MolNFT v1 · #164549 · protein + DNA
Crystal structure of the C-terminally truncated chromosome- partitioning protein parb from caulobacter crescentus complexed to the centromeric pars site
6T1F · Chromosome-partitioning protein parb: “Crystal structure of the C-terminally truncated chromosome- partitioning protein parb from caulobacter…”. X-ray diffraction, 12 pockets (best druggability 0.65). MolNFT v1 #164549 on GenesisL1…
- PDB
- 6T1F
- Type
- protein + DNA
- Length
- 851 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Chromosome-partitioning protein parb; DNA (5'…
- UniProt
- B8GW30
- Pockets
- 12 · best druggability 0.65
Structure
x-ray diffraction · 5 distinct chains · 55% helix, 11% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Chromosome-partitioning protein parb | protein | 191 | 57% helix, 11% strand | B8GW30 |
| B | Chromosome-partitioning protein parb | protein | 190 | 54% helix, 13% strand | B8GW30 |
| C | Chromosome-partitioning protein parb | protein | 195 | 55% helix, 11% strand | B8GW30 |
| D | Chromosome-partitioning protein parb | protein | 187 | 54% helix, 11% strand | B8GW30 |
| E, F, G, H | DNA (5'- D(*GP*GP*AP*TP*GP*TP*TP*TP*CP*AP*CP*GP*TP*GP*AP*AP*AP*CP*AP*TP*CP*C)- 3') | dna | 22 | — | — |
Pockets
12 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 417 | 0.65 | 0.78 | 46 | empty |
| 2 | 651 | 0.65 | 0.75 | 64 | empty |
| 3 | 530 | 0.64 | 0.76 | 66 | empty |
| 4 | 117 | 0.53 | 0.83 | 22 | empty |
| 5 | 211 | 0.51 | 0.77 | 28 | empty |
Interfaces
14 interfaces between chains.
- E–F · 979 Ų buried · 95 hydrogen bonds · nucleic-nucleic
- G–H · 979 Ų buried · 88 hydrogen bonds · nucleic-nucleic
- A–E · 599 Ų buried · 15 hydrogen bonds · protein-nucleic
- B–F · 583 Ų buried · 15 hydrogen bonds · protein-nucleic
- D–H · 578 Ų buried · 13 hydrogen bonds · protein-nucleic
Compared structures
- 6T1F · Crystal structure of the C-terminally truncated chromosome-partitioning protein ParB from… · the same entry in another collection · chain H against H, TM-score 1.00
- B8GW30 · AlphaFold monomer V2.0 prediction for chromosome-partitioning protein parb (B8GW30) · a predicted model of the same protein · chain D against A, TM-score 0.89
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 B8GW30
- Elsewhere: RCSB PDB 6T1F · PDBe 6T1F · UniProt B8GW30
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