Research workbench
Dimeric photosystem I of a temperature sensitive mutant chlamydomonas reinhardtii
Analyse Dimeric photosystem I of a temperature sensitive mutant chlamydomonas… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7O01
- Type
- protein
- Length
- 8,359 residues
- Chains
- 40
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Photosystem I P700 chlorophyll a apoprotein A1; Photosystem I P700 chlorophyll a…
- EC
- 1.97.1.12
- UniProt
- P12154, P09144, Q00914, Q39615, P12352, P12356, P14224, A8IFG7, P59777, P14225, A8IL32, Q7DM26, Q75VY9, Q84Y02, Q75VY7, Q75VZ0, Q75VY8, Q75VY6, A8IKC8, Q8S567
- Pockets
- 20 · best druggability 0.82
Structure
electron microscopy · 20 distinct chains · 54% helix, 5% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, a | Photosystem I P700 chlorophyll a apoprotein A1 (EC 1.97.1.12) | protein | 741 | 62% helix, 5% strand | P12154 |
| B, b | Photosystem I P700 chlorophyll a apoprotein A2 (EC 1.97.1.12) | protein | 733 | 60% helix, 3% strand | P09144 |
| C, c | Photosystem I iron-sulfur center (EC 1.97.1.12) | protein | 80 | 16% helix, 20% strand | Q00914 |
| D, d | Photosystem I reaction center subunit II, chloroplastic | protein | 144 | 19% helix, 24% strand | Q39615 |
| E, e | Photosystem I reaction center subunit IV, chloroplastic | protein | 63 | 0% helix, 37% strand | P12352 |
| F, f | Photosystem I reaction center subunit III, chloroplastic | protein | 165 | 64% helix, 5% strand | P12356 |
| G, g | Photosystem I reaction center subunit V, chloroplastic | protein | 74 | 68% helix, 0% strand | P14224 |
| I, i | Photosystem I reaction center subunit VIII | protein | 37 | 68% helix, 3% strand | A8IFG7 |
| J, j | Photosystem I reaction center subunit IX | protein | 39 | 74% helix, 3% strand | P59777 |
| K, k | Photosystem I reaction center subunit psak, chloroplastic | protein | 84 | 50% helix, 8% strand | P14225 |
| L, l | Psi subunit V | protein | 126 | 72% helix, 0% strand | A8IL32 |
| 1, Z, p, z | Chlorophyll a-B binding protein, chloroplastic | protein | 194 | 51% helix, 2% strand | Q7DM26 |
| 3, q | Chlorophyll a-B binding protein, chloroplastic | protein | 219 | 52% helix, 1% strand | Q75VY9 |
| 7, r | Chlorophyll a-B binding protein, chloroplastic | protein | 213 | 53% helix, 1% strand | Q84Y02 |
| 8, s | Chlorophyll a-B binding protein, chloroplastic | protein | 217 | 54% helix, 0% strand | Q75VY7 |
| 4, t | Chlorophyll a-B binding protein, chloroplastic | protein | 210 | 50% helix, 2% strand | Q75VZ0 |
| 5, u | Chlorophyll a-B binding protein, chloroplastic | protein | 227 | 46% helix, 5% strand | Q75VY8 |
| 6, v | Chlorophyll a-B binding protein, chloroplastic | protein | 229 | 46% helix, 6% strand | Q75VY6 |
| 2 | Chlorophyll a-B binding protein, chloroplastic | protein | 198 | 58% helix, 1% strand | A8IKC8 |
| 9 | Chlorophyll a-B binding protein, chloroplastic | protein | 183 | 56% helix, 1% strand | Q8S567 |
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1050 | 0.82 | 0.83 | 82 | empty |
| 2 | 1005 | 0.81 | 0.82 | 86 | empty |
| 3 | 361 | 0.77 | 0.86 | 39 | empty |
| 4 | 344 | 0.75 | 0.85 | 39 | empty |
| 5 | 815 | 0.73 | 0.78 | 100 | empty |
Interfaces
88 interfaces between chains.
- a–b · 3529 Ų buried · 44 hydrogen bonds · protein-protein
- A–B · 3505 Ų buried · 44 hydrogen bonds · protein-protein
- c–d · 1626 Ų buried · 24 hydrogen bonds · protein-protein
- C–D · 1609 Ų buried · 24 hydrogen bonds · protein-protein
- B–F · 1131 Ų buried · 17 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 disulfide, 2 modified (disulfide, nonstandard).
Compared structures
- 7O01 · Dimeric Photosystem I of a temperature sensitive mutant Chlamydomonas reinhardtii · the same entry in another collection · chain 8 against 8, 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 P12154
- Every structure of UniProt P09144
- Every structure of UniProt Q00914
- Every structure of UniProt Q39615
- Every structure of UniProt P12352
- Every structure of UniProt P12356
- Every structure of UniProt P14224
- Every structure of UniProt A8IFG7
- Every structure of UniProt P59777
- Every structure of UniProt P14225
- Every structure of UniProt A8IL32
- Every structure of UniProt Q7DM26
- Every structure of UniProt Q75VY9
- Every structure of UniProt Q84Y02
- Every structure of UniProt Q75VY7
- Every structure of UniProt Q75VZ0
- Every structure of UniProt Q75VY8
- Every structure of UniProt Q75VY6
- Every structure of UniProt A8IKC8
- Every structure of UniProt Q8S567
- Elsewhere: RCSB PDB 7O01 · PDBe 7O01 · UniProt P12154 · UniProt P09144 · UniProt Q00914 · UniProt Q39615 · UniProt P12352 · UniProt P12356 · UniProt P14224 · UniProt A8IFG7 · UniProt P59777 · UniProt P14225 · UniProt A8IL32 · UniProt Q7DM26 · UniProt Q75VY9 · UniProt Q84Y02 · UniProt Q75VY7 · UniProt Q75VZ0 · UniProt Q75VY8 · UniProt Q75VY6 · UniProt A8IKC8 · UniProt Q8S567
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