MolNFT v1 · #155441 · protein
Cryo-EM structure of cyanobacteria fd-ndh-1L complex
6L7O: “Cryo-EM structure of cyanobacteria fd-ndh-1L complex”. Electron microscopy, 8 ligands (AJP, LHG, SQD). MolNFT v1 #155441 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6L7O
- Type
- protein
- Length
- 4,120 residues
- Chains
- 20
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- UniProt
- Q8DL32, Q8DMR6, Q8DJ02, Q8DKY0, Q8DL29, Q8DKX9, Q8DL30, Q8DJD9, Q8DL31, Q8DJ01, Q8DKZ4, Q8DKZ3, Q8DLN5, Q8DJU2, Q8DMU4, P0A3C9, Q8DL61, Q8DLL4
- Ligands
- AJP, LHG, SQD, BCR, SF4, DGD, PQN, FES
Structure
electron microscopy · 20 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | — | protein | 371 | — | Q8DL32 |
| B | — | protein | 493 | — | Q8DMR6 |
| C | — | protein | 121 | — | Q8DJ02 |
| D | — | protein | 504 | — | Q8DKY0 |
| E | — | protein | 101 | — | Q8DL29 |
| F | — | protein | 647 | — | Q8DKX9 |
| G | — | protein | 192 | — | Q8DL30 |
| H | — | protein | 393 | — | Q8DJD9 |
| I | — | protein | 190 | — | Q8DL31 |
| J | — | protein | 156 | — | Q8DJ01 |
| K | — | protein | 206 | — | Q8DKZ4 |
| L | — | protein | 73 | — | Q8DKZ3 |
| M | — | protein | 110 | — | Q8DLN5 |
| N | — | protein | 148 | — | Q8DJU2 |
| O | — | protein | 68 | — | Q8DMU4 |
| P | — | protein | 41 | — | — |
| Q | — | protein | 44 | — | — |
| R | — | protein | 97 | — | P0A3C9 |
| S | — | protein | 62 | — | Q8DL61 |
| V | — | protein | 103 | — | Q8DLL4 |
Ligands and binding sites
- AJP · Digitonin · ligand · 60 copies · chains A, B, D, C, F, I, P, Q, E, G
- LHG · 1,2-dipalmitoyl-phosphatidyl-glycerole · ligand · 9 copies · chains A, C, G, B, D, F, P, H, I
- SQD · 1,2-di-O-acyl-3-O-[6-deoxy-6-sulfo-alpha-D-glucopyranosyl]-sn-glycerol · ligand · 4 copies · chains B, D, F, Q, A, K, L, N
- BCR · Beta-carotene · ligand · 3 copies · chains A, I, L, D, F, Q, P
- SF4 · Iron/sulfur cluster · ligand · 3 copies · chains I, H, K
- DGD · Digalactosyl diacyl glycerol (dgdg) · ligand · 2 copies · chains A, C, L
- PQN · Phylloquinone · ligand · chains B
- FES · Fe2/s2 (inorganic) cluster · ligand · chains R
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- P0A3C9 · AlphaFold monomer V2.0 prediction for ferredoxin-1 (P0A3C9) · a predicted model of the same protein · chain R against A, TM-score 0.99
- Q8DKY0 · AlphaFold monomer V2.0 prediction for NAD(P)H-quinone oxidoreductase chain 4 1 (Q8DKY0) · a predicted model of the same protein · chain D against A, TM-score 0.98
- Q8DMR6 · AlphaFold monomer V2.0 prediction for NAD(P)H-quinone oxidoreductase subunit 2 (Q8DMR6) · a predicted model of the same protein · chain B against A, TM-score 0.98
- Q8DJU2 · AlphaFold monomer V2.0 prediction for NAD(P)H-quinone oxidoreductase subunit N (Q8DJU2) · a predicted model of the same protein · chain N against A, TM-score 0.92
- Q8DLN5 · AlphaFold monomer V2.0 prediction for NAD(P)H-quinone oxidoreductase subunit M (Q8DLN5) · a predicted model of the same protein · chain M against A, TM-score 0.90
- Q8DJ01 · AlphaFold monomer V2.0 prediction for NAD(P)H-quinone oxidoreductase subunit J (Q8DJ01) · a predicted model of the same protein · chain J against A, TM-score 0.90
- Q8DMU4 · AlphaFold monomer V2.0 prediction for NAD(P)H-quinone oxidoreductase subunit O (Q8DMU4) · a predicted model of the same protein · chain O against A, TM-score 0.86
- Q8DKZ3 · AlphaFold monomer V2.0 prediction for NAD(P)H-quinone oxidoreductase subunit L (Q8DKZ3) · a predicted model of the same protein · chain L against A, TM-score 0.81
- Q8DL31 · AlphaFold monomer V2.0 prediction for NAD(P)H-quinone oxidoreductase subunit I (Q8DL31) · a predicted model of the same protein · chain I against A, TM-score 0.80
- Q8DKZ4 · AlphaFold monomer V2.0 prediction for NAD(P)H-quinone oxidoreductase subunit K (Q8DKZ4) · a predicted model of the same protein · chain K against A, TM-score 0.73
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 Q8DL32
- Every structure of UniProt Q8DMR6
- Every structure of UniProt Q8DJ02
- Every structure of UniProt Q8DKY0
- Every structure of UniProt Q8DL29
- Every structure of UniProt Q8DKX9
- Every structure of UniProt Q8DL30
- Every structure of UniProt Q8DJD9
- Every structure of UniProt Q8DL31
- Every structure of UniProt Q8DJ01
- Every structure of UniProt Q8DKZ4
- Every structure of UniProt Q8DKZ3
- Every structure of UniProt Q8DLN5
- Every structure of UniProt Q8DJU2
- Every structure of UniProt Q8DMU4
- Every structure of UniProt P0A3C9
- Every structure of UniProt Q8DL61
- Every structure of UniProt Q8DLL4
- Elsewhere: RCSB PDB 6L7O · PDBe 6L7O · UniProt Q8DL32 · UniProt Q8DMR6 · UniProt Q8DJ02 · UniProt Q8DKY0 · UniProt Q8DL29 · UniProt Q8DKX9 · UniProt Q8DL30 · UniProt Q8DJD9 · UniProt Q8DL31 · UniProt Q8DJ01 · UniProt Q8DKZ4 · UniProt Q8DKZ3 · UniProt Q8DLN5 · UniProt Q8DJU2 · UniProt Q8DMU4 · UniProt P0A3C9 · UniProt Q8DL61 · UniProt Q8DLL4
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