Released | 2018-06-20Deposited: 2018-03-23 |
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Title | Ternary complex crystal structure of DNA polymerase Beta with a dideoxy terminated primer with CBr2, beta, gamma dCTP analogue |
Authors | Batra VK, Wilson SH |
Method | X-RAY DIFFRACTION2.02 Å Rwork: 0.1766 Rfree: 0.2286 P 1 21 1a=50.815 Å b=79.565 Å c=55.502 Å α=90° β=107.78° γ=90° Software: HKL-2000, PDB_EXTRACT, PHENIX |
Primary Citation | Mapping Functional Substrate-Enzyme Interactions in the pol beta Active Site through Chemical Biology: Structural Responses to Acidity Modification of Incoming dNTPs. Batra VK, Oertell K, Beard WA, Kashemirov BA, McKenna CE, Goodman MF, Wilson SH Biochemistry (2018) |
Entry Content | Deposited MW: 48.82 kDa |
Analysis | |
Protein Annotations | |
Nonstandard Nucleotides |
Type | Description (hover for sequence) | Chains(Auth) | Source | MW(kDa) | Links |
---|---|---|---|---|---|
DNA | CCGACGTCGCATCAGC (16-MER) | T | Homo sapiens | 4.8 | |
GCTGATGCGA (10-MER) | P | Homo sapiens | 3.1 | ||
GTCGG (5-MER) | D | Homo sapiens | 1.5 | ||
Protein | DNA polymerase beta | A | Homo sapiens | 38.3 | |
Ligand | 2' deoxy 5' O [(R) {[(R) [dibromo(phosphono)methyl](hydroxy)phosphoryl]oxy}(hydroxy)phosphoryl]cytidine | 0.623 | |||
2' DEOXYCYTIDINE 5' MONOPHOSPHATE | 0.307 | ||||
CHLORIDE ION | 0.035 | ||||
MAGNESIUM ION | 0.024 | ||||
SODIUM ION | 0.023 |
Assembly # | Type, Components (Author Chain Ids) | Oligomer | Point Symmetry | Actions |
---|---|---|---|
1 | author and software defined DNA: CCGACGTCGCATCAGC (16-MER) (T) DNA: GCTGATGCGA (10-MER) (P) DNA: GTCGG (5-MER) (D) Protein: DNA polymerase beta (A) | tetrameric(4) | C1 | View Assembly in 3D (Mol*) View Nucleic Acid Parameters (DSSR) Download Assembly mmCIF File (RCSB) |