Research workbench
Transcriptional repressor COPG/22BP dsdna complex
Analyse Transcriptional repressor COPG/22BP dsdna complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1EA4
- Type
- protein + DNA
- Length
- 556 residues
- Chains
- 16
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Transcriptional repressor copg; DNA (5'-D(*TP*AP*AP*CP*CP*GP*TP*GP…
- UniProt
- P13920
- Pockets
- 12 · best druggability 0.71
Structure
x-ray diffraction · 12 distinct chains · 63% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Transcriptional repressor copg | protein | 42 | 62% helix, 19% strand | P13920 |
| B | Transcriptional repressor copg | protein | 41 | 61% helix, 22% strand | P13920 |
| D, K | Transcriptional repressor copg | protein | 43 | 63% helix, 19% strand | P13920 |
| E, J, L | Transcriptional repressor copg | protein | 44 | 64% helix, 20% strand | P13920 |
| F | Transcriptional repressor copg | protein | 45 | 62% helix, 18% strand | P13920 |
| G | Transcriptional repressor copg | protein | 42 | 64% helix, 21% strand | P13920 |
| H | Transcriptional repressor copg | protein | 44 | 66% helix, 18% strand | P13920 |
| U | DNA (5'-D(*TP*AP*AP*CP*CP*GP*TP*GP *CP*AP*CP*TP*CP*AP*AP*TP*GP*CP*AP*AP*TP*C)-3') | dna | 19 | — | — |
| V | DNA(5'-D(*AP*GP*AP*TP*TP*GP*CP*AP*TP *TP*GP*AP*GP*TP*GP*CP*AP*CP*GP*GP*TP*T)-3') | dna | 20 | — | — |
| W | DNA (5'-D(*TP*AP*AP*CP*CP*GP*TP*GP *CP*AP*CP*TP*CP*AP*AP*TP*GP*CP*AP*AP*TP*C)-3') | dna | 22 | — | — |
| X, Z | DNA(5'-D(*AP*GP*AP*TP*TP*GP*CP*AP*TP *TP*GP*AP*GP*TP*GP*CP*AP*CP*GP*GP*TP*T)-3') | dna | 21 | — | — |
| Y | DNA (5'-D(*TP*AP*AP*CP*CP*GP*TP*GP *CP*AP*CP*TP*CP*AP*AP*TP*GP*CP*AP*AP*TP*C)-3') | dna | 21 | — | — |
Pockets
12 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 801 | 0.71 | 0.77 | 60 | empty |
| 2 | 461 | 0.60 | 0.76 | 38 | empty |
| 3 | 379 | 0.59 | 0.77 | 44 | empty |
| 4 | 244 | 0.53 | 0.76 | 28 | empty |
| 5 | 164 | 0.47 | 0.76 | 21 | empty |
Interfaces
41 interfaces between chains.
- Y–Z · 1889 Ų buried · 834 hydrogen bonds · nucleic-nucleic
- K–L · 1638 Ų buried · 19 hydrogen bonds · protein-protein
- D–E · 1616 Ų buried · 18 hydrogen bonds · protein-protein
- F–G · 1609 Ų buried · 16 hydrogen bonds · protein-protein
- A–B · 1605 Ų buried · 17 hydrogen bonds · protein-protein
Compared structures
- 1EA4 · TRANSCRIPTIONAL REPRESSOR COPG/22bp dsDNA COMPLEX · the same entry in another collection · chain J against J, 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 P13920
- Elsewhere: RCSB PDB 1EA4 · PDBe 1EA4 · UniProt P13920
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