- PDB-2axd: solution structure of the theta subunit of escherichia coli DNA p... -
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Basic information
Entry
Database: PDB / ID: 2axd
Title
solution structure of the theta subunit of escherichia coli DNA polymerase III in complex with the epsilon subunit
Components
DNA polymerase III, theta subunit
Keywords
TRANSFERASE / THETA SUBUNIT / DNA POLYMERASE III
Function / homology
Function and homology information
DNA polymerase III, core complex / DNA polymerase III complex / lagging strand elongation / replisome / leading strand elongation / DNA-templated DNA replication / DNA-directed DNA polymerase / DNA-directed DNA polymerase activity / DNA binding / cytosol Similarity search - Function
DNA polymerase III-theta / DNA polymerase III-theta, bacterial / DNA polymerase III-theta superfamily / DNA polymerase III, theta subunit / Methane Monooxygenase Hydroxylase; Chain G, domain 1 / Up-down Bundle / Mainly Alpha Similarity search - Domain/homology
Mass: 8861.305 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli (E. coli) / Gene: holE / Plasmid: PCM869 / Species (production host): Escherichia coli / Production host: Escherichia coli BL21(DE3) (bacteria) / Strain (production host): BL21(DE3) / References: UniProt: P0ABS8, DNA-directed DNA polymerase
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Experimental details
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Experiment
Experiment
Method: SOLUTION NMR
NMR experiment
Conditions-ID
Experiment-ID
Solution-ID
Type
1
1
1
3D 15N-separated NOESY
1
2
2
3D 15N-separated NOESY
1
3
1
3D 13C-separated NOESY
1
4
2
3D 13C-separated NOESY
1
5
1
HNHA
1
6
2
2D 15N-HSQC
NMR details
Text: THE STRUCTURE WAS DETERMINED USING DISTANCE AND ANGULAR RESTRAINTS AND SUPPLEMENTED WITH RESTRAINTS CALCULATED FROM PSEUDO-CONTACT SHIFTS INDUCED BY INSERTING A LANTHANIDE ION INTO THE EPSILON186 BINDING POCKET
Method: torsion angle dynamics / Software ordinal: 1 Details: THE STRUCTURES ARE BASED ON 632 DISTANCE RESTRAINTS, 111 DIHEDRAL ANGLE RESTRAINTS AND 162 PSEUDO-CONTACT SHIFT RESTRAINTS. THE PSEUDO-CONTACT SHIFTS WERE CALCULATED FROM THE CHANGE IN ...Details: THE STRUCTURES ARE BASED ON 632 DISTANCE RESTRAINTS, 111 DIHEDRAL ANGLE RESTRAINTS AND 162 PSEUDO-CONTACT SHIFT RESTRAINTS. THE PSEUDO-CONTACT SHIFTS WERE CALCULATED FROM THE CHANGE IN CHEMICAL SHIFT OF THE AMIDE PROTONS INDUCED BY INSERTING A LANTHANIDE ION (EITHER YSPROSIUM, ERBIUM OR HOLMIUM) AT THE METAL BINDING SITE OF EPSILON-186 WHICH IS COMPLEXED TO THE THETA SUBUNIT. XPLOR-NIH 2.9.7 WAS USED TO REFINE THE STRUCTURE USING THIS DATA
NMR representative
Selection criteria: lowest energy
NMR ensemble
Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 200 / Conformers submitted total number: 12
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