Research workbench
Binary complex of catalytic core of human DNA polymerase iota with DNA (template a)
Analyse Binary complex of catalytic core of human DNA polymerase iota with DNA… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2FLN
- Type
- protein + DNA
- Length
- 382 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA template strand; DNA primer strand; DNA polymerase iota
- EC
- 2.7.7.7
- UniProt
- Q9UNA4
- Pockets
- 4 · best druggability 0.76
Structure
x-ray diffraction · 3 distinct chains · 45% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| T | DNA template strand | dna | 9 | — | — |
| P | DNA primer strand | dna | 7 | — | — |
| A | DNA polymerase iota (EC 2.7.7.7) | protein | 366 | 45% helix, 20% strand | Q9UNA4 |
Pockets
4 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 998 | 0.76 | 0.79 | 79 | empty |
| 2 | 672 | 0.73 | 0.80 | 52 | empty |
| 3 | 80 | 0.52 | 0.84 | 21 | empty |
| 4 | 72 | 0.41 | 0.79 | 15 | empty |
Interfaces
3 interfaces between chains.
- T–A · 793 Ų buried · 20 hydrogen bonds · protein-nucleic
- P–A · 468 Ų buried · 10 hydrogen bonds · protein-nucleic
- T–P · 326 Ų buried · 29 hydrogen bonds · nucleic-nucleic
Modifications
Observed in the structure: 1 modified (nucleotide modification).
Compared structures
- 2FLN · binary complex of catalytic core of human DNA polymerase iota with DNA (template A) · the same entry in another collection · chain T against T, TM-score 1.00
- Q9UNA4 · AlphaFold monomer V2.0 prediction for DNA polymerase iota (Q9UNA4) · a predicted model of the same protein · chain A against A, TM-score 0.99
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt Q9UNA4
- Elsewhere: RCSB PDB 2FLN · PDBe 2FLN · UniProt Q9UNA4
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