Table 1.
Cytochrome bc1/b6f structures in the protein data bank (PDB).
| PDB1 | Organism2 | QP Site occupant |
Inhibitor Type |
QN Site occupant |
Resolution3 [Å] |
R (Free)4 |
No. Subunits: Found/In vivo |
Reference |
|---|---|---|---|---|---|---|---|---|
| 1SQB | B.T. | Azoxystrobin | Pm | - | 2.69 | 0.288 | 11 / 11 | Xia [112] |
| 3L71 | G.G. | Azoxystrobin | Pm | Coenzyme Q10 | 2.84 | 0.281 | 10 / 11 | Berry TBP5 |
| 3L70 | G.G. | Trifloxystrobin | Pm | Coenzyme Q10 | 2.75 | 0.297 | 10 / 11 | Berry TBP |
| 1SQP | B.T. | Myxothiazol | Pm | - | 2.7 | 0.314 | 11 / 11 | Xia [112] |
| 1SQQ | B.T. | MOA Stilbene | Pm | Ubiquinone 2 | 3.0 | 0.295 | 11 / 11 | Xia [112] |
| 3L72 | G.G. | Iodo-Kresoxim-dimethyl | Pm | Coenzyme Q10 | 3.06 | 0.294 | 10 / 11 | Berry TBP |
| 3H1K | G.G. | Iodo-Kresoxim-dimethyl | Pm | Coenzyme Q10 | 3.48 | 0.284 | 10 / 11 | Berry [113] |
| 3TGU | G.G. | WF3 | Pm | Coenzyme Q10 | 2.70 | 0.289 | Berry[47] | |
| 3L73 | G.G. | Triazolone | Pm | Coenzyme Q10 | 3.04 | 0.293 | 10 / 11 | Berry TBP |
| 1L0L | B.T. | Famoxadone | Pf | - | 2.35 | 0.306 | 11 / 11 | Xia [88] |
| 3L74 | G.G. | Famoxadone | Pf | Coenzyme Q10 | 2.76 | 0.286 | 10 / 11 | Berry TBP |
| 2FYU | B.T. | JG144 | Pf | - | 2.26 | 0.283 | 11 / 11 | Xia [27] |
| 3L75 | G.G. | Fenamidone | Pf | Coenzyme Q10 | 2.79 | 0.275 | 10 / 11 | Berry TBP |
| 3H1L | G.G. | Ascochlorin | Pf, PN | Ascochlorin | 3.21 | 0.295 | 10 / 11 | Berry [93] |
| 3CWB | G.G. | Iodo-Crocacin-D | Pf | Coenzyme Q10 | 3.51 | 0.319 | 10 / 11 | Berry [114] |
| 1NU1 | B.T. | NQNO | Pf, PN | NQNO | 3.2 | 0.296 | 11 / 11 | Xia [88] |
| 2E75 | M.L. | - | / | NQNO | 3.55 | 0.267 | 8 / | Cramer [36] |
| 1SQV | B.T. | UHDBT | Pf | Ubiquinone 2 | 2.85 | 0.285 | 11 / 11 | Xia [112] |
| 1P84 | S.C. | HDBT | Pf | Ubiquinone 6 | 2.5 | 0.252 | Hunte [43] | |
| 1SQX | B.T. | Stigmatellin | Pf | Ubiquinone 2 | 2.6 | 0.281 | 11 / 11 | Xia [112] |
| 2A06 | B.T. | Stigmatellin | Pf | Coenzyme Q10 | 2.1 | 0.258 | 10 / 11 | Berry [89] |
| 1PP9 | B.T. | Stigmatellin | Pf | Coenzyme Q10 | 2.1 | 0.287 | 10 / 11 | Berry [89] |
| 1PPJ | B.T. | Stigmatellin | Pf | Antimycin | 2.1 | 0.26 | 10 / 11 | Berry [89] |
| 2BCC | G.G. | Stigmatellin | Pf | Coenzyme Q10 | 3.5 | 0.317 | 10 / 11 | Berry [89] |
| 3BCC | G.G. | Stigmatellin | Pf | Antimycin | 3.7 | 0.321 | 10 / 11 | Berry [25] |
| 3H1I | G.G. | Stigmatellin | Pf | Antimycin | 3.53 | 0.306 | 10 / 11 | Berry [93] |
| 3H1J | G.G. | Stigmatellin | Pf | Coenzyme Q10 | 3.0 | 0.277 | 10 / 11 | Berry [25] |
| 1EZV | S.C. | Stigmatellin | Pf | Coenzyme Q6 | 2.3 | 0.254 | 9 / 10? | Hunte [115] |
| 1KB9 | S.C. | Stigmatellin | Pf | Coenzyme Q6 | 2.3 | 0.249 | 9 / 10? | Hunte [116] |
| 1KYO | S.C. | Stigmatellin | Pf | - | 2.97 | 0.268 | 9 / 10? | Hunte [117] |
| 3CX5 | S.C. | Stigmatellin | Pf | - | 1.9 | 0.263 | 9 / 10? | Hunte [118] |
| 2IBZ | S.C. | Stigmatellin | Pf | Ubiquinone Q6 | 2.3 | 0.256 | 9 / 10? | Hunte [92] |
| 3CXH | S.C. | Stigmatellin | Pf | - | 2.5 | 0.256 | 9 / 10? | Hunte [118] |
| 1ZRT | R.C. | Stigmatellin | Pf | - | 3.5 | 0.358 | 3 / 3 | Berry [119] |
| 2FYN | R.S. | Stigmatellin | Pf | - | 3.2 | 0.254 | 3 / 4 | Xia [27] |
| 2QJP | R.S. | Stigmatellin | Pf | Antimycin | 2.6 | 0.277 | 3 / 4 | Xia [90] |
| 2QJK | R.S. | Stigmatellin | Pf | Antimycin | 3.1 | 0.266 | 3 / 4 | Xia [90] |
| 2QJY | R.S. | Stigmatellin | Pf | Ubiquinone 2 | 2.4 | 0.251 | 3 / 4 | Xia [90] |
| 2YIU | P.C. | Stigmatellin | Pf | - | 2.7 | 0.29 | 3 / 3 | Carola Hunte |
| 1Q90 | C.R. | Tridecyl Stigmatellin | Pf | - | 3.1 | 0.261 | 9 / 9 | Picot [82] |
| 1VF5 | M.L. | Tridecyl Stigmatellin | Pf | Plastoquinone | 3.0 | 0.346 | 8 / 8 | Cramer [81] |
| 2E76 | M.L. | Tridecyl Stigmatellin | Pf | Tridecyl Stigmatellin | 3.41 | 0.256 | 8 / 8 | Cramer [36] |
| 2YBB | TH.TH. | Stigmatellin | Pf | Ubiquinone Q1 | 19.0 | N/A | - | Kühlbrandt [120] |
| 1QCR | B.T. | - | - | - | 2.7 | 0.375 | 11 / 11 | Xia [84] |
| 1BE3 | B.T. | - | - | - | 3.0 | 0.32 | 11 / 11 | Iwata [121] |
| 1BGY | B.T. | - | - | - | 3.0 | 0.36 | 11 /11 | Iwata [121] |
| 1L0N | B.T. | - | - | - | 2.6 | 0.297 | 11 / 11 | Xia [51] |
| 1NTM | B.T. | - | - | - | 2.4 | 0.285 | 11 / 11 | Xia [88] |
| 1NTZ | B.T. | Ubiquinone Q2 | - | Ubiquinone Q2 | 2.6 | 0.283 | 11 / 11 | Xia [88] |
| 1NTK | B.T. | - | - | Antimycin | 2.6 | 0.27 | 11 / 11 | Xia [88] |
| 1BCC | G.G. | - | - | Coenzyme Q10 | 3.16 | 0.31 | 10 / 11 | Berry [25] |
| 3H1H | G.G. | - | - | Coenzyme Q10 | 3.16 | 0.291 | Berry [25] | |
| 2E74 | M.L. | - | - | - | 3.0 | 0.268 | Cramer [36] | |
| 2D2C | M.L. | Dibromo-benzoquinone5 | P5 | - | 3.8 | 0.378 | Cramer, TBP | |
| 2ZT9 | NOS. | - | - | - | 3.0 | 0.259 | Cramer, TBP |
1
PDB – protein data bank
2
B.T., B. taurus; G.G., G. gallus; M.L., M. laminosus; NOS, Nostoc sp. PCC7120; T.H., T. thermophilus; C.R., C. reinhardtii; P.D.; P. denitrificans; R.S., R. sphaeroides; R.C., R. capsulatus; S.C., S. cerevisiae
3
Diffraction limit of the crystal in units of Å: 1Å = 10−10 m.
4
Quality index; predictive power of model. A lower value of R (free) is better.
5
TBP, to be published