Structure of Photosynthetic Reaction Center From Rhodobacter Sphaeroides strain RV by fixed-target serial synchrotron crystallography (room temperature, 26keV). Determined by X-ray diffraction at 2.14 Å resolution. Released 29 Mar 2023.
Explore 7Z8D in 3D Show helices and sheets RCSB PDB PDBe
7Z8D contains 55 α-helices and 32 β-strands across 3 chains. 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 |
|---|---|---|---|
| α-helix | 12-34 | 23 | |
| α-helix | 40 | 1 | |
| α-helix | 42 | 1 | |
| β-strand | 43 | 1 | 1 |
| β-strand | 49 | 1 | 1 |
| α-helix | 50 | 1 | |
| α-helix | 57-61 | 5 | |
| β-strand | 62-65 | 4 | 2 |
| α-helix | 67-69 | 3 | |
| β-strand | 72-75 | 4 | 2 |
| β-strand | 87-89 | 3 | 3 |
| α-helix | 97 | 1 | |
| β-strand | 98-100 | 3 | 3 |
| α-helix | 104-107 | 4 | |
| α-helix | 110-112 | 3 | |
| β-strand | 123 | 1 | 4 |
| β-strand | 129 | 1 | 4 |
| β-strand | 131-133 | 3 | 5 |
| α-helix | 134-136 | 3 | |
| β-strand | 141-144 | 4 | 6 |
| α-helix | 151 | 1 | |
| β-strand | 152-154 | 3 | 5 |
| β-strand | 160-170 | 11 | 5 |
| β-strand | 175-183 | 9 | 5 |
| β-strand | 188-192 | 5 | 5 |
| α-helix | 193-195 | 3 | |
| β-strand | 197-198 | 2 | 5 |
| β-strand | 203-204 | 2 | 5 |
| α-helix | 210-212 | 3 | |
| α-helix | 217-219 | 3 | |
| β-strand | 221 | 1 | 7 |
| β-strand | 224 | 1 | 7 |
| α-helix | 227-243 | 17 | |
| α-helix | 245-247 | 3 |
| Element | Residues | Length | Sheet |
|---|---|---|---|
| β-strand | 2 | 1 | 1 |
| α-helix | 7-9 | 3 | |
| β-strand | 25-26 | 2 | 8 |
| β-strand | 29-30 | 2 | 8 |
| α-helix | 32-56 | 25 | |
| β-strand | 66 | 1 | 9 |
| α-helix | 67-70 | 4 | |
| α-helix | 71-73 | 3 | |
| α-helix | 80-82 | 3 | |
| α-helix | 84-111 | 28 | |
| α-helix | 116-129 | 14 | |
| α-helix | 130-134 | 5 | |
| α-helix | 135-139 | 5 | |
| α-helix | 142-144 | 3 | |
| α-helix | 146-147 | 2 | |
| β-strand | 148 | 1 | 9 |
| α-helix | 152-163 | 12 | |
| α-helix | 167-169 | 3 | |
| α-helix | 171-198 | 28 | |
| α-helix | 209-220 | 12 | |
| α-helix | 226-249 | 24 | |
| β-strand | 251 | 1 | 10 |
| β-strand | 255 | 1 | 10 |
| α-helix | 259-263 | 5 | |
| α-helix | 264-267 | 4 | |
| α-helix | 270-273 | 4 |
| Element | Residues | Length | Sheet |
|---|---|---|---|
| β-strand | 11-13 | 3 | 6 |
| α-helix | 26-28 | 3 | |
| β-strand | 29 | 1 | 11 |
| α-helix | 37-40 | 4 | |
| β-strand | 51 | 1 | 11 |
| α-helix | 53-77 | 25 | |
| α-helix | 82-87 | 6 | |
| β-strand | 94 | 1 | 12 |
| α-helix | 95-98 | 4 | |
| α-helix | 99-101 | 3 | |
| α-helix | 109-111 | 3 | |
| α-helix | 113-139 | 27 | |
| α-helix | 145-158 | 14 | |
| α-helix | 159-163 | 5 | |
| α-helix | 164-168 | 5 | |
| α-helix | 171-173 | 3 | |
| β-strand | 177 | 1 | 12 |
| α-helix | 179-192 | 14 | |
| α-helix | 196-198 | 3 | |
| α-helix | 200-225 | 26 | |
| α-helix | 227-229 | 3 | |
| α-helix | 234-239 | 6 | |
| α-helix | 243-256 | 14 | |
| α-helix | 262-285 | 24 | |
| β-strand | 287 | 1 | 13 |
| β-strand | 291 | 1 | 13 |
| α-helix | 294-299 | 6 |
| Molecule | Chains | Type | Length | Organism | UniProt |
|---|---|---|---|---|---|
| Reaction center protein H chain | H | protein | 242 | Cereibacter sphaeroides 2.4.1 | P0C0Y7 (AlphaFold model) |
| Reaction center protein L chain | L | protein | 281 | Cereibacter sphaeroides 2.4.1 | P0C0Y8 (AlphaFold model) |
| Reaction center protein M chain | M | protein | 302 | Cereibacter sphaeroides 2.4.1 | P0C0Y9 (AlphaFold model) |
>7Z8D_1 Reaction center protein H chain (chains H) NFDLASLAIYSFWIFLAGLIYYLQTENMREGYPLENEDGTPAANQGPFPLPKPKTFILPH GRGTLTVPGPESEDRPIALARTAVSEGFPHAPTGDPMKDGVGPASWVARRDLPELDGHGH NKIKPMKAAAGFHVSAGKNPIGLPVRGCDLEIAGKVVDIWVDIPEQMARFLEVELKDGST RLLPMQMVKVQSNRVHVNALSSDLFAGIPTIKSPTEVTLLEEDKICGYVAGGLMYAAPKR KS
>7Z8D_2 Reaction center protein L chain (chains L) ALLSFERKYRVPGGTLVGGNLFDFWVGPFYVGFFGVATFFFAALGIILIAWSAVLQGTWN PQLISVYPPALEYGLGGAPLAKGGLWQIITICATGAFVSWALREVEICRKLGIGYHIPFA FAFAILAYLTLVLFRPVMMGAWGYAFPYGIWTHLDWVSNTGYTYGNFHYNPAHMIAITFF FTNALALALHGALVLSAANPEKGKEMRTPDHEDTFFRDLVGYSIGTLGIHRLGLLLSLSA VFFSALCMIITGTIWFDQWVDWWQWWVKLPWWANIPGGING
>7Z8D_3 Reaction center protein M chain (chains M) AEYQNIFTQVQVRGPADLGMTEDVNLANRSGVGPFSTLLGWFGNAQLGPIYLGSLGVLSL FSGLMWFFTIGIWFWYQAGWNPAVFLRDLFFFSLEPPAPEYGLSFAAPLKEGGLWLIASF FMFVAVWSWWGRTYLRAQALGMGKHTAWAFLSAIWLWMVLGFIRPILMGSWSEAVPYGIF SHLDWTNNFSLVHGNLFYNPFHGLSIAFLYGSALLFAMHGATILAVSRFGGERELEQIAD RGTAAERAALFWRWTMGFNATMEGIHRWAIWMAVLVTLTGGIGILLSGTVVDNWYVWGQN HG
| ID | Name | Formula | Copies |
|---|---|---|---|
| OLC | (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate | C21 H40 O4 | 1 |
| MYS | Pentadecane | C15 H32 | 1 |
| D12 | Dodecane | C12 H26 | 2 |
| BPH | Bacteriopheophytin a | C55 H76 N4 O6 | 2 |
| BCL | Bacteriochlorophyll a | C55 H74 Mg N4 O6 | 4 |
| LDA | Lauryl dimethylamine-N-oxide | C14 H31 N O | 5 |
| PO4 | Phosphate ion | O4 P | 1 |
| SPN | Speroidenone | C41 H70 O2 | 1 |
| FE | FE (III) ion | Fe | 1 |
| U10 | Ubiquinone-10 | C59 H90 O4 | 1 |
| NKP | (2R)-2-hydroxy-3-(phosphonooxy)propyl (9E)-octadec-9-enoate | C21 H41 O7 P | 2 |
Water and common crystallization additives (EDO) are not listed.
Structure of Photosynthetic Reaction Center From Rhodobacter Sphaeroides strain RV by fixed-target serial synchrotron crystallography (room temperature, 26keV). Gabdulkhakov, A.G., Selikhanov, G.K., Guenther, S. et al. To be published.
Other PDB entries of the same protein (UniProt P0C0Y7 (AlphaFold model), which also has an AlphaFold model), best resolution first:
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