6GIQ: BJ4_G0001550.mRNA.1.CDS.1
Saccharomyces cerevisiae respiratory supercomplex III2IV. Determined by electron microscopy at 3.23 Å resolution. Released 2 Jan 2019.
- Method
- Electron microscopy
- Resolution
- 3.23 Å
- Organisms
- Saccharomyces cerevisiae, Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
- Chains
- 32
- Atoms
- 44,120
- Mol. weight
- 736.66 kDa
- Ligands
- 6PH, HEC, 8PE, CN5
- Released
- 2 Jan 2019
Explore 6GIQ in 3D
Show helices and sheets
RCSB PDB
PDBe
Secondary structure: helices and β-sheets
6GIQ contains 270 α-helices and 122 β-strands across 32 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.
Chain a: 24 helices, 2 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 14-39 | 26 | |
| β-strand | 51 | 1 | 34 |
| β-strand | 54 | 1 | 34 |
| α-helix | 55-66 | 12 | |
| α-helix | 67-78 | 12 | |
| α-helix | 79-88 | 10 | |
| α-helix | 98-118 | 21 | |
| α-helix | 143-171 | 29 | |
| α-helix | 184-197 | 14 | |
| α-helix | 200-215 | 16 | |
| α-helix | 224-226 | 3 | |
| α-helix | 229-263 | 35 | |
| α-helix | 270-283 | 14 | |
| α-helix | 290-295 | 6 | |
| α-helix | 299-327 | 29 | |
| α-helix | 336-358 | 23 | |
| α-helix | 364-367 | 4 | |
| α-helix | 371-377 | 7 | |
| α-helix | 378-386 | 9 | |
| α-helix | 387-400 | 14 | |
| α-helix | 407-425 | 19 | |
| α-helix | 428-431 | 4 | |
| α-helix | 436-437 | 2 | |
| α-helix | 445-447 | 3 | |
| α-helix | 450-474 | 25 | |
| α-helix | 522-523 | 2 | |
Chain A: 22 helices, 12 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 30-33 | 4 | 1 |
| β-strand | 37-42 | 6 | 1 |
| β-strand | 49-55 | 7 | 1 |
| α-helix | 59-61 | 3 | |
| α-helix | 69-77 | 9 | |
| α-helix | 80-88 | 9 | |
| β-strand | 92-97 | 6 | 1 |
| β-strand | 102-108 | 7 | 1 |
| α-helix | 113-120 | 8 | |
| α-helix | 121-125 | 5 | |
| α-helix | 134-154 | 21 | |
| α-helix | 156-168 | 13 | |
| α-helix | 173-175 | 3 | |
| α-helix | 182-185 | 4 | |
| α-helix | 190-200 | 11 | |
| β-strand | 206-212 | 7 | 1 |
| α-helix | 216-225 | 10 | |
| α-helix | 235-238 | 4 | |
| β-strand | 247-252 | 6 | 2 |
| β-strand | 259-266 | 8 | 2 |
| α-helix | 268-269 | 2 | |
| α-helix | 275-285 | 11 | |
| β-strand | 287-289 | 3 | 2 |
| α-helix | 303-306 | 4 | |
| β-strand | 314-321 | 8 | 2 |
| β-strand | 326-334 | 9 | 2 |
| α-helix | 340-356 | 17 | |
| α-helix | 360-378 | 19 | |
| α-helix | 383-396 | 14 | |
| α-helix | 400-402 | 3 | |
| α-helix | 403-411 | 9 | |
| α-helix | 415-425 | 11 | |
| β-strand | 432-437 | 6 | 2 |
| α-helix | 445-450 | 6 | |
Chain b: 5 helices, 14 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 31-64 | 34 | |
| α-helix | 79-108 | 30 | |
| β-strand | 115-120 | 6 | 35 |
| β-strand | 126-130 | 5 | 35 |
| α-helix | 139-141 | 3 | |
| β-strand | 143-145 | 3 | 35 |
| β-strand | 147 | 1 | 36 |
| α-helix | 158 | 1 | |
| β-strand | 163 | 1 | 36 |
| β-strand | 167-170 | 4 | 37 |
| β-strand | 175-177 | 3 | 35 |
| β-strand | 179 | 1 | 38 |
| β-strand | 188-189 | 2 | 39 |
| β-strand | 205 | 1 | 38 |
| β-strand | 208-209 | 2 | 35 |
| β-strand | 217-219 | 3 | 37 |
| β-strand | 220-221 | 2 | 39 |
| β-strand | 234-239 | 6 | 37 |
| α-helix | 241-245 | 5 | |
Chains B and M: 21 helices, 14 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 18-21 | 4 | 3 |
| β-strand | 28-35 | 8 | 3 |
| α-helix | 39-41 | 3 | |
| α-helix | 47-54 | 8 | |
| β-strand | 59 | 1 | 4 |
| α-helix | 64-74 | 11 | |
| β-strand | 77-82 | 6 | 3 |
| β-strand | 87-94 | 8 | 3 |
| α-helix | 95-97 | 3 | |
| α-helix | 98-110 | 13 | |
| β-strand | 112 | 1 | 4 |
| α-helix | 116-118 | 3 | |
| α-helix | 119-123 | 5 | |
| α-helix | 124-135 | 12 | |
| α-helix | 138-150 | 13 | |
| α-helix | 169-179 | 11 | |
| α-helix | 182-184 | 3 | |
| β-strand | 185-190 | 6 | 3 |
| α-helix | 194-203 | 10 | |
| α-helix | 205-208 | 4 | |
| α-helix | 220-222 | 3 | |
| β-strand | 228-232 | 5 | 5 |
| β-strand | 237-244 | 8 | 5 |
| α-helix | 250-261 | 12 | |
| β-strand | 273-278 | 6 | 5 |
| β-strand | 283-291 | 9 | 5 |
| α-helix | 294-310 | 17 | |
| β-strand | 312-313 | 2 | 6 |
| α-helix | 318-328 | 11 | |
| α-helix | 340-342 | 3 | |
| β-strand | 345-346 | 2 | 6 |
| β-strand | 352-357 | 6 | 5 |
| α-helix | 359-361 | 3 | |
| α-helix | 363-364 | 2 | |
| α-helix | 365-367 | 3 | |
Chain c: 10 helices, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 23-41 | 19 | |
| α-helix | 49-70 | 22 | |
| α-helix | 71-75 | 5 | |
| α-helix | 81-114 | 34 | |
| α-helix | 131-133 | 3 | |
| α-helix | 138-161 | 24 | |
| α-helix | 165-188 | 24 | |
| α-helix | 202-205 | 4 | |
| α-helix | 207-230 | 24 | |
| α-helix | 249-265 | 17 | |
Chains C and N: 20 helices, 4 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 3-6 | 4 | |
| α-helix | 8-17 | 10 | |
| β-strand | 22-23 | 2 | 7 |
| α-helix | 28-31 | 4 | |
| α-helix | 32-51 | 20 | |
| α-helix | 61-70 | 10 | |
| α-helix | 75-102 | 28 | |
| α-helix | 111-133 | 23 | |
| β-strand | 137 | 1 | 8 |
| α-helix | 138-151 | 14 | |
| α-helix | 158-166 | 9 | |
| α-helix | 173-202 | 30 | |
| β-strand | 218-219 | 2 | 7 |
| α-helix | 224-245 | 22 | |
| α-helix | 254-257 | 4 | |
| β-strand | 259 | 1 | 8 |
| α-helix | 264-266 | 3 | |
| α-helix | 273-275 | 3 | |
| α-helix | 276-284 | 9 | |
| α-helix | 288-300 | 13 | |
| α-helix | 320-340 | 21 | |
| α-helix | 348-361 | 14 | |
| α-helix | 362-366 | 5 | |
| α-helix | 367-382 | 16 | |
Chain d: 1 helix, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 68-76 | 9 | |
Chains D and O: 17 helices, 9 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 64-67 | 4 | |
| α-helix | 69-71 | 3 | |
| α-helix | 87-99 | 13 | |
| α-helix | 101-103 | 3 | |
| β-strand | 111 | 1 | 9 |
| α-helix | 112-115 | 4 | |
| β-strand | 116 | 1 | 10 |
| β-strand | 120 | 1 | 10 |
| α-helix | 122-129 | 8 | |
| β-strand | 133-135 | 3 | 11 |
| α-helix | 136-138 | 3 | |
| β-strand | 146-148 | 3 | 11 |
| β-strand | 154 | 1 | 9 |
| α-helix | 155-157 | 3 | |
| α-helix | 162-168 | 7 | |
| α-helix | 172-176 | 5 | |
| α-helix | 188-195 | 8 | |
| α-helix | 202-203 | 2 | |
| α-helix | 208-209 | 2 | |
| β-strand | 213-214 | 2 | 12 |
| β-strand | 222-223 | 2 | 12 |
| α-helix | 244-259 | 16 | |
| α-helix | 263-291 | 29 | |
| α-helix | 293-296 | 4 | |
| β-strand | 299-302 | 4 | 2 |
| α-helix | 303-306 | 4 | |
18 more chain groups are not listed. Open the entry in the viewer and use the sequence panel to see them.
Molecules and chains
| Molecule | Chains | Type | Length | Organism | UniProt |
|---|
| BJ4_G0001550.mRNA.1.CDS.1 | A, L | protein | 457 | Saccharomyces cerevisiae | P07256 (AlphaFold model) |
| Cytochrome b-c1 complex subunit 2, mitochondrial | B, M | protein | 368 | Saccharomyces cerevisiae | P07257 (AlphaFold model) |
| Cytochrome b | C, N | protein | 385 | Saccharomyces cerevisiae | P00163 (AlphaFold model) |
| BJ4_G0049990.mRNA.1.CDS.1 | D, O | protein | 309 | Saccharomyces cerevisiae | P07143 (AlphaFold model) |
| Cytochrome b-c1 complex subunit Rieske, mitochondrial | E, P | protein | 215 | Saccharomyces cerevisiae | P08067 |
| QCR6 isoform 1 | F, Q | protein | 147 | Saccharomyces cerevisiae | P00127 |
| Complex III subunit 7 | G, R | protein | 127 | Saccharomyces cerevisiae | P00128 |
| BJ4_G0028260.mRNA.1.CDS.1 | H, S | protein | 94 | Saccharomyces cerevisiae | P08525 |
| HLJ1_G0021680.mRNA.1.CDS.1 | I, T | protein | 66 | Saccharomyces cerevisiae | P22289 |
| BJ4_G0023510.mRNA.1.CDS.1 | U, V | protein | 77 | Saccharomyces cerevisiae | P37299 |
| Cytochrome c oxidase subunit 1 | a | protein | 534 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | P00401 |
| Cytochrome c oxidase subunit 2 | b | protein | 251 | Saccharomyces cerevisiae | P00410 |
10 more molecules are not listed.
Sequence of entity 1 (A, L), FASTA
>6GIQ_1 BJ4_G0001550.mRNA.1.CDS.1 (chains A, L)
MLRTVTSKTVSNQFKRSLATAVATPKAEVTQLSNGIVVATEHNPSAHTASVGVVFGSGAA
NENPYNNGVSNLWKNIFLSKENSAVAAKEGLALSSNISRDFQSYIVSSLPGSTDKSLDFL
NQSFIQQKANLLSSSNFEATKKSVLKQVQDFEENDHPNRVLEHLHSTAFQNTPLSLPTRG
TLESLENLVVADLESFANNHFLNSNAVVVGTGNIKHEDLVNSIESKNLSLQTGTKPVLKK
KAAFLGSEVRLRDDTLPKAWISLAVEGEPVNSPNYFVAKLAAQIFGSYNAFEPASRLQGI
KLLDNIQEYQLCDNFNHFSLSYKDSGLWGFSTATRNVTMIDDLIHFTLKQWNRLTISVTD
TEVERAKSLLKLQLGQLYESGNPVNDANLLGAEVLIKGSKLSLGEAFKKIDAITVKDVKA
WAGKRLWDQDIAIAGTGQIEGLLDYMRIRSDMSMMRW
Sequence of entity 2 (B, M), FASTA
>6GIQ_2 Cytochrome b-c1 complex subunit 2, mitochondrial (chains B, M)
MLSAARLQFAQGSVRRLTVSARDAPTKISTLAVKVHGGSRYATKDGVAHLLNRFNFQNTN
TRSALKLVRESELLGGTFKSTLDREYITLKATFLKDDLPYYVNALADVLYKTAFKPHELT
ESVLPAARYDYAVAEQCPVKSAEDQLYAITFRKGLGNPLLYDGVERVSLQDIKDFADKVY
TKENLEVSGENVVEADLKRFVDESLLSTLPAGKSLVSKSEPKFFLGEENRVRFIGDSVAA
IGIPVNKASLAQYEVLANYLTSALSELSGLISSAKLDKFTDGGLFTLFVRDQDSAVVSSN
IKKIVADLKKGKDLSPAINYTKLKNAVQNESVSSPIELNFDAVKDFKLGKFNYVAVGDVS
NLPYLDEL
Sequence of entity 3 (C, N), FASTA
>6GIQ_3 Cytochrome b (chains C, N)
MAFRKSNVYLSLVNSYIIDSPQPSSINYWWNMGSLLGLCLVIQIVTGIFMAMHYSSNIEL
AFSSVEHIMRDVHNGYILRYLHANGASFFFMVMFMHMAKGLYYGSYRSPRVTLWNVGVII
FILTIATAFLGYCCVYGQMSHWGATVITNLFSAIPFVGNDIVSWLWGGFSVSNPTIQRFF
ALHYLVPFIIAAMVIMHLMALHIHGSSNPLGITGNLDRIPMHSYFIFKDLVTVFLFMLIL
ALFVFYSPNTLGHPDNYIPGNPLVTPASIVPEWYLLPFYAILRSIPDKLLGVITMFAAIL
VLLVLPFTDRSVVRGNTFKVLSKFFFFIFVFNFVLLGQIGACHVEVPYVLMGQIATFIYF
AYFLIIVPVISTIENVLFYIGRVNK
Sequence of entity 4 (D, O), FASTA
>6GIQ_4 BJ4_G0049990.mRNA.1.CDS.1 (chains D, O)
MFSNLSKRWAQRTLSKSFYSTATGAASKSGKLTQKLVTAGVAAAGITASTLLYADSLTAE
AMTAAEHGLHAPAYAWSHNGPFETFDHASIRRGYQVYREVCAACHSLDRVAWRTLVGVSH
TNEEVRNMAEEFEYDDEPDEQGNPKKRPGKLSDYIPGPYPNEQAARAANQGALPPDLSLI
VKARHGGCDYIFSLLTGYPDEPPAGVALPPGSNYNPYFPGGSIAMARVLFDDMVEYEDGT
PATTSQMAKDVTTFLNWCAEPEHDERKRLGLKTVIILSSLYLLSIWVKKFKWAGIKTRKF
VFNPPKPRK
Sequence of entity 5 (E, P), FASTA
>6GIQ_5 Cytochrome b-c1 complex subunit Rieske, mitochondrial (chains E, P)
MLGIRSSVKTCFKPMSLTSKRLISQSLLASKSTYRTPNFDDVLKENNDADKGRSYAYFMV
GAMGLLSSAGAKSTVETFISSMTATADVLAMAKVEVNLAAIPLGKNVVVKWQGKPVFIRH
RTPHEIQEANSVDMSALKDPQTDADRVKDPQWLIMLGICTHLGCVPIGEAGDFGGWFCPC
HGSHYDISGRIRKGPAPLNLEIPAYEFDGDKVIVG
Sequence of entity 6 (F, Q), FASTA
>6GIQ_6 QCR6 isoform 1 (chains F, Q)
MGMLELVGEYWEQLKITVVPVVAAAEDDDNEQHEEKAAEGEEKEEENGDEDEDEDEDEDD
DDDDDEDEEEEEEVTDQLEDLREHFKNTEEGKALVHHYEECAERVKIQQQQPGYADLEHK
EDCVEEFFHLQHYLDTATAPRLFDKLK
Sequence of entity 7 (G, R), FASTA
>6GIQ_7 Complex III subunit 7 (chains G, R)
MPQSFTSIARIGDYILKSPVLSKLCVPVANQFINLAGYKKLGLKFDDLIAEENPIMQTAL
RRLPEDESYARAYRIIRAHQTELTHHLLPRNEWIKAQEDVPYLLPYILEAEAAAKEKDEL
DNIEVSK
Sequence of entity 8 (H, S), FASTA
>6GIQ_8 BJ4_G0028260.mRNA.1.CDS.1 (chains H, S)
MGPPSGKTYMGWWGHMGGPKQKGITSYAVSPYAQKPLQGIFHNAVFNSFRRFKSQFLYVL
IPAGIYWYWWKNGNEYNEFLYSKAGREELERVNV
Sequence of entity 9 (I, T), FASTA
>6GIQ_9 HLJ1_G0021680.mRNA.1.CDS.1 (chains I, T)
MSFSSLYKTFFKRNAVFVGTIFAGAFVFQTVFDTAITSWYENHNKGKLWKDVKARIAAGD
GDDDDE
Sequence of entity 10 (U, V), FASTA
>6GIQ_10 BJ4_G0023510.mRNA.1.CDS.1 (chains U, V)
MAYTSHLSSKTGLHFGRLSLRSLTAYAPNLMLWGGASMLGLFVFTEGWPKFQDTLYKKIP
LLGPTLEDHTPPEDKPN
Sequence of entity 11 (a), FASTA
>6GIQ_11 Cytochrome c oxidase subunit 1 (chains a)
MVQRWLYSTNAKDIAVLYFMLAIFSGMAGTAMSLIIRLELAAPGSQYLHGNSQLFNVLVV
GHAVLMIFFLVMPALIGGFGNYLLPLMIGATDTAFPRINNIAFWVLPMGLVCLVTSTLVE
SGAGTGWTVYPPLSSIQAHSGPSVDLAIFALHLTSISSLLGAINFIVTTLNMRTNGMTMH
KLPLFVWSIFITAFLLLLSLPVLSAGITMLLLDRNFNTSFFEVSGGGDPILYEHLFWFFG
HPEVYILIIPGFGIISHVVSTYSKKPVFGEISMVYAMASIGLLGFLVWSHHMYIVGLDAD
TRAYFTSATMIIAIPTGIKIFSWLATIHGGSIRLATPMLYAIAFLFLFTMGGLTGVALAN
ASLDVAFHDTYYVVGHFHYVLSMGAIFSLFAGYYYWSPQILGLNYNEKLAQIQFWLIFIG
ANVIFFPMHFLGINGMPRRIPDYPDAFAGWNYVASIGSFIATLSLFLFIYILYDQLVNGL
NNKVNNKSVIYNKAPDFVESNTIFNLNTVKSSSIEFLLTSPPAVHSFNTPAVQS
Sequence of entity 12 (b), FASTA
>6GIQ_12 Cytochrome c oxidase subunit 2 (chains b)
MLDLLRLQLTTFIMNDVPTPYACYFQDSATPNQEGILELHDNIMFYLLVILGLVSWMLYT
IVMTYSKNPIAYKYIKHGQTIEVIWTIFPAVILLIIAFPSFILLYLCDEVISPAMTIKAI
GYQWYWKYEYSDFINDSGETVEFESYVIPDELLEEGQLRLLDTDTSMVVPVDTHIRFVVT
AADVIHDFAIPSLGIKVDATPGRLNQVSALIQREGVFYGACSELCGTGHANMPIKIEAVS
LPKFLEWLNEQ
Ligands and cofactors
| ID | Name | Formula | Copies |
|---|
| 6PH | (1R)-2-(phosphonooxy)-1-[(tridecanoyloxy)methyl]ethyl pentadecanoate | C31 H61 O8 P | 2 |
| HEC | Heme C | C34 H36 Fe N4 O4 | 6 |
| 8PE | (2R)-3-{[(S)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-2-(tetradecanoyloxy)propyl… | C37 H74 N O8 P | 2 |
| CN5 | (5S,11R)-5,8,11-trihydroxy-5,11-dioxido-17-oxo-4,6,10,12,16-pentaoxa-5,11-dipho… | C26 H52 O13 P2 | 1 |
| UQ6 | 5-(3,7,11,15,19,23-hexamethyl-tetracosa-2,6,10,14,18,22-hexaenyl)-2,3-dimethoxy… | C39 H60 O4 | 2 |
| 7PH | (1R)-2-(dodecanoyloxy)-1-[(phosphonooxy)methyl]ethyl tetradecanoate | C29 H57 O8 P | 2 |
| FES | FE2/S2 (inorganic) cluster | Fe2 S2 | 2 |
| PCF | 1,2-diacyl-sn-glycero-3-phoshocholine | C40 H80 N O8 P | 2 |
| 9PE | (1R)-2-{[(S)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-1-[(heptanoyloxy)methyl]et… | C30 H60 N O8 P | 2 |
| CN3 | (2R,5S,11R,14R)-5,8,11-trihydroxy-2-(nonanoyloxy)-5,11-dioxido-16-oxo-14-[(prop… | C36 H68 O17 P2 | 1 |
| CU | Copper (II) ion | Cu | 1 |
| HEA | Heme-a | C49 H56 Fe N4 O6 | 2 |
| CUA | Dinuclear copper ion | Cu2 | 1 |
Primary citation
Cryo-EM structure of the yeast respiratory supercomplex. Rathore, S., Berndtsson, J., Marin-Buera, L. et al. Nat Struct Mol Biol (2019) 26:50-57. DOI 10.1038/s41594-018-0169-7 · PubMed
Other PDB entries of the same protein (UniProt P07256 (AlphaFold model), which also has an AlphaFold model), best resolution first:
- 3CX5 1.9 Å, Structure of complex III with bound cytochrome c in reduced state and definition of a…
- 1EZV 2.3 Å, Structure of the yeast cytochrome BC1 complex co-crystallized with an antibody fv-fragment
- 1KB9 2.3 Å, Yeast cytochrome BC1 complex
- 2IBZ 2.3 Å, Yeast Cytochrome BC1 Complex with Stigmatellin
- 8YIO 2.35 Å, Cryo-EM structure of Saccharomyces cerevisiae bc1 complex in azoxystrobin-bound state
- 9ETZ 2.4 Å, III2IV respiratory supercomplex from Saccharomyces cerevisiae
- 8YHQ 2.42 Å, Cryo-EM structure of Saccharomyces cerevisiae bc1 complex in pyraclostrobin-bound state
- 1P84 2.5 Å, HDBT inhibited Yeast Cytochrome bc1 Complex
- 3CXH 2.5 Å, Structure of yeast complex III with isoform-2 cytochrome c bound and definition of a…
- 8ZJC 2.5 Å, Cryo-EM structure of Saccharomyces cerevisiae bc1 complex
- 8ZMT 2.52 Å, Cryo-EM structure of Saccharomyces cerevisiae bc1 complex in Metyltetraprole-bound state
- 9BPB 2.57 Å, Tethered respiratory III2IV2 supercomplex from Saccharomyces cerevisiae
Browse structure collections
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