Cryo-EM structure of chitin synthase
Resolution: 2.94 Å
EM Method: Single-particle
Fitted PDBs: 8k52
Q-score: 0.456
Niu S, Qi L, Zhang X, He D, Li P, Wang H, Bi Y
Int J Mol Sci (2024) 25 [ Pubmed: 39519219 DOI: doi:10.3390/ijms252111667 ]
- Uridine-5'-diphosphate (404 Da, Ligand)
- Chitin synthase (104 kDa, Protein from Phytophthora sojae strain P6497)
- Manganese (ii) ion (54 Da, Ligand)
- A membrane-integrated glycosyltransferase that transfers glcnac from udp-glcnac to a growing chitin chain (103 MDa, Complex from Phytophthora sojae)
Cryo-EM structure of human testis-specific Na+,K+-ATPase alpha4 in ouabain-bound form
Resolution: 2.37 Å
EM Method: Single-particle
Fitted PDBs: 8zyj
Q-score: 0.639
Abe K, McDermott J, Valia Madapally H, Marimuthu P, Gopalasingam CC, Gerle C, Shigematsu H, Khandelia H, Blanco G
Int J Mol Sci (2024) 25 [ DOI: doi:10.3390/ijms252212397 Pubmed: 39596464 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sodium/potassium-transporting atpase subunit alpha-4 (108 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
- 1,2-dioleoyl-sn-glycero-3-phosphocholine (787 Da, Ligand)
- Sodium ion (22 Da, Ligand)
- 2-{[(4-o-alpha-d-glucopyranosyl-alpha-d-glucopyranosyl)oxy]methyl}-4-{[(3beta,9beta,14beta,17beta,25r)-spirost-5-en-3-yl]oxy}butyl 4-o-alpha-d-glucopyranosyl-alpha-d-glucopyranoside (1 kDa, Ligand)
- Magnesium ion (24 Da, Ligand)
- Sodium/potassium-transporting atpase subunit beta-1 (35 kDa, Protein from Homo sapiens)
- Ouabain (584 Da, Ligand)
- Cholesterol (386 Da, Ligand)
- Alpha4-beta1 heterodimer (135 MDa, Complex from Homo sapiens)
A designed tetrahedral protein scaffold - DARP14
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 8vdz
Q-score: 0.626
Int J Mol Sci (2024) 25 [ Pubmed: 38891853 DOI: doi:10.3390/ijms25115665 ]
- Subunit b (12 kDa, Protein from synthetic construct)
- Subunit b in a designed protein scaffold called darp14 (Complex from synthetic construct)
- Subunit a (15 kDa, Protein from synthetic construct)
- A12b12 tetrahedral complex of a designed protein scaffold called darp14 (Complex from synthetic construct)
- Subunit a in a designed protein scaffold called darp14 (Complex from synthetic construct)
TehA from Haemophilus influenzae purified in GDN
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8vi3
Q-score: 0.574
Tran NL, Senko S, Lucier KW, Farwell AC, Silva SM, Dip PV, Poweleit N, Scapin G, Catalano C
Int J Mol Sci (2024) 25 [ DOI: doi:10.3390/ijms25084528 Pubmed: 38674110 ]
- Tellurite resistance protein teha (108 kDa, Complex from Haemophilus influenzae)
- Tellurite resistance protein teha homolog (35 kDa, Protein from Haemophilus influenzae)
Cryo-EM structure of a Staphylococus aureus 30S-RbfA complex
Resolution: 2.89 Å
EM Method: Single-particle
Fitted PDBs: 8byv
Q-score: 0.383
Bikmullin AG, Fatkhullin B, Stetsenko A, Gabdulkhakov A, Garaeva N, Nurullina L, Klochkova E, Golubev A, Khusainov I, Trachtmann N, Blokhin D, Guskov A, Validov S, Usachev K, Yusupov M
Int J Mol Sci (2023) 24 [ Pubmed: 36768442 DOI: doi:10.3390/ijms24032118 ]
- 30s ribosomal protein s20 (9 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
- 30s ribosomal protein s9 (14 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
- 30s ribosomal protein s2 (29 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
- 30s small ribosomal subunit with ribosome binding factor a (Complex)
- 30s ribosomal protein s16 (10 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
- 30s ribosomal protein s18 (9 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
- Ribosome-binding factor a (13 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
- 30s ribosomal protein s13 (13 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
- Ribosome-binding factor a (Complex from Staphylococcus aureus subsp. aureus NCTC 8325)
- 30s ribosomal protein s11 (13 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
- 30s ribosomal protein s7 (17 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
- 30s ribosomal protein s19 (10 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
- 30s ribosomal protein s10 (11 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
- 30s ribosomal protein s5 (17 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
- 30s ribosomal protein s6 (11 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
- 30s ribosomal protein s8 (14 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
- 30s ribosomal protein s17 (10 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
- 30s ribosomal protein s4 (23 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
- 30s small ribosomal subunit (Complex from Staphylococcus aureus subsp. aureus NCTC 8325)
- 16s ribosomal rna (500 kDa, RNA from Staphylococcus aureus subsp. aureus NCTC 8325)
- 30s ribosomal protein s14 type z (7 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
- 30s ribosomal protein s3 (24 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
- 30s ribosomal protein s12 (15 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
- 30s ribosomal protein s15 (10 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
CryoEM structure of wheat 40S ribosomal subunit, head domain
Resolution: 2.55 Å
EM Method: Single-particle
Fitted PDBs: 8r57
Q-score: 0.58
Kravchenko OV, Baymukhametov TN, Afonina ZA, Vassilenko KS
Int J Mol Sci (2023) 24 [ Pubmed: 38139282 DOI: doi:10.3390/ijms242417453 ]
- 40s ribosomal protein s3 (25 kDa, Protein from Triticum aestivum)
- Putative ribosomal protein s18 (17 kDa, Protein from Triticum aestivum)
- Small ribosomal subunit from triticum aestivum (common wheat) (Complex from Triticum aestivum)
- 40s ribosomal protein s25 (12 kDa, Protein from Triticum aestivum)
- Potassium ion (39 Da, Ligand)
- 40s ribosomal protein s12 (15 kDa, Protein from Triticum aestivum)
- Water (18 Da, Ligand)
- 40s ribosomal protein s17 (16 kDa, Protein from Triticum aestivum)
- Ribosomal protein rack1 subfamily. wd repeat g protein beta family (36 kDa, Protein from Triticum aestivum)
- Plectin/es10 n-terminal domain-containing protein (20 kDa, Protein from Triticum aestivum)
- Small ribosomal subunit protein us14 (6 kDa, Protein from Triticum aestivum)
- 40s ribosomal protein s15 (17 kDa, Protein from Triticum aestivum)
- Magnesium ion (24 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Ubiquitin-like domain-containing protein (17 kDa, Protein from Triticum aestivum)
- Ribosomal protein s20 (14 kDa, Protein from Triticum aestivum)
- Rna (458-mer) (584 kDa, RNA from Triticum aestivum)
- Small ribosomal subunit protein us7c (22 kDa, Protein from Triticum aestivum)
- 40s ribosomal protein s19 (17 kDa, Protein from Triticum aestivum)
- 40s ribosomal protein s28 (7 kDa, Protein from Triticum aestivum)
- 40s ribosomal protein s16 (16 kDa, Protein from Triticum aestivum)
CryoEM structure of wheat 40S ribosomal subunit, body domain
Resolution: 2.34 Å
EM Method: Single-particle
Fitted PDBs: 8r6f
Q-score: 0.6
Kravchenko OV, Baymukhametov TN, Afonina ZA, Vassilenko KS
Int J Mol Sci (2023) 24 [ Pubmed: 38139282 DOI: doi:10.3390/ijms242417453 ]
- 40s ribosomal protein s6 (28 kDa, Protein from Triticum aestivum)
- S5 drbm domain-containing protein (30 kDa, Protein from Triticum aestivum)
- 30s ribosomal protein s11, chloroplastic (16 kDa, Protein from Triticum aestivum)
- 40s ribosomal protein s7 (22 kDa, Protein from Triticum aestivum)
- 40s ribosomal protein s30 (6 kDa, Protein from Triticum aestivum)
- Small ribosomal subunit protein es1 (30 kDa, Protein from Triticum aestivum)
- 40s ribosomal protein s23 (15 kDa, Protein from Triticum aestivum)
- 40s ribosomal protein s24 (15 kDa, Protein from Triticum aestivum)
- 40s ribosomal protein s26 (15 kDa, Protein from Triticum aestivum)
- Potassium ion (39 Da, Ligand)
- Small ribosomal subunit protein us15 n-terminal domain-containing protein (17 kDa, Protein from Triticum aestivum)
- 30s ribosomal protein s4, chloroplastic (22 kDa, Protein from Triticum aestivum)
- Water (18 Da, Ligand)
- Rna (1177-mer) (584 kDa, RNA from Triticum aestivum)
- 40s ribosomal protein s17 (16 kDa, Protein from Triticum aestivum)
- Small ribosomal subunit protein us2 (33 kDa, Protein from Triticum aestivum)
- 40s ribosomal protein s8 (25 kDa, Protein from Triticum aestivum)
- Small ribosomal subunit from triticum aestivum (common wheat) (Complex from Triticum aestivum)
- Small ribosomal subunit protein us17 n-terminal domain-containing protein (17 kDa, Protein from Triticum aestivum)
- Genome assembly, chromosome: ii (8 kDa, Protein from Triticum aestivum)
- Magnesium ion (24 Da, Ligand)
- Small ribosomal subunit protein us8c (14 kDa, Protein from Triticum aestivum)
- Large ribosomal subunit protein el41z/el41y/el41x/el41w/el41v (3 kDa, Protein from Triticum aestivum)
- 40s ribosomal protein s4 (30 kDa, Protein from Triticum aestivum)
- Zinc ion (65 Da, Ligand)
- 40s ribosomal protein s27 (9 kDa, Protein from Triticum aestivum)
SsoMCM hexamer bound to Mg/ADP-BeFx and 12-mer oligo-dT. Class 1
Resolution: 2.62 Å
EM Method: Single-particle
Fitted PDBs: 8eaf
Q-score: 0.497
Meagher M, Myasnikov A, Enemark EJ
Int J Mol Sci (2022) 23 [ Pubmed: 36499022 DOI: doi:10.3390/ijms232314678 ]
- [[[(2r,3s,4r,5r)-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-oxidanyl-phosphoryl]oxy-tris(fluoranyl)beryllium (492 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Ssomcm hexamer bound to mg/adp-befx and 12-mer oligo-dt. class 1. (Complex from Saccharolobus solfataricus P2)
- 12-mer oligo dt (3 kDa, DNA from synthetic construct)
- Minichromosome maintenance protein mcm (68 kDa, Protein from Saccharolobus solfataricus P2)
- Magnesium ion (24 Da, Ligand)
- Water (18 Da, Ligand)
SsoMCM hexamer bound to Mg/ADP-BeFx and 16-mer oligo-dT. Class 1
Resolution: 2.48 Å
EM Method: Single-particle
Fitted PDBs: 8eah
Q-score: 0.509
Meagher M, Myasnikov A, Enemark EJ
Int J Mol Sci (2022) 23 [ Pubmed: 36499022 DOI: doi:10.3390/ijms232314678 ]
- [[[(2r,3s,4r,5r)-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-oxidanyl-phosphoryl]oxy-tris(fluoranyl)beryllium (492 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- 16-mer oligo-dt (4 kDa, DNA from synthetic construct)
- Minichromosome maintenance protein mcm (68 kDa, Protein from Saccharolobus solfataricus P2)
- Magnesium ion (24 Da, Ligand)
- Water (18 Da, Ligand)
- Ssomcm hexamer bound to mg/adp-befx and 16-mer oligo-dt class 1 (Complex from Saccharolobus solfataricus P2)
SsoMCM hexamer bound to Mg/ADP-BeFx and 16-mer oligo-dT. Class 2
Resolution: 2.76 Å
EM Method: Single-particle
Fitted PDBs: 8eai
Q-score: 0.465
Meagher M, Myasnikov A, Enemark EJ
Int J Mol Sci (2022) 23 [ Pubmed: 36499022 DOI: doi:10.3390/ijms232314678 ]
- [[[(2r,3s,4r,5r)-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-oxidanyl-phosphoryl]oxy-tris(fluoranyl)beryllium (492 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Mcm hexamer bound to mg/adp-befx and 16-mer oligo-dt. class 2 (Complex from Saccharolobus solfataricus P2)
- 16-mer oligo-dt (4 kDa, DNA from synthetic construct)
- Minichromosome maintenance protein mcm (68 kDa, Protein from Saccharolobus solfataricus P2)
- Magnesium ion (24 Da, Ligand)
- Water (18 Da, Ligand)