Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 8x2j
Q-score: 0.561
Xin J, Min Z, Yu L, Yuan X, Liu A, Wu W, Zhang X, He H, Wu J, Xin Y, Blankenship RE, Tian C, Xu X
Plant Cell (2024) [ Pubmed: 38299372 DOI: doi:10.1093/plcell/koae029 ]
- Iron/sulfur cluster (351 Da, Ligand)
- Unknown (4 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- Fe3-s4 cluster (295 Da, Ligand)
- 2-heptyl-4-hydroxy quinoline n-oxide (259 Da, Ligand)
- Alternative complex iii (Complex from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- [(2~{r})-3-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-2-pentadecanoyloxy-propyl] pentadecanoate (663 Da, Ligand)
- Polysulphide reductase nrfd (55 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- Cytochrome c domain-containing protein (23 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- [(2~{r})-3-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-2-tetradecanoyloxy-propyl] hexadecanoate (663 Da, Ligand)
- Quinol:cytochrome c oxidoreductase quinone-binding subunit 2 (45 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- Cytochrome c7-like domain-containing protein (25 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- Heme c (618 Da, Ligand)
- Quinol:cytochrome c oxidoreductase membrane protein (19 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- Fe-s-cluster-containing hydrogenase components 1-like protein (113 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- Uncharacterized protein (12 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- 1,3-bis(13-methyltetradecanoyloxy)propan-2-yl pentadecanoate (765 Da, Ligand)
human RNA polymerase III pre-initiation complex closed DNA 1
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 8ity
Q-score: 0.291
Hou H, Jin Q, Ren Y, Chen Z, Wang Q, Xu Y
Cell Res (2023) 33 pp. 565-568 [ DOI: doi:10.1038/s41422-023-00819-x Pubmed: 37165065 ]
- Dna-directed rna polymerase iii subunit rpc10 (12 kDa, Protein from Homo sapiens)
- Dna (Complex)
- Dna-directed rna polymerase iii subunit rpc6 (35 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc1 (24 kDa, Protein from Homo sapiens)
- Dna (82-mer) (143 kDa, DNA from Homo sapiens)
- Transcription factor iiib 50 kda subunit (46 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i and iii subunit rpac1 (39 kDa, Protein from Homo sapiens)
- Snrna-activating protein complex subunit 3 (46 kDa, Protein from Homo sapiens)
- Rna polymerase iii pre-initiation complex closed complex 1 (Complex)
- Dna-directed rna polymerase iii subunit rpc4 (35 kDa, Protein from Homo sapiens)
- Dna (82-mer) (143 kDa, DNA from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerase iii subunit rpc7 (25 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc1 (155 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc8 (22 kDa, Protein from Homo sapiens)
- Snrna-activating protein complex subunit 1 (43 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc9 (16 kDa, Protein from Homo sapiens)
- Snrna-activating protein complex subunit 4 (159 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc5 (80 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc3 (60 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc4 (7 kDa, Protein from Homo sapiens)
- Iron/sulfur cluster (351 Da, Ligand)
- Tata-box-binding protein (37 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc2 (14 kDa, Protein from Homo sapiens)
- Transcription factor tfiiib component b'' homolog (294 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Rna polymerase iii pre-initiation complex closed complex 1 (1 MDa, Complex from Homo sapiens)
- Dna-directed rna polymerases i and iii subunit rpac2 (15 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc2 (127 kDa, Protein from Homo sapiens)
RNA polymerase III pre-initiation complex melting complex 1
Resolution: 4.1 Å
EM Method: Single-particle
Fitted PDBs: 8iue
Q-score: 0.291
Hou H, Jin Q, Ren Y, Chen Z, Wang Q, Xu Y
Cell Res (2023) 33 pp. 565-568 [ Pubmed: 37165065 DOI: doi:10.1038/s41422-023-00819-x ]
- Snrna-activating protein complex subunit 4 (159 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i and iii subunit rpac1 (39 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc4 (35 kDa, Protein from Homo sapiens)
- Tata-box-binding protein (37 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc4 (7 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc6 (35 kDa, Protein from Homo sapiens)
- Snrna-activating protein complex subunit 3 (46 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Dna (74-mer) (143 kDa, DNA from Homo sapiens)
- Rna polymerase iii pre-initiation complex melting complex 1 (1 MDa, Complex from Homo sapiens)
- Human gene for u 6 rna (143 kDa, DNA from Homo sapiens)
- Dna-directed rna polymerase (Complex)
- Dna-directed rna polymerase iii subunit rpc10 (12 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc1 (24 kDa, Protein from Homo sapiens)
- Transcription factor (Complex)
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerase iii subunit rpc7 (25 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i and iii subunit rpac2 (15 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc2 (127 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc5 (80 kDa, Protein from Homo sapiens)
- Iron/sulfur cluster (351 Da, Ligand)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Homo sapiens)
- Transcription factor iiib 50 kda subunit (46 kDa, Protein from Homo sapiens)
- Snrna-activating protein complex subunit 1 (43 kDa, Protein from Homo sapiens)
- Transcription factor tfiiib component b'' homolog (294 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc2 (14 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc9 (16 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc3 (60 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc1 (155 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc8 (22 kDa, Protein from Homo sapiens)
- Dna (Complex)
RNA polymerase III pre-initiation complex open complex 1
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8iuh
Q-score: 0.341
Hou H, Jin Q, Ren Y, Chen Z, Wang Q, Xu Y
Cell Res (2023) 33 pp. 565-568 [ Pubmed: 37165065 DOI: doi:10.1038/s41422-023-00819-x ]
- Snrna-activating protein complex subunit 4 (159 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i and iii subunit rpac1 (39 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc4 (35 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii, snapc (Complex)
- Tata-box-binding protein (37 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Homo sapiens)
- Rna polymerase iii pre-initiation complex closed complex 1 (1 MDa, Complex from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc4 (7 kDa, Protein from Homo sapiens)
- Snrna-activating protein complex subunit 3 (46 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc6 (35 kDa, Protein from Homo sapiens)
- Dna (81-mer) (143 kDa, DNA from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerase iii subunit rpc10 (12 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc1 (24 kDa, Protein from Homo sapiens)
- Tfiiib (Complex)
- Dna (81-mer) (143 kDa, DNA from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerase iii subunit rpc7 (25 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i and iii subunit rpac2 (15 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc2 (127 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc5 (80 kDa, Protein from Homo sapiens)
- Iron/sulfur cluster (351 Da, Ligand)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Homo sapiens)
- Transcription factor iiib 50 kda subunit (46 kDa, Protein from Homo sapiens)
- Snrna-activating protein complex subunit 1 (43 kDa, Protein from Homo sapiens)
- Transcription factor tfiiib component b'' homolog (294 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc2 (14 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc9 (16 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc3 (60 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc1 (155 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc8 (22 kDa, Protein from Homo sapiens)
- Dna (Complex)
RNA polymerase II pre-initiation complex with the distal +1 nucleosome (PIC-Nuc18W)
Resolution: 4.0 Å
EM Method: Single-particle
Fitted PDBs: 8bvw
Q-score: 0.234
Abril-Garrido J, Dienemann C, Grabbe F, Velychko T, Lidschreiber M, Wang H, Cramer P
Mol Cell (2023) 83 pp. 1798- [ DOI: doi:10.1016/j.molcel.2023.04.011 Pubmed: 37148879 ]
- General transcription factor iih (490 kDa, Complex from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from pig)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from pig)
- Histone h3.2 (15 kDa, Protein from Xenopus laevis)
- Dna-directed rna polymerase subunit beta (134 kDa, Protein from pig)
- Mammalian rna polymerase ii (516 kDa, Complex from Sus scrofa)
- Rna polymerase ii subunit k (7 kDa, Protein from pig)
- Cdk-activating kinase assembly factor mat1 (35 kDa, Protein from Homo sapiens)
- Rna polymerase ii subunit d (16 kDa, Protein from pig)
- General transcription factor iih subunit 1 (62 kDa, Protein from Homo sapiens)
- General transcription factor iih subunit 3 (34 kDa, Protein from Homo sapiens)
- Tata-box-binding protein (37 kDa, Protein from Homo sapiens)
- General transcription factor iie subunit 1 (49 kDa, Protein from Homo sapiens)
- General transcription factor iif subunit 1 (58 kDa, Protein from Homo sapiens)
- Unassigned peptide, likely tfiie-beta (1 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb3 (31 kDa, Protein from pig)
- General transcription factor iif (Complex from Homo sapiens)
- Transcription initiation factor iib (34 kDa, Protein from Homo sapiens)
- Tata-box binding protein (Complex from Homo sapiens)
- Unassigned peptide, likely xpb (698 Da, Protein from Homo sapiens)
- Histone h2a type 1 (14 kDa, Protein from Xenopus laevis)
- General transcription factor iih subunit 2 (44 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from pig)
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerase subunit (217 kDa, Protein from pig)
- Non-template dna (67 kDa, DNA from unidentified adenovirus)
- Rna polymerase ii pre-initiation complex with the distal +1 nucleosome (1 MDa, Complex)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Dna-directed rna polymerase ii subunit rpb11-a (13 kDa, Protein from pig)
- Transcription initiation factor iia subunit 1 (41 kDa, Protein from Homo sapiens)
- General transcription and dna repair factor iih helicase subunit xpb (88 kDa, Protein from Homo sapiens)
- Nucleosome (protein) (Complex from Xenopus laevis)
- General transcription factor iie (Complex from Homo sapiens)
- Cyclin-dependent kinase 7 (39 kDa, Protein from Homo sapiens)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- Magnesium ion (24 Da, Ligand)
- Transcription initiation factor iie subunit beta (33 kDa, Protein from Homo sapiens)
- Tfiih basal transcription factor complex helicase xpd subunit (87 kDa, Protein from Homo sapiens)
- General transcription factor iif subunit 2 (28 kDa, Protein from Homo sapiens)
- Iron/sulfur cluster (351 Da, Ligand)
- Cyclin-h (37 kDa, Protein from Homo sapiens)
- Nucleosome (dna) (Complex from unidentified adenovirus)
- General transcription factor iih subunit 5 (8 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit e (24 kDa, Protein from pig)
- Transcription initiation factor iia subunit 2 (12 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from pig)
- General transcription factor iib (Complex from Homo sapiens)
- Dna-directed rna polymerase ii subunit f (14 kDa, Protein from pig)
- Template dna (67 kDa, DNA from unidentified adenovirus)
- General transcription factor iia (Complex from Homo sapiens)
- General transcription factor iih subunit 4 (52 kDa, Protein from Homo sapiens)
RNA polymerase II pre-initiation complex with the proximal +1 nucleosome (PIC-Nuc10W)
Resolution: 4.1 Å
EM Method: Single-particle
Fitted PDBs: 8byq
Q-score: 0.187
Abril-Garrido J, Dienemann C, Grabbe F, Velychko T, Lidschreiber M, Wang H, Cramer P
Mol Cell (2023) 83 pp. 1798- [ DOI: doi:10.1016/j.molcel.2023.04.011 Pubmed: 37148879 ]
- Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from pig)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from pig)
- Histone h3.2 (15 kDa, Protein from Xenopus laevis)
- Dna-directed rna polymerase subunit beta (134 kDa, Protein from pig)
- General transcription factor iih (Complex from Homo sapiens)
- Rna polymerase ii subunit k (7 kDa, Protein from pig)
- Cdk-activating kinase assembly factor mat1 (35 kDa, Protein from Homo sapiens)
- Rna polymerase ii subunit d (16 kDa, Protein from pig)
- General transcription factor iih subunit 1 (62 kDa, Protein from Homo sapiens)
- General transcription factor iih subunit 3 (34 kDa, Protein from Homo sapiens)
- Tata-box-binding protein (37 kDa, Protein from Homo sapiens)
- General transcription factor iif subunit 1 (58 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb3 (31 kDa, Protein from pig)
- General transcription factor iif (Complex from Homo sapiens)
- Transcription initiation factor iib (34 kDa, Protein from Homo sapiens)
- Tata-box binding protein (Complex from Homo sapiens)
- Histone h2a type 1 (14 kDa, Protein from Xenopus laevis)
- General transcription factor iih subunit 2 (44 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from pig)
- Zinc ion (65 Da, Ligand)
- General transcription factor iie subunit 1 (22 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase subunit (217 kDa, Protein from pig)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Dna-directed rna polymerase ii subunit rpb11-a (13 kDa, Protein from pig)
- Mammalian rna polymerase ii (Complex from Sus scrofa)
- Transcription initiation factor iia subunit 1 (41 kDa, Protein from Homo sapiens)
- Nucleosome (protein) (Complex from Xenopus laevis)
- General transcription factor iie (Complex from Homo sapiens)
- Cyclin-dependent kinase 7 (39 kDa, Protein from Homo sapiens)
- Non-template dna (64 kDa, DNA from unidentified adenovirus)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- Template dna (64 kDa, DNA from unidentified adenovirus)
- Magnesium ion (24 Da, Ligand)
- Transcription initiation factor iie subunit beta (33 kDa, Protein from Homo sapiens)
- Tfiih basal transcription factor complex helicase xpd subunit (87 kDa, Protein from Homo sapiens)
- General transcription factor iif subunit 2 (28 kDa, Protein from Homo sapiens)
- Iron/sulfur cluster (351 Da, Ligand)
- Rna polymerase ii pre-initiation complex with the proximal +1 nucleosome (1 MDa, Complex)
- General transcription and dna repair factor iih helicase subunit xpb (89 kDa, Protein from Homo sapiens)
- Cyclin-h (37 kDa, Protein from Homo sapiens)
- Nucleosome (dna) (Complex from unidentified adenovirus)
- General transcription factor iih subunit 5 (8 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit e (24 kDa, Protein from pig)
- Transcription initiation factor iia subunit 2 (12 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from pig)
- General transcription factor iib (Complex from Homo sapiens)
- Dna-directed rna polymerase ii subunit f (14 kDa, Protein from pig)
- General transcription factor iia (Complex from Homo sapiens)
- General transcription factor iih subunit 4 (52 kDa, Protein from Homo sapiens)
Cryo-EM structure of cryptophyte photosystem I
Resolution: 2.66 Å
EM Method: Single-particle
Fitted PDBs: 7y7b
Q-score: 0.607
Zhao LS, Wang P, Li K, Zhang QB, He FY, Li CY, Su HN, Chen XL, Liu LN, Zhang YZ
Plant Cell (2023) 35 pp. 2449-2463 [ Pubmed: 36943796 DOI: doi:10.1093/plcell/koad087 ]
- Acpi-8 (23 kDa, Protein from Chroomonas placoidea)
- Psao (10 kDa, Protein from Chroomonas placoidea)
- Unk1 (13 kDa, Protein from Chroomonas placoidea)
- Acpi-13/10 (22 kDa, Protein from Chroomonas placoidea)
- Phylloquinone (450 Da, Ligand)
- Photosystem i reaction center subunit psak (8 kDa, Protein from Chroomonas placoidea)
- Acpi-12 (23 kDa, Protein from Chroomonas placoidea)
- Acpi-1 (23 kDa, Protein from Chroomonas placoidea)
- Photosystem i of cryptophyte (890 kDa, Complex from Chroomonas placoidea)
- Psar (13 kDa, Protein from Chroomonas placoidea)
- Photosystem i p700 chlorophyll a apoprotein a2 (82 kDa, Protein from Chroomonas placoidea)
- Chlorophyll a (893 Da, Ligand)
- Photosystem i reaction center subunit ix (4 kDa, Protein from Chroomonas placoidea)
- Acpi-7 (24 kDa, Protein from Chroomonas placoidea)
- 1,2-distearoyl-monogalactosyl-diglyceride (787 Da, Ligand)
- Chlorophyll c2 (608 Da, Ligand)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Photosystem i reaction center subunit iii (20 kDa, Protein from Chroomonas placoidea)
- (6'r,11cis,11'cis,13cis,15cis)-4',5'-didehydro-5',6'-dihydro-beta,beta-carotene (536 Da, Ligand)
- Photosystem i reaction center subunit xii (3 kDa, Protein from Chroomonas placoidea)
- Acpi-s (25 kDa, Protein from Chroomonas placoidea)
- Acpi-3 (24 kDa, Protein from Chroomonas placoidea)
- Acpi-6 (22 kDa, Protein from Chroomonas placoidea)
- Acpi-14 (23 kDa, Protein from Chroomonas placoidea)
- Acpi-11 (22 kDa, Protein from Chroomonas placoidea)
- Acpi-4 (23 kDa, Protein from Chroomonas placoidea)
- Acpi-2 (23 kDa, Protein from Chroomonas placoidea)
- Photosystem i iron-sulfur center (8 kDa, Protein from Chroomonas placoidea)
- Photosystem i reaction center subunit xi (16 kDa, Protein from Chroomonas placoidea)
- 1,2-di-o-acyl-3-o-[6-deoxy-6-sulfo-alpha-d-glucopyranosyl]-sn-glycerol (795 Da, Ligand)
- (1~{r})-3,5,5-trimethyl-4-[(3~{e},5~{e},7~{e},9~{e},11~{e},13~{e},15~{e},17~{e})-3,7,12,16-tetramethyl-18-(2,6,6-trimethylcyclohexen-1-yl)octadeca-3,5,7,9,11,13,15,17-octaen-1-ynyl]cyclohex-3-en-1-ol (550 Da, Ligand)
- Dodecyl-alpha-d-maltoside (510 Da, Ligand)
- (1~{r})-3,5,5-trimethyl-4-[(3~{e},5~{e},7~{e},9~{e},11~{e},13~{e},15~{e},17~{e})-3,7,12,16-tetramethyl-18-[(1~{r},4~{r})-2,6,6-trimethyl-4-oxidanyl-cyclohex-2-en-1-yl]octadeca-3,5,7,9,11,13,15,17-octaen-1-ynyl]cyclohex-3-en-1-ol (566 Da, Ligand)
- Iron/sulfur cluster (351 Da, Ligand)
- Digalactosyl diacyl glycerol (dgdg) (949 Da, Ligand)
- Acpi-9 (27 kDa, Protein from Chroomonas placoidea)
- Acpi-5 (24 kDa, Protein from Chroomonas placoidea)
- Photosystem i p700 chlorophyll a apoprotein a1 (83 kDa, Protein from Chroomonas placoidea)
- (1~{r})-3,5,5-trimethyl-4-[(3~{e},5~{e},7~{e},9~{e},11~{e},13~{e},15~{e})-3,7,12,16-tetramethyl-18-[(4~{r})-2,6,6-trimethyl-4-oxidanyl-cyclohexen-1-yl]octadeca-3,5,7,9,11,13,15-heptaen-1,17-diynyl]cyclohex-3-en-1-ol (564 Da, Ligand)
- Photosystem i reaction center subunit viii (3 kDa, Protein from Chroomonas placoidea)
- Photosystem i reaction center subunit iv (7 kDa, Protein from Chroomonas placoidea)
- Photosystem i reaction center subunit ii (15 kDa, Protein from Chroomonas placoidea)
Cryo-EM structure of cryptophyte photosystem I
Resolution: 2.71 Å
EM Method: Single-particle
Fitted PDBs: 7y8a
Q-score: 0.581
Zhao LS, Wang P, Li K, Zhang QB, He FY, Li CY, Su HN, Chen XL, Liu LN, Zhang YZ
Plant Cell (2023) 35 pp. 2449-2463 [ Pubmed: 36943796 DOI: doi:10.1093/plcell/koad087 ]
- Acpi-8 (23 kDa, Protein from Chroomonas placoidea)
- Unk1 (13 kDa, Protein from Chroomonas placoidea)
- Phylloquinone (450 Da, Ligand)
- Photosystem i reaction center subunit psak (8 kDa, Protein from Chroomonas placoidea)
- Acpi-12 (23 kDa, Protein from Chroomonas placoidea)
- Acpi-1 (23 kDa, Protein from Chroomonas placoidea)
- Psar (13 kDa, Protein from Chroomonas placoidea)
- Photosystem i p700 chlorophyll a apoprotein a2 (82 kDa, Protein from Chroomonas placoidea)
- Chlorophyll a (893 Da, Ligand)
- Photosystem i reaction center subunit ix (4 kDa, Protein from Chroomonas placoidea)
- Acpi-7 (24 kDa, Protein from Chroomonas placoidea)
- 1,2-distearoyl-monogalactosyl-diglyceride (787 Da, Ligand)
- Chlorophyll c2 (608 Da, Ligand)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Photosystem i reaction center subunit iii (20 kDa, Protein from Chroomonas placoidea)
- (6'r,11cis,11'cis,13cis,15cis)-4',5'-didehydro-5',6'-dihydro-beta,beta-carotene (536 Da, Ligand)
- Photosystem i reaction center subunit xii (3 kDa, Protein from Chroomonas placoidea)
- Acpi-s (25 kDa, Protein from Chroomonas placoidea)
- Acpi-3 (24 kDa, Protein from Chroomonas placoidea)
- Acpi-6 (22 kDa, Protein from Chroomonas placoidea)
- Acpi-14 (23 kDa, Protein from Chroomonas placoidea)
- Psao (16 kDa, Protein from Chroomonas placoidea)
- Acpi-13 (22 kDa, Protein from Chroomonas placoidea)
- Acpi-4 (23 kDa, Protein from Chroomonas placoidea)
- Photosystem i of cryptophyte (Complex from Chroomonas placoidea)
- Acpi-2 (23 kDa, Protein from Chroomonas placoidea)
- Photosystem i iron-sulfur center (8 kDa, Protein from Chroomonas placoidea)
- Photosystem i reaction center subunit xi (16 kDa, Protein from Chroomonas placoidea)
- 1,2-di-o-acyl-3-o-[6-deoxy-6-sulfo-alpha-d-glucopyranosyl]-sn-glycerol (795 Da, Ligand)
- (1~{r})-3,5,5-trimethyl-4-[(3~{e},5~{e},7~{e},9~{e},11~{e},13~{e},15~{e},17~{e})-3,7,12,16-tetramethyl-18-(2,6,6-trimethylcyclohexen-1-yl)octadeca-3,5,7,9,11,13,15,17-octaen-1-ynyl]cyclohex-3-en-1-ol (550 Da, Ligand)
- Dodecyl-alpha-d-maltoside (510 Da, Ligand)
- (1~{r})-3,5,5-trimethyl-4-[(3~{e},5~{e},7~{e},9~{e},11~{e},13~{e},15~{e},17~{e})-3,7,12,16-tetramethyl-18-[(1~{r},4~{r})-2,6,6-trimethyl-4-oxidanyl-cyclohex-2-en-1-yl]octadeca-3,5,7,9,11,13,15,17-octaen-1-ynyl]cyclohex-3-en-1-ol (566 Da, Ligand)
- Iron/sulfur cluster (351 Da, Ligand)
- Digalactosyl diacyl glycerol (dgdg) (949 Da, Ligand)
- Acpi-5 (24 kDa, Protein from Chroomonas placoidea)
- Photosystem i p700 chlorophyll a apoprotein a1 (83 kDa, Protein from Chroomonas placoidea)
- (1~{r})-3,5,5-trimethyl-4-[(3~{e},5~{e},7~{e},9~{e},11~{e},13~{e},15~{e})-3,7,12,16-tetramethyl-18-[(4~{r})-2,6,6-trimethyl-4-oxidanyl-cyclohexen-1-yl]octadeca-3,5,7,9,11,13,15-heptaen-1,17-diynyl]cyclohex-3-en-1-ol (564 Da, Ligand)
- Photosystem i reaction center subunit viii (3 kDa, Protein from Chroomonas placoidea)
- Photosystem i reaction center subunit iv (7 kDa, Protein from Chroomonas placoidea)
- Photosystem i reaction center subunit ii (15 kDa, Protein from Chroomonas placoidea)
Type I-C Cas4-Cas1-Cas2 complex bound to a PAM/PAM prespacer
Resolution: 3.49 Å
EM Method: Single-particle
Fitted PDBs: 8d3l
Q-score: 0.444
Dhingra Y, Suresh SK, Juneja P, Sashital DG
Mol Cell (2022) 82 pp. 4353- [ DOI: doi:10.1016/j.molcel.2022.09.030 Pubmed: 36272411 ]
- Iron/sulfur cluster (351 Da, Ligand)
- Manganese (ii) ion (54 Da, Ligand)
- Water (18 Da, Ligand)
- Pam/pam strand 1 (9 kDa, DNA from synthetic construct)
- Crispr-associated exonuclease cas4 (25 kDa, Protein from Alkalihalobacillus halodurans C-125)
- Crispr-associated endonuclease cas2 (11 kDa, Protein from Alkalihalobacillus halodurans C-125)
- Crispr-associated endonuclease cas1 (39 kDa, Protein from Alkalihalobacillus halodurans C-125)
- Pam/pam strand 2 (10 kDa, DNA from synthetic construct)
- Type i-c cas4-cas1-cas2 complex with a pam/pam substrate (Complex from Alkalihalobacillus halodurans C-125)
Cryo-EM structure of Arabidopsis thaliana complex-I (open conformation)
Resolution: 3.72 Å
EM Method: Single-particle
Fitted PDBs: 7ar7
Q-score: 0.438
Klusch N, Senkler J, Yildiz O, Kuehlbrandt W, Braun HP
Plant Cell (2021) 33 pp. 2072-2091 [ Pubmed: 33768254 DOI: doi:10.1093/plcell/koab092 ]
- Lauryl maltose neopentyl glycol (1 kDa, Ligand)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 2 (43 kDa, Protein from thale cress)
- Gamma carbonic anhydrase 2, mitochondrial (28 kDa, Protein from thale cress)
- (7s)-4-hydroxy-n,n,n-trimethyl-9-oxo-7-[(palmitoyloxy)methyl]-3,5,8-trioxa-4-phosphahexacosan-1-aminium 4-oxide (763 Da, Ligand)
- Unknown (2 kDa, Protein from thale cress)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 13-a (14 kDa, Protein from thale cress)
- S-[2-({n-[(2r)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-beta-alanyl}amino)ethyl] dodecanethioate (540 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] flavoprotein 2, mitochondrial (21 kDa, Protein from thale cress)
- Acyl carrier protein 2, mitochondrial (9 kDa, Protein from thale cress)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 3-a (5 kDa, Protein from thale cress)
- Nadph dihydro-nicotinamide-adenine-dinucleotide phosphate (745 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 6, mitochondrial (6 kDa, Protein from thale cress)
- 1,2-dicaproyl-sn-phosphatidyl-l-serine (455 Da, Ligand)
- Gamma carbonic anhydrase 1, mitochondrial (25 kDa, Protein from thale cress)
- Transmembrane protein (8 kDa, Protein from thale cress)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 2 (10 kDa, Protein from thale cress)
- Phosphatidylinositol (887 Da, Ligand)
- Nadh-ubiquinone oxidoreductase chain 4 (55 kDa, Protein from thale cress)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 3 (22 kDa, Protein from thale cress)
- Probable nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 5, mitochondrial (16 kDa, Protein from thale cress)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 4, mitochondrial (13 kDa, Protein from thale cress)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 7, mitochondrial (17 kDa, Protein from thale cress)
- Excitatory amino acid transporter (8 kDa, Protein from thale cress)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 9 (12 kDa, Protein from thale cress)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 2 (5 kDa, Protein from thale cress)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 5-a (7 kDa, Protein from thale cress)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 7 (9 kDa, Protein from thale cress)
- Zinc ion (65 Da, Ligand)
- At2g31490 protein (8 kDa, Protein from thale cress)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 6 (15 kDa, Protein from thale cress)
- Nadh-ubiquinone oxidoreductase chain 3 (13 kDa, Protein from thale cress)
- At2g46540/f11c10.23 (4 kDa, Protein from thale cress)
- At4g16450 (10 kDa, Protein from thale cress)
- Ubiquinone-9 (795 Da, Ligand)
- Acyl carrier protein 1, mitochondrial (9 kDa, Protein from thale cress)
- Nadh-ubiquinone oxidoreductase chain 4l (9 kDa, Protein from thale cress)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 1, mitochondrial (75 kDa, Protein from thale cress)
- Gamma carbonic anhydrase-like 2, mitochondrial (23 kDa, Protein from thale cress)
- B14.5a (1 kDa, Protein from thale cress)
- Nadh-ubiquinone oxidoreductase chain 5 (68 kDa, Protein from thale cress)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 9, mitochondrial (36 kDa, Protein from thale cress)
- Nadh-ubiquinone oxidoreductase chain 6 (23 kDa, Protein from thale cress)
- At1g67350 (10 kDa, Protein from thale cress)
- Uncharacterized protein at2g27730, mitochondrial (3 kDa, Protein from thale cress)
- Iron/sulfur cluster (351 Da, Ligand)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 1 (6 kDa, Protein from thale cress)
- Phosphatidylethanolamine (734 Da, Ligand)
- (1s)-2-{[{[(2r)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(palmitoyloxy)methyl]ethyl stearate (751 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 8-a, mitochondrial (19 kDa, Protein from thale cress)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 8-b (11 kDa, Protein from thale cress)
- Esss subunit of nadh:ubiquinone oxidoreductase (complex i) protein (8 kDa, Protein from thale cress)
- Nadh dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial (48 kDa, Protein from thale cress)
- Flavin mononucleotide (456 Da, Ligand)
- Probable nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 12 (7 kDa, Protein from thale cress)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 8, mitochondrial (5 kDa, Protein from thale cress)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 10-b (11 kDa, Protein from thale cress)
- Cryo-em structure of arabidopsis thaliana complex-i (open conformation) (Complex from Arabidopsis thaliana)
- Nadh-ubiquinone oxidoreductase chain 2 (54 kDa, Protein from thale cress)
- Nadh-ubiquinone oxidoreductase chain 1 (35 kDa, Protein from thale cress)