MolNFT v1 · #72412 · protein + DNA
Crystal structure of human mitochondrial mterf fragment (aa 99-399) in complex with a 12-mer DNA encompassing the TRNALEU(UUR) binding sequence
3N7Q · Transcription termination factor, mitochondrial: “Crystal structure of human mitochondrial mterf fragment (aa 99-399) in complex with a 12-mer DNA encompassing…”. X-ray diffraction, 3 pockets (best druggability 0.68). MolNFT v1…
- PDB
- 3N7Q
- Type
- protein + DNA
- Length
- 322 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Transcription termination factor, mitochondrial; DNA…
- UniProt
- Q99551
- Pockets
- 3 · best druggability 0.68
Structure
x-ray diffraction · 3 distinct chains · 71% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Transcription termination factor, mitochondrial | protein | 298 | 71% helix, 0% strand | Q99551 |
| B | DNA (5'-D(*GP*GP*CP*AP*GP*AP*GP*CP*CP*CP*GP*G)-3') | dna | 12 | — | — |
| C | DNA (5'-D(*CP*CP*GP*GP*GP*CP*TP*CP*TP*GP*CP*C)-3') | dna | 12 | — | — |
Ligands and binding sites
- CIT · Citric acid · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 521 | 0.68 | 0.79 | 44 | empty |
| 2 | 52 | 0.46 | 0.85 | 16 | empty |
| 3 | 93 | 0.34 | 0.74 | 13 | empty |
Interfaces
3 interfaces between chains.
- B–C · 540 Ų buried · 43 hydrogen bonds · nucleic-nucleic
- A–C · 353 Ų buried · 4 hydrogen bonds · protein-nucleic
- A–B · 329 Ų buried · 7 hydrogen bonds · protein-nucleic
Compared structures
- 3N7Q · Crystal structure of human mitochondrial mTERF fragment (aa 99-399) in complex with a… · the same entry in another collection · chain A against A, TM-score 1.00
- Q99551 · AlphaFold monomer V2.0 prediction for transcription termination factor 1, mitochondrial… · a predicted model of the same protein · chain A against A, TM-score 0.88
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 Q99551
- Elsewhere: RCSB PDB 3N7Q · PDBe 3N7Q · UniProt Q99551
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