HIF prolyl hydroxylase 2 (PHD2/EGLN1) R396T variant in complex with Mn(II) and N-[(1-chloro-4-hydroxyisoquinolin-3-yl)carbonyl]glycine (IOX3/UN9). Determined by X-ray diffraction at 1.7 Å resolution. Released 31 Aug 2016.
Explore 5LBB in 3D Show helices and sheets RCSB PDB PDBe
5LBB contains 9 α-helices and 18 β-strands across 1 chain. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.
| Element | Residues | Length | Sheet |
|---|---|---|---|
| β-strand | 183-184 | 2 | 1 |
| α-helix | 191-193 | 3 | |
| α-helix | 194-198 | 5 | |
| α-helix | 199-205 | 7 | |
| β-strand | 207-211 | 5 | 1 |
| α-helix | 216-231 | 16 | |
| β-strand | 240-242 | 3 | 2 |
| β-strand | 251-252 | 2 | 2 |
| β-strand | 255-259 | 5 | 1 |
| α-helix | 267-282 | 16 | |
| β-strand | 292-295 | 4 | 1 |
| α-helix | 296-297 | 2 | |
| β-strand | 298-303 | 6 | 1 |
| β-strand | 310-313 | 4 | 3 |
| β-strand | 322-329 | 8 | 1 |
| β-strand | 331 | 1 | 4 |
| α-helix | 336-339 | 4 | |
| β-strand | 340 | 1 | 5 |
| β-strand | 343-345 | 3 | 3 |
| β-strand | 354-356 | 3 | 3 |
| β-strand | 359 | 1 | 4 |
| β-strand | 363-367 | 5 | 1 |
| β-strand | 374-376 | 3 | 3 |
| α-helix | 377-378 | 2 | |
| β-strand | 379 | 1 | 5 |
| β-strand | 383-392 | 10 | 1 |
| α-helix | 393-402 | 10 |
| Molecule | Chains | Type | Length | Organism | UniProt |
|---|---|---|---|---|---|
| Egl nine homolog 1 | A | protein | 252 | Homo sapiens | Q9GZT9 (AlphaFold model) |
>5LBB_1 Egl nine homolog 1 (chains A) GSHMASPNGQTKPLPALKLALEYIVPCMNKHGICVVDDFLGKETGQQIGDEVRALHDTGK FTDGQLVSQKSDSSKDIRGDKITWIEGKEPGCETIGLLMSSMDDLIRHCNGKLGSYKING RTKAMVACYPGNGTGYVRHVDNPNGDGRCVTCIYYLNKDWDAKVSGGILRIFPEGKAQFA DIEPKFDRLLFFWSDRRNPHEVQPAYATRYAITVWYFDADETARAKVKYLTGEKGVRVEL NKPSDSVGKDVF
| ID | Name | Formula | Copies |
|---|---|---|---|
| BCT | Bicarbonate ion | C H O3 | 1 |
| UN9 | N-[(1-chloro-4-hydroxyisoquinolin-3-yl)carbonyl]glycine | C12 H9 Cl N2 O4 | 1 |
| MN | Manganese (II) ion | Mn | 1 |
Structural basis for oxygen degradation domain selectivity of the HIF prolyl hydroxylases. Chowdhury, R., Leung, I.K., Tian, Y.M. et al. Nat Commun (2016) 7:12673-12673. DOI 10.1038/ncomms12673 · PubMed
Other PDB entries of the same protein (UniProt Q9GZT9 (AlphaFold model), which also has an AlphaFold model), best resolution first:
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