MolNFT v1 · #140906 · protein
Cryo-EM structure of the rc-lh core complex from roseiflexus castenholzii
5YQ7: “Cryo-EM structure of the rc-lh core complex from roseiflexus castenholzii”. Electron microscopy, 6 ligands (BCL, KGD, HEM). MolNFT v1 #140906 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5YQ7
- Type
- protein
- Length
- 2,155 residues
- Chains
- 35
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- UniProt
- Q83XD2, Q83XD0, Q83XC9, Q83XD1
- Ligands
- BCL, KGD, HEM, BPH, MQE, FE
Structure
electron microscopy · 7 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| E, B, 0, 8, 6, 4, 2, K, I, G, W, U, S, Q, O | — | protein | 44 | — | Q83XD2 |
| L | — | protein | 309 | — | Q83XD0 |
| C | — | protein | 293 | — | Q83XC9 |
| T, V, R, P, N, J, H, F, D, A, 9, 7, 5, 3, 1 | — | protein | 36 | — | Q83XD1 |
| Y | — | protein | 25 | — | — |
| X | — | protein | 23 | — | — |
| M | — | protein | 305 | — | Q83XD0 |
Ligands and binding sites
- BCL · Bacteriochlorophyll A · ligand · 48 copies · chains E, D, B, A, 0, 9, 8, L, M, 7, 6, 5, 4, 3, 2, C, 1, K, J, I, H, G, F, W, T, V, X, U, S, R, Q, P, O, N
- KGD · beta,psi-caroten-4-one · ligand · 14 copies · chains W, T, V, U, R, S, P, Q, N, O, J, K, H, I, F, G, D, E, A, B, 9, 0, 7, 8, 5, 6, 3, 4, 1
- HEM · Protoporphyrin IX containing Fe · ligand · 4 copies · chains C, L, M
- BPH · Bacteriopheophytin A · ligand · 3 copies · chains L, M
- MQE · 2-methyl-3-[(2E,6E,10E,14E,18E,22E,26E,30E,34E,38E)-3, 7,11,15,19,23,27,31,35,39,43-undecamethyltetratetraconta-2,6,10,14,18,22,26,30,34, 38,42-undecaen-1-yl]naphthalene-1,4-dione · ligand · 2 copies · chains L, Y, P, M
- FE · Fe (III) ion · metal · chains L, M
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 5YQ7 · Cryo-EM structure of the RC-LH core complex from Roseiflexus castenholzii · the same entry in another collection · chain E against E, 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 Q83XD2
- Every structure of UniProt Q83XD0
- Every structure of UniProt Q83XC9
- Every structure of UniProt Q83XD1
- Elsewhere: RCSB PDB 5YQ7 · PDBe 5YQ7 · UniProt Q83XD2 · UniProt Q83XD0 · UniProt Q83XC9 · UniProt Q83XD1
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