Research workbench
Structure of the SH2 domain of the candida glabrata transcription elongation factor SPT6, crystal form B
Analyse Structure of the SH2 domain of the candida glabrata transcription elongation… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3GXX
- Type
- protein
- Length
- 370 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Transcription elongation factor SPT6
- UniProt
- Q6FLB1
- Pockets
- 5 · best druggability 0.76
Structure
x-ray diffraction · 4 distinct chains · 29% helix, 33% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Transcription elongation factor SPT6 | protein | 96 | 29% helix, 34% strand | Q6FLB1 |
| B | Transcription elongation factor SPT6 | protein | 97 | 28% helix, 30% strand | Q6FLB1 |
| C | Transcription elongation factor SPT6 | protein | 91 | 27% helix, 33% strand | Q6FLB1 |
| D | Transcription elongation factor SPT6 | protein | 86 | 30% helix, 34% strand | Q6FLB1 |
Pockets
5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 95 | 0.76 | 0.97 | 19 | empty |
| 2 | 57 | 0.55 | 0.89 | 14 | empty |
| 3 | 172 | 0.45 | 0.75 | 24 | empty |
| 4 | 120 | 0.42 | 0.76 | 21 | empty |
| 5 | 59 | 0.32 | 0.76 | 17 | empty |
Interfaces
5 interfaces between chains.
- B–C · 792 Ų buried · 7 hydrogen bonds · protein-protein
- A–D · 764 Ų buried · 8 hydrogen bonds · protein-protein
- B–D · 539 Ų buried · 0 hydrogen bonds · protein-protein
- A–C · 534 Ų buried · 5 hydrogen bonds · protein-protein
- A–B · 434 Ų buried · 1 hydrogen bond · protein-protein
Modifications
Observed in the structure: 7 modified (engineered).
Compared structures
- 3GXX · Structure of the SH2 domain of the Candida glabrata transcription elongation factor Spt6… · the same entry in another collection · chain C against C, TM-score 1.00
- Q6FLB1 · AlphaFold monomer V2.0 prediction for transcription elongation factor SPT6 (Q6FLB1) · a predicted model of the same protein · chain D against A, TM-score 0.83
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 Q6FLB1
- Elsewhere: RCSB PDB 3GXX · PDBe 3GXX · UniProt Q6FLB1
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