MolNFT v1 · #162589 · protein
Cryo-EM structure of polytomella F-ATP synthase, rotary substate 1B, focussed refinement of F1 head and rotor
6RDM: “Cryo-EM structure of polytomella F-ATP synthase, rotary substate 1B, focussed refinement of F1 head and rotor”. Electron microscopy, 3 ligands (ATP, ADP, MG). MolNFT v1 #162589 on GenesisL1: 3D structure, binding sites and pockets…
- PDB
- 6RDM
- Type
- protein
- Length
- 4,502 residues
- Chains
- 20
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- UniProt
- D7P7X5, D8V7I1, D7P7X6, Q4LDE7, A0ZW40, A0ZW41
- Ligands
- ATP, ADP, MG
Structure
electron microscopy · 11 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, G, H, I, J | — | protein | 74 | — | D7P7X5 |
| P | — | protein | 114 | — | D8V7I1 |
| Q | — | protein | 72 | — | — |
| R | — | protein | 177 | — | D7P7X6 |
| S | — | protein | 277 | — | Q4LDE7 |
| T | — | protein | 478 | — | A0ZW40 |
| U | — | protein | 523 | — | A0ZW40 |
| V | — | protein | 520 | — | A0ZW40 |
| X | — | protein | 542 | — | A0ZW41 |
| Y | — | protein | 521 | — | A0ZW41 |
| Z | — | protein | 538 | — | A0ZW41 |
Ligands and binding sites
- ATP · Adenosine-5'-triphosphate · ligand · 3 copies · chains T, X, U, Z, V, Y
- ADP · Adenosine-5'-diphosphate · ligand · 2 copies · chains U, X, T, Y
- MG · Magnesium ion · metal · 5 copies · chains T, U, V, X, Y
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 6RDM · Cryo-EM structure of Polytomella F-ATP synthase, Rotary substate 1B, focussed refinement… · the same entry in another collection · chain A against A, 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 D7P7X5
- Every structure of UniProt D8V7I1
- Every structure of UniProt D7P7X6
- Every structure of UniProt Q4LDE7
- Every structure of UniProt A0ZW40
- Every structure of UniProt A0ZW41
- Elsewhere: RCSB PDB 6RDM · PDBe 6RDM · UniProt D7P7X5 · UniProt D8V7I1 · UniProt D7P7X6 · UniProt Q4LDE7 · UniProt A0ZW40 · UniProt A0ZW41
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