Septin Tetrameric Complex SEPT7/SEPT9 of Ciona intestinalis by Cryo-EM
Resolution: 2.72 Å
EM Method: Single-particle
Fitted PDBs: 9bhw
Q-score: 0.538
Mendonca DC, Morais STB, Ciol H, Pinto APA, Leonardo DA, Pereira HD, Valadares NF, Portugal RV, Klaholz BP, Garratt RC, Araujo APU
J Mol Biol (2024) 436 pp. 168693-168693 [ Pubmed: 38960133 DOI: doi:10.1016/j.jmb.2024.168693 ]
- Ciona intestinalis septin tetrameric complex sept7/sept9 (Complex from Ciona intestinalis)
- Neuronal-specific septin-3 (41 kDa, Protein from Ciona intestinalis)
- Ciseptin-7 (48 kDa, Protein from Ciona intestinalis)
- Guanosine-5'-diphosphate (443 Da, Ligand)
Holvec S, Barchet C, Lechner A, Frechin L, De Silva SNT, Hazemann I, Wolff P, von Loeffelholz O, Klaholz BP
Nat Struct Mol Biol (2024) 31 pp. 1251-1264 [ Pubmed: 38844527 DOI: doi:10.1038/s41594-024-01274-x ]
Holvec S, Barchet C, Lechner A, Frechin L, De Silva SNT, Hazemann I, Wolff P, von Loeffelholz O, Klaholz BP
Nat Struct Mol Biol (2024) 31 pp. 1251-1264 [ Pubmed: 38844527 DOI: doi:10.1038/s41594-024-01274-x ]
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 7qhm
Q-score: 0.567
Kao WC, Ortmann de Percin Northumberland C, Cheng TC, Ortiz J, Durand A, von Loeffelholz O, Schilling O, Biniossek ML, Klaholz BP, Hunte C
Nat Commun (2022) 13 pp. 545-545 [ Pubmed: 35087070 DOI: doi:10.1038/s41467-022-28179-x ]
- Cytochrome c oxidase polypeptide 4 (15 kDa, Protein from Corynebacterium glutamicum ATCC 13032)
- Cytochrome c oxidase subunit 3 (22 kDa, Protein from Corynebacterium glutamicum ATCC 13032)
- Hypothetical membrane protein (6 kDa, Protein from Corynebacterium glutamicum ATCC 13032)
- Manganese (ii) ion (54 Da, Ligand)
- Diacyl glycerol (625 Da, Ligand)
- Lycopene (536 Da, Ligand)
- Cytochrome bc1 complex cytochrome b subunit (59 kDa, Protein from Corynebacterium glutamicum ATCC 13032)
- (2r)-2-(hexadecanoyloxy)-3-{[(s)-hydroxy{[(1r,2r,3r,4r,5r,6s)-2,3,4,5,6-pentahydroxycyclohexyl]oxy}phosphoryl]oxy}propyl (9s)-9-methyloctadecanoate (853 Da, Ligand)
- Protoporphyrin ix containing fe (616 Da, Ligand)
- Thiamine biosynthesis protein x (17 kDa, Protein from Corynebacterium glutamicum ATCC 13032)
- Palmitic acid (256 Da, Ligand)
- Cytochrome bc1 complex cytochrome c subunit (29 kDa, Protein from Corynebacterium glutamicum ATCC 13032)
- Heme c (618 Da, Ligand)
- 1,2-distearoyl-sn-glycerophosphoethanolamine (748 Da, Ligand)
- Water (18 Da, Ligand)
- Dinuclear copper ion (127 Da, Ligand)
- Hypothetical membrane protein (12 kDa, Protein from Corynebacterium glutamicum ATCC 13032)
- [(2~{r})-3-[[(1~{s},2~{r},3~{s},4~{s},5~{r},6~{r})-2-[(2~{r},3~{s},4~{s},5~{s},6~{r})-6-[[(2~{s},3~{s},4~{s},5~{s},6~{r})-6-[[(2~{s},3~{s},4~{s},5~{s},6~{r})-6-(hydroxymethyl)-3-[(2~{r},3~{s},4~{s},5~{s},6~{r})-6-(hydroxymethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]oxy-4,5-bis(oxidanyl)oxan-2-yl]oxymethyl]-3,4,5-tris(oxidanyl)oxan-2-yl]oxymethyl]-3,4,5-tris(oxidanyl)oxan-2-yl]oxy-3,4,5-tris(oxidanyl)-6-[(2~{r},3~{s},4~{s},5~{s},6~{r})-3,4,5-tris(oxidanyl)-6-(undecanoyloxymethyl)oxan-2-yl]oxy-cyclohexyl]oxy-oxidanyl-phosphoryl]oxy-2-undecanoyloxy-propyl] (10~{r})-10-methyldodecanoate (1 kDa, Ligand)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- Uncharacterized protein cgl2664/cg2949 (16 kDa, Protein from Corynebacterium glutamicum ATCC 13032)
- Heme-as (920 Da, Ligand)
- Cardiolipin (1 kDa, Ligand)
- Cytochrome c oxidase subunit 2 (36 kDa, Protein from Corynebacterium glutamicum ATCC 13032)
- Uncharacterized membrane protein cgl2017/cg2211 (16 kDa, Protein from Corynebacterium glutamicum ATCC 13032)
- Stigmatellin a (514 Da, Ligand)
- [(2~{r})-3-[[(1~{s},2~{r},3~{r},4~{s},5~{s},6~{r})-2-[(2~{r},3~{s},4~{s},5~{s},6~{r})-6-(hexadecanoyloxymethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]oxy-6-[(2~{r},3~{s},4~{s},5~{s},6~{r})-6-(hydroxymethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]oxy-3,4,5-tris(oxidanyl)cyclohexyl]oxy-oxidanyl-phosphoryl]oxy-2-undecanoyloxy-propyl] (10~{s})-10-methylhenicosanoate (1 kDa, Ligand)
- Calcium ion (40 Da, Ligand)
- Copper (ii) ion (63 Da, Ligand)
- Oxygen molecule (31 Da, Ligand)
- Actinobacterial supercomplex, subunit c (ascc) (8 kDa, Protein from Corynebacterium glutamicum ATCC 13032)
- Cytochrome bcc-aa3 supercomplex (Complex from Corynebacterium glutamicum ATCC 13032)
- Cytochrome bc1 complex rieske iron-sulfur subunit (45 kDa, Protein from Corynebacterium glutamicum ATCC 13032)
- Cytochrome c oxidase subunit 1 (66 kDa, Protein from Corynebacterium glutamicum ATCC 13032)
- Menaquinone-9 (785 Da, Ligand)
- Azide ion (42 Da, Ligand)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
High-resolution cryo-EM structure of the human 80S ribosome - (composite structure)
Natchiar SK, Myasnikov AG, Kratzat H, Hazemann I, Klaholz BP
Nature (2017) 551 pp. 472-477 [ DOI: doi:10.1038/nature24482 Pubmed: 29143818 ]
- 60s ribosomal protein l38 (8 kDa, Protein from Human)
- 60s ribosomal protein l29 (17 kDa, Protein from Human)
- 40s ribosomal protein s6 (28 kDa, Protein from Human)
- 60s ribosomal protein l23a (17 kDa, Protein from Human)
- 60s ribosomal protein l24 (17 kDa, Protein from Human)
- 5.8s ribosomal rna (50 kDa, RNA from Human)
- 60s ribosomal protein l41 (3 kDa, Protein from Human)
- 40s ribosomal protein s4, x isoform (29 kDa, Protein from Human)
- 60s ribosomal protein l14 (23 kDa, Protein from Human)
- 60s ribosomal protein l17 (21 kDa, Protein from Human)
- 60s ribosomal protein l4 (47 kDa, Protein from Human)
- 60s ribosomal protein l39 (6 kDa, Protein from Human)
- 60s ribosomal protein l15 (24 kDa, Protein from Human)
- 40s ribosomal protein s15 (17 kDa, Protein from Human)
- 40s ribosomal protein s16 (16 kDa, Protein from Human)
- 60s ribosomal protein l9 (21 kDa, Protein from Human)
- 40s ribosomal protein s19 (16 kDa, Protein from Human)
- 60s ribosomal protein l6 (32 kDa, Protein from Human)
- 5s ribosomal rna (38 kDa, RNA from Human)
- 60s ribosomal protein l26 (17 kDa, Protein from Human)
- 60s ribosomal protein l30 (12 kDa, Protein from Human)
- Ubiquitin-40s ribosomal protein s27a (18 kDa, Protein from Human)
- Ubiquitin-60s ribosomal protein l40 (14 kDa, Protein from Human)
- 60s ribosomal protein l27 (15 kDa, Protein from Human)
- 60s ribosomal protein l7 (29 kDa, Protein from Human)
- 80s ribosome with ligand hht and hyg (4 MDa, Complex from Homo sapiens)
- 40s ribosomal protein s26 (13 kDa, Protein from Human)
- 60s ribosomal protein l21 (18 kDa, Protein from Human)
- 40s ribosomal protein s11 (18 kDa, Protein from Human)
- 40s ribosomal protein s18 (17 kDa, Protein from Human)
- 60s ribosomal protein l28 (15 kDa, Protein from Human)
- 40s ribosomal protein s13 (17 kDa, Protein from Human)
- Magnesium ion (24 Da, Ligand)
- 40s ribosomal protein s27 (9 kDa, Protein from Human)
- 60s ribosomal protein l19 (23 kDa, Protein from Human)
- 40s ribosomal protein s23 (15 kDa, Protein from Human)
- 40s ribosomal protein s10 (18 kDa, Protein from Human)
- 40s ribosomal protein s5 (22 kDa, Protein from Human)
- 18s ribosomal rna (603 kDa, RNA from Human)
- 60s ribosomal protein l13 (24 kDa, Protein from Human)
- 40s ribosomal protein s25 (13 kDa, Protein from Human)
- 60s ribosomal protein l32 (15 kDa, Protein from Human)
- 60s ribosomal protein l22 (14 kDa, Protein from Human)
- 60s ribosomal protein l27a (16 kDa, Protein from Human)
- 40s ribosomal protein s20 (13 kDa, Protein from Human)
- 28s ribosomal rna (1 MDa, RNA from Human)
- 60s ribosomal protein l31 (14 kDa, Protein from Human)
- 60s ribosomal protein l5 (34 kDa, Protein from Human)
- 40s ribosomal protein s24 (15 kDa, Protein from Human)
- 40s ribosomal protein s15a (14 kDa, Protein from Human)
- 60s ribosomal protein l37a (10 kDa, Protein from Human)
- 60s ribosomal protein l11 (20 kDa, Protein from Human)
- (3beta)-o~3~-[(2r)-2,6-dihydroxy-2-(2-methoxy-2-oxoethyl)-6-methylheptanoyl]cephalotaxine (545 Da, Ligand)
- 40s ribosomal protein s29 (6 kDa, Protein from Human)
- 60s ribosomal protein l10-like (24 kDa, Protein from Human)
- 40s ribosomal protein s3 (26 kDa, Protein from Human)
- 60s ribosomal protein l8 (28 kDa, Protein from Human)
- 60s ribosomal protein l10a (24 kDa, Protein from Human)
- 60s ribosomal protein l36a (12 kDa, Protein from Human)
- 40s ribosomal protein sa (32 kDa, Protein from Human)
- 60s ribosomal protein l23 (14 kDa, Protein from Human)
- 40s ribosomal protein s12 (14 kDa, Protein from Human)
- Zinc ion (65 Da, Ligand)
- 60s ribosomal protein l36 (12 kDa, Protein from Human)
- 40s ribosomal protein s17 (15 kDa, Protein from Human)
- 60s ribosomal protein l13a (23 kDa, Protein from Human)
- 60s ribosomal protein l35a (12 kDa, Protein from Human)
- 40s ribosomal protein s30 (6 kDa, Protein from Human)
- 60s ribosomal protein l35 (14 kDa, Protein from Human)
- Water (18 Da, Ligand)
- 60s ribosomal protein l3 (46 kDa, Protein from Human)
- 40s ribosomal protein s3a (30 kDa, Protein from Human)
- 60s ribosomal protein l18 (21 kDa, Protein from Human)
- 60s ribosomal protein l18a (20 kDa, Protein from Human)
- 40s ribosomal protein s2 (31 kDa, Protein from Human)
- 60s ribosomal protein l37 (11 kDa, Protein from Human)
- 40s ribosomal protein s14 (16 kDa, Protein from Human)
- Receptor of activated protein c kinase 1 (35 kDa, Protein from Human)
- 40s ribosomal protein s28 (7 kDa, Protein from Human)
- 40s ribosomal protein s7 (22 kDa, Protein from Human)
- Human initiator met-trna-i (24 kDa, RNA from Human)
- 60s ribosomal protein l7a (30 kDa, Protein from Human)
- 40s ribosomal protein s21 (9 kDa, Protein from Human)
- 60s ribosomal protein l34 (13 kDa, Protein from Human)
- Hygromycin b (527 Da, Ligand)
- 40s ribosomal protein s9 (22 kDa, Protein from Human)
- 40s ribosomal protein s8 (24 kDa, Protein from Human)
High-resolution cryo-EM structure of the human 80S ribosome
Natchiar SK, Myasnikov AG, Kratzat H, Hazemann I, Klaholz BP
Nature (2017) 551 pp. 472-477 [ Pubmed: 29143818 DOI: doi:10.1038/nature24482 ]
- 80s ribosome (4 MDa, Complex from Homo sapiens)
High-resolution cryo-EM structure of the human 80S ribosome
Natchiar SK, Myasnikov AG, Kratzat H, Hazemann I, Klaholz BP
Nature (2017) 551 pp. 472-477 [ DOI: doi:10.1038/nature24482 Pubmed: 29143818 ]
- 80s ribosome with ligand hht and hyg (4 MDa, Complex from Homo sapiens)
High-resolution cryo-EM structure of the human 80S ribosome
Natchiar SK, Myasnikov AG, Kratzat H, Hazemann I, Klaholz BP
Nature (2017) 551 pp. 472-477 [ DOI: doi:10.1038/nature24482 Pubmed: 29143818 ]
- 80s ribosome with ligand hht and hyg (4 MDa, Complex from Homo sapiens)
High-resolution cryo-EM structure of the human 80S ribosome
Natchiar SK, Myasnikov AG, Kratzat H, Hazemann I, Klaholz BP
Nature (2017) 551 pp. 472-477 [ Pubmed: 29143818 DOI: doi:10.1038/nature24482 ]
- 80s ribosome with ligand hht and hyg (4 MDa, Complex from Homo sapiens)
Electron cryo-microscopy of Grapevine Fanleaf Virus complex with Nanobody
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 5foj
Q-score: 0.45
Hemmer C, Orlov I, Ackerer L, Marmonier A, Hleibieh K, Schmitt-Keichinger C, Vigne E, Gersch S, Komar V, Belval L, Berthold F, Monsion B, Bron P, Lemaire O, Lorber B, Sgro JY, Gutierrez C, Muyldermans S, Demangeat G, Klaholz BP, Ritzenthaler C
To Be Published