MolNFT v1 · #128709 · protein
Anbu (ancestral beta-subunit) from yersinia bercovieri
5NYW: “Anbu (ancestral beta-subunit) from yersinia bercovieri”. X-ray diffraction, 4 ligands (SO4, CL, UNK). MolNFT v1 #128709 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5NYW
- Type
- protein
- Length
- 6,523 residues
- Chains
- 28
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- UniProt
- A0A0T9RXH3
- Ligands
- SO4, CL, UNK, AZI
Structure
x-ray diffraction · 15 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | — | protein | 225 | — | A0A0T9RXH3 |
| B, M | — | protein | 233 | — | A0A0T9RXH3 |
| C, X, Z | — | protein | 236 | — | A0A0T9RXH3 |
| D, F, G | — | protein | 234 | — | A0A0T9RXH3 |
| E, K, W | — | protein | 233 | — | A0A0T9RXH3 |
| H, P, V | — | protein | 234 | — | A0A0T9RXH3 |
| I, Y | — | protein | 233 | — | A0A0T9RXH3 |
| J, S, T, U | — | protein | 235 | — | A0A0T9RXH3 |
| L | — | protein | 237 | — | A0A0T9RXH3 |
| N | — | protein | 226 | — | A0A0T9RXH3 |
| O | — | protein | 225 | — | A0A0T9RXH3 |
| Q | — | protein | 237 | — | A0A0T9RXH3 |
| R | — | protein | 236 | — | A0A0T9RXH3 |
| 1 | — | protein | 234 | — | A0A0T9RXH3 |
| 2 | — | protein | 220 | — | A0A0T9RXH3 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 17 copies · chains A, N, B, D, E, L, P, R, V, W, Y, X, Z, 1, O, 2
- CL · Chloride ion · ion · 17 copies · chains C, D, G, K, I, L, M, P, Q, R, S, T, U, W, Z, 1
- UNK · Unknown · ion · 4 copies · chains G, I, Q, U
- AZI · Azide ion · ion · chains H, J
- EDO · 1,2-ethanediol · additive · 6 copies · chains C, E, D, F, H, K, M, L, O, Q
- PEG · Di(hydroxyethyl)ether · additive · 2 copies · chains L, N, R, T
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 5NYW · Anbu (ancestral beta-subunit) from Yersinia bercovieri · the same entry in another collection · chain B against B, 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 A0A0T9RXH3
- Elsewhere: RCSB PDB 5NYW · PDBe 5NYW · UniProt A0A0T9RXH3
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