MutSbeta bound to compound CHDI-00898647 in the canonical DNA-mismatch bound form
Resolution: 3.12 Å
EM Method: Single-particle
Fitted PDBs: 8r7v
Q-score: 0.381
To Be Published
- Dna mismatch repair protein msh2 (104 kDa, Protein from Homo sapiens)
- Dna_61bp_complement_rev (18 kDa, DNA from Homo sapiens)
- ~{n}-[3-[[2-[[3-fluoranyl-4-(4-methylpiperazin-1-yl)phenyl]amino]-7~{h}-pyrrolo[2,3-d]pyrimidin-4-yl]oxy]phenyl]prop-2-enamide (487 Da, Ligand)
- Mutsbeta in complex with the mismatched dna and compound (Complex)
- Magnesium ion (24 Da, Ligand)
- Mutsbeta (Complex from Homo sapiens)
- Sulfate ion (96 Da, Ligand)
- Dna mismatch repair protein msh3 (127 kDa, Protein from Homo sapiens)
- Dna_61bp_cag2_loop_fwd (20 kDa, DNA from Homo sapiens)
- Double stranded dna (Complex from Homo sapiens)
- Adenosine-5'-diphosphate (427 Da, Ligand)
Cryo-EM structure of the HIV-1 JR-FL IDL Env trimer in complex with PGT122 Fab
Resolution: 4.1 Å
EM Method: Single-particle
Fitted PDBs: 9ber
Q-score: 0.327
Zhang P, Gorman J, Tsybovsky Y, Lu M, Liu Q, Gopan V, Singh M, Lin Y, Miao H, Seo Y, Kwon A, Olia AS, Chuang GY, Geng H, Lai YT, Zhou T, Mascola JR, Mothes W, Kwong PD, Lusso P
Cell Rep (2024) 43 pp. 114518-114518 [ Pubmed: 39028623 DOI: doi:10.1016/j.celrep.2024.114518 ]
- Pgt122 light chain (11 kDa, Protein from Homo sapiens)
- Cryo-em structure of the hiv-1 jr-fl idl env trimer in complex with pgt122 fab (Complex from Human immunodeficiency virus 1)
- Pgt122 heavy chain (14 kDa, Protein from Homo sapiens)
- Sulfate ion (96 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Envelope glycoprotein gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- Envelope glycoprotein gp120 (53 kDa, Protein from Human immunodeficiency virus 1)
1 ATP-bound V1EG of V/A-ATPase from Thermus thermophilus
Resolution: 2.5 Å
EM Method: Single-particle
Fitted PDBs: 8gxu
Q-score: 0.582
Nakanishi A, Kishikawa JI, Mitsuoka K, Yokoyama K
J Biol Chem (2023) 299 pp. 102884-102884 [ Pubmed: 36626983 DOI: doi:10.1016/j.jbc.2023.102884 ]
- V-type atp synthase subunit d (24 kDa, Protein from Thermus thermophilus HB8)
- V-type atp synthase beta chain (53 kDa, Protein from Thermus thermophilus HB8)
- V-type atp synthase subunit f (11 kDa, Protein from Thermus thermophilus HB8)
- 1 atp-bound v1eg of v/a-atpase from thermus thermophilus (600 kDa, Complex from Thermus thermophilus HB8)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Sulfate ion (96 Da, Ligand)
- V-type atp synthase subunit e (20 kDa, Protein from Thermus thermophilus HB8)
- V-type atp synthase, subunit (vapc-therm) (13 kDa, Protein from Thermus thermophilus HB8)
- V-type atp synthase alpha chain (63 kDa, Protein from Thermus thermophilus HB8)
2 ATP-bound V1EG of V/A-ATPase from Thermus thermophilus
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 8gxw
Q-score: 0.539
Nakanishi A, Kishikawa JI, Mitsuoka K, Yokoyama K
J Biol Chem (2023) 299 pp. 102884-102884 [ Pubmed: 36626983 DOI: doi:10.1016/j.jbc.2023.102884 ]
- V-type atp synthase subunit d (24 kDa, Protein from Thermus thermophilus HB8)
- V-type atp synthase beta chain (53 kDa, Protein from Thermus thermophilus HB8)
- V-type atp synthase subunit f (11 kDa, Protein from Thermus thermophilus HB8)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- 2 atp-bound v1eg of v/a-atpase from thermus thermophilus (600 kDa, Complex from Thermus thermophilus HB8)
- Sulfate ion (96 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- V-type atp synthase subunit e (20 kDa, Protein from Thermus thermophilus HB8)
- V-type atp synthase, subunit (vapc-therm) (13 kDa, Protein from Thermus thermophilus HB8)
- V-type atp synthase alpha chain (63 kDa, Protein from Thermus thermophilus HB8)
2 sulfate-bound V1EG of V/A-ATPase from Thermus thermophilus.
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 8gxy
Q-score: 0.56
Nakanishi A, Kishikawa JI, Mitsuoka K, Yokoyama K
J Biol Chem (2023) 299 pp. 102884-102884 [ Pubmed: 36626983 DOI: doi:10.1016/j.jbc.2023.102884 ]
- V-type atp synthase subunit d (24 kDa, Protein from Thermus thermophilus HB8)
- V-type atp synthase beta chain (53 kDa, Protein from Thermus thermophilus HB8)
- V-type atp synthase subunit f (11 kDa, Protein from Thermus thermophilus HB8)
- Sulfate ion (96 Da, Ligand)
- V-type atp synthase subunit e (20 kDa, Protein from Thermus thermophilus HB8)
- V-type atp synthase, subunit (vapc-therm) (13 kDa, Protein from Thermus thermophilus HB8)
- V-type atp synthase alpha chain (63 kDa, Protein from Thermus thermophilus HB8)
- 2 sulfate-bound v1eg of v/a-atpase from thermus thermophilus. (600 kDa, Complex from Thermus thermophilus HB8)
1 sulfate and 1 ATP bound V1EG of V/A-ATPase from Thermus thermophilus.
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 8gxz
Q-score: 0.488
Nakanishi A, Kishikawa JI, Mitsuoka K, Yokoyama K
J Biol Chem (2023) 299 pp. 102884-102884 [ Pubmed: 36626983 DOI: doi:10.1016/j.jbc.2023.102884 ]
- 1 sulfate and 1 atp bound v1eg of v/a-atpase from thermus thermophilus (600 kDa, Complex from Thermus thermophilus HB8)
- V-type atp synthase subunit d (24 kDa, Protein from Thermus thermophilus HB8)
- V-type atp synthase beta chain (53 kDa, Protein from Thermus thermophilus HB8)
- V-type atp synthase subunit f (11 kDa, Protein from Thermus thermophilus HB8)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Sulfate ion (96 Da, Ligand)
- V-type atp synthase subunit e (20 kDa, Protein from Thermus thermophilus HB8)
- V-type atp synthase, subunit (vapc-therm) (13 kDa, Protein from Thermus thermophilus HB8)
- V-type atp synthase alpha chain (63 kDa, Protein from Thermus thermophilus HB8)
Reaction centre light harvesting complex 1 from Blc. virids
Resolution: 2.87 Å
EM Method: Single-particle
Fitted PDBs: 6et5
Q-score: 0.469
Qian P, Siebert CA, Wang P, Canniffe DP, Hunter CN
Nature (2018) 556 pp. 203-208 [ Pubmed: 29618818 DOI: doi:10.1038/s41586-018-0014-5 ]
- Fe (iii) ion (55 Da, Ligand)
- 15-cis-1,2-dihydroneurosporene (540 Da, Ligand)
- Sulfate ion (96 Da, Ligand)
- Bacteriochlorophyll b (909 Da, Ligand)
- Reaction centre-light harvesting complex 1 (rc-lh1) (414 kDa, Complex from Blastochloris viridis)
- Reaction center protein l chain (30 kDa, Protein from Rhodopseudomonas viridis)
- Reaction center protein m chain (35 kDa, Protein from Rhodopseudomonas viridis)
- Ubiquinone-9 (795 Da, Ligand)
- Bacteriopheophytin b (887 Da, Ligand)
- Light-harvesting protein b-1015 beta chain (6 kDa, Protein from Rhodopseudomonas viridis)
- Lauryl dimethylamine-n-oxide (229 Da, Ligand)
- Menaquinone-9 (785 Da, Ligand)
- Light-harvesting protein b-1015 gamma chain (2 kDa, Protein from Rhodopseudomonas viridis)
- Photosynthetic reaction center cytochrome c subunit (37 kDa, Protein from Rhodopseudomonas viridis)
- All-trans-1,2-dihydroneurosporene (540 Da, Ligand)
- Light-harvesting protein b-1015 alpha chain (6 kDa, Protein from Rhodopseudomonas viridis)
- Reaction center protein h chain (28 kDa, Protein from Rhodopseudomonas viridis)
- Protoporphyrin ix containing fe (616 Da, Ligand)