Research workbench
Crystal structure of arabidopsis co cct domain in complex with nf- YB2/YC3 and ft CORE1 DNA
Analyse Crystal structure of arabidopsis co cct domain in complex with nf- YB2/YC3 and… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7CVQ
- Type
- protein + DNA
- Length
- 1,031 residues
- Chains
- 16
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Chimera of nuclear transcription factor Y subunit C-3 and zinc finger protein constans…
- UniProt
- Q9ZVL3, Q39057, Q9FGJ3
- Pockets
- 20 · best druggability 0.81
Structure
x-ray diffraction · 7 distinct chains · 64% helix, 4% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, F | Chimera of nuclear transcription factor Y subunit C-3 and zinc finger protein constans | protein | 125 | 62% helix, 5% strand | Q9ZVL3, Q39057 |
| B | Nuclear transcription factor Y subunit B-2 | protein | 85 | 69% helix, 5% strand | Q9FGJ3 |
| D, I, N, T | Ft CORE1 DNA forward strand | dna | 25 | — | — |
| E, J, O, U | Ft CORE1 DNA reverse strand | dna | 25 | — | — |
| K | Chimera of nuclear transcription factor Y subunit C-3 and zinc finger protein constans | protein | 117 | 62% helix, 3% strand | Q9ZVL3, Q39057 |
| P | Chimera of nuclear transcription factor Y subunit C-3 and zinc finger protein constans | protein | 121 | 63% helix, 5% strand | Q9ZVL3, Q39057 |
| G, L, Q | Nuclear transcription factor Y subunit B-2 | protein | 86 | 69% helix, 5% strand | Q9FGJ3 |
Pockets
20 pockets found on a 1 Å grid, 14 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 894 | 0.81 | 0.84 | 80 | empty |
| 2 | 801 | 0.78 | 0.82 | 48 | empty |
| 3 | 511 | 0.74 | 0.82 | 34 | empty |
| 4 | 637 | 0.73 | 0.80 | 36 | empty |
| 5 | 604 | 0.69 | 0.78 | 36 | empty |
Interfaces
38 interfaces between chains.
- A–B · 2850 Ų buried · 29 hydrogen bonds · protein-protein
- F–G · 2803 Ų buried · 34 hydrogen bonds · protein-protein
- K–L · 2701 Ų buried · 28 hydrogen bonds · protein-protein
- P–Q · 2576 Ų buried · 25 hydrogen bonds · protein-protein
- T–U · 1068 Ų buried · 78 hydrogen bonds · nucleic-nucleic
Compared structures
- 7CVQ · crystal structure of Arabidopsis CO CCT domain in complex with NF-YB2/YC3 and FT CORE1 DNA · the same entry in another collection · chain I against I, 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 Q9ZVL3
- Every structure of UniProt Q39057
- Every structure of UniProt Q9FGJ3
- Elsewhere: RCSB PDB 7CVQ · PDBe 7CVQ · UniProt Q9ZVL3 · UniProt Q39057 · UniProt Q9FGJ3
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