999 / Details: MIRRORS |
Radiation | Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength![]() |
Reflection | Resolution: 2.33→38.87 Å / Num. obs: 152939 / % possible obs: 95.8 % / Observed criterion σ(I): -3 / Redundancy: 2.6 % / Biso Wilson estimate: 38 Å2 / Rsym value: 0.075 / Net I/σ(I): 9.5 |
Reflection shell | Resolution: 2.33→2.39 Å / Redundancy: 3 % / Mean I/σ(I) obs: 2.8 / Rsym value: 0.388 / % possible all: 99.7 |
Reflection | *PLUS Rmerge(I) obs: 0.075 |
Reflection shell | *PLUS % possible obs: 99.7 % / Rmerge(I) obs: 0.388 |
-
Processing
Software |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure![]() ![]() Starting model: PDB ENTRY 1QLA ![]() 1qla Resolution: 2.33→38.87 Å / Rfactor Rfree error: 0.0045 / Data cutoff high absF: 10000 / Isotropic thermal model: RESTRAINED / Cross valid method: THROUGHOUT / σ(F): 0 Stereochemistry target values: MAXIMUM LIKELIHOOD TARGET USING AMPLITUDES (MLF) Details: N(OBS)/N(PAR) = 2.01
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | Bsol: 61.5 Å2 / ksol: 0.33 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 39 Å2
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine analyze |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.33→38.87 Å
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints NCS | Rms dev position: 0.009 Å / Weight position: 300 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
LS refinement shell | Resolution: 2.33→2.41 Å / Rfactor Rfree error: 0.015 / Total num. of bins used: 10
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Xplor file |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Software | *PLUS Name: CNS / Version: 0.5 / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
|