Research workbench
Structure of HI0074 from heamophilus influenzae reveals the fold of a substrate binding domain of a nucleotidyltransferase
Analyse Structure of HI0074 from heamophilus influenzae reveals the fold of a substrate… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1JOG
- Type
- protein
- Length
- 541 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Hypothetical protein HI0074
- UniProt
- P43934
- Pockets
- 5 · best druggability 0.45
Structure
x-ray diffraction · 2 distinct chains · 77% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C | Hypothetical protein HI0074 | protein | 135 | 78% helix, 0% strand | P43934 |
| D | Hypothetical protein HI0074 | protein | 136 | 77% helix, 0% strand | P43934 |
Pockets
5 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 121 | 0.45 | 0.78 | 25 | empty |
| 2 | 83 | 0.45 | 0.81 | 21 | empty |
| 3 | 198 | 0.45 | 0.73 | 22 | empty |
| 4 | 75 | 0.42 | 0.80 | 15 | empty |
| 5 | 101 | 0.35 | 0.74 | 12 | empty |
Interfaces
6 interfaces between chains.
- A–B · 1117 Ų buried · 8 hydrogen bonds · protein-protein
- C–D · 1075 Ų buried · 11 hydrogen bonds · protein-protein
- B–C · 192 Ų buried · 2 hydrogen bonds · protein-protein
- A–D · 178 Ų buried · 1 hydrogen bond · protein-protein
- A–C · 161 Ų buried · 1 hydrogen bond · protein-protein
Modifications
Observed in the structure: 24 modified (engineered).
Compared structures
- 1JOG · Structure of HI0074 from Heamophilus Influenzae reveals the fold of a substrate binding… · the same entry in another collection · chain A against A, TM-score 1.00
- P43934 · AlphaFold monomer V2.0 prediction for probable ribonuclease hept (P43934) · a predicted model of the same protein · chain D against A, TM-score 0.97
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 P43934
- Elsewhere: RCSB PDB 1JOG · PDBe 1JOG · UniProt P43934
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