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Open data
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Basic information
Entry | Database: PDB / ID: 1ghh | |||||||||
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Title | SOLUTION STRUCTURE OF DINI | |||||||||
![]() | DNA-DAMAGE-INDUCIBLE PROTEIN I | |||||||||
![]() | PROTEIN BINDING / bicelle / DinI / dipolar coupling / liquid crystal / Pf1 / RecA | |||||||||
Function / homology | ![]() | |||||||||
Biological species | ![]() ![]() | |||||||||
Method | SOLUTION NMR / simulated annealing, molecular dynamics in Cartesian space | |||||||||
![]() | Ramirez, B.E. / Voloshin, O.N. / Camerini-Otero, R.D. / Bax, A. | |||||||||
![]() | ![]() Title: Solution structure of DinI provides insight into its mode of RecA inactivation. Authors: Ramirez, B.E. / Voloshin, O.N. / Camerini-Otero, R.D. / Bax, A. | |||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 482.1 KB | Display | ![]() |
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PDB format | ![]() | 404.9 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
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-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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NMR ensembles |
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Components
#1: Protein | Mass: 8957.937 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||||||||||
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NMR experiment |
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NMR details | Text: This structure was determined using two sets of dipolar coupling restraints. One set was recorded in a bicelle liquid crystal solution; the other set was recorded in a phage liquid crystal ...Text: This structure was determined using two sets of dipolar coupling restraints. One set was recorded in a bicelle liquid crystal solution; the other set was recorded in a phage liquid crystal solution. See citation 1 for details on solution conditions. A total of 127 N-H, 135 CA-HA, 138 CA-CO, 61 N-CO, and 64 CO-HN dipolar restraints were used in the structure calculation. Additional restraints included 592 intraresidue, 278 short range, 104 medium range, and 140 long range NOE restraints as well as 76 phi, 51 psi, and 21 chi1 dihedral restraints. A conformational database was employed in the simulated annealing calculation. No radius of gyration term was employed in the simulated annealing calculation. |
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Sample preparation
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Sample conditions |
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Crystal grow | *PLUS Method: other / Details: NMR |
-NMR measurement
NMR spectrometer |
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Processing
NMR software |
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Refinement | Method: simulated annealing, molecular dynamics in Cartesian space Software ordinal: 1 Details: Structures were calculated in a three stage process. In the first stage, folds were calculated from a fully-extended chain based only on torsion and NOE restraints. In the second stage, the ...Details: Structures were calculated in a three stage process. In the first stage, folds were calculated from a fully-extended chain based only on torsion and NOE restraints. In the second stage, the ten best structures of stage 1 were used as starting structures in a simulated annealing calculation that included dipolar restraints measured in bicelles. In the last stage, the ten lowest energy structures of Stage 2 were used as starting structures in a simulated annealing calculation that also included dipolar restraints measured in a phage liquid crystal. | |||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 30 / Conformers submitted total number: 20 |