MolNFT v1 · #123491 · protein + DNA
The crystal structure of the bacteriophage T4 mota C-terminal domain in complex with dsdna reveals a novel protein-DNA recognition motif
5JLT · Middle transcription regulatory protein mota: “The crystal structure of the bacteriophage T4 mota C-terminal domain in complex with dsdna reveals a novel…”. X-ray diffraction, 10 pockets (best druggability 0.82). MolNFT v1 #123491…
- PDB
- 5JLT
- Type
- protein + DNA
- Length
- 526 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Middle transcription regulatory protein mota; DNA (5'…
- UniProt
- P22915
- Pockets
- 10 · best druggability 0.82
Structure
x-ray diffraction · 6 distinct chains · 32% helix, 37% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Middle transcription regulatory protein mota | protein | 114 | 32% helix, 34% strand | P22915 |
| B | Middle transcription regulatory protein mota | protein | 108 | 31% helix, 38% strand | P22915 |
| C | Middle transcription regulatory protein mota | protein | 110 | 33% helix, 37% strand | P22915 |
| D | Middle transcription regulatory protein mota | protein | 106 | 33% helix, 39% strand | P22915 |
| E, H | DNA (5'- D(*GP*AP*AP*GP*CP*TP*TP*TP*GP*CP*TP*TP*AP*AP*TP*AP*AP*TP*CP*CP*AP*C)- 3') | dna | 22 | — | — |
| F, G | DNA (5'- D(*GP*TP*GP*GP*AP*TP*TP*AP*TP*TP*AP*AP*GP*CP*AP*AP*AP*GP*CP*TP*TP*C)- 3') | dna | 22 | — | — |
Pockets
10 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1152 | 0.82 | 0.83 | 78 | empty |
| 2 | 1137 | 0.81 | 0.82 | 75 | empty |
| 3 | 73 | 0.50 | 0.85 | 14 | empty |
| 4 | 205 | 0.49 | 0.76 | 25 | empty |
| 5 | 54 | 0.37 | 0.80 | 17 | empty |
Interfaces
13 interfaces between chains.
- G–H · 971 Ų buried · 84 hydrogen bonds · nucleic-nucleic
- E–F · 968 Ų buried · 81 hydrogen bonds · nucleic-nucleic
- A–E · 588 Ų buried · 11 hydrogen bonds · protein-nucleic
- A–F · 521 Ų buried · 5 hydrogen bonds · protein-nucleic
- A–B · 466 Ų buried · 6 hydrogen bonds · protein-protein
Compared structures
- 5JLT · The crystal structure of the bacteriophage T4 MotA C-terminal domain in complex with… · the same entry in another collection · chain A against A, TM-score 1.00
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 P22915
- Elsewhere: RCSB PDB 5JLT · PDBe 5JLT · UniProt P22915
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