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
- ~{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)
- Magnesium ion (24 Da, Ligand)
- Mutsbeta in complex with the mismatched dna and compound (Complex)
- Double stranded dna (Complex from Homo sapiens)
- Dna mismatch repair protein msh2 (104 kDa, Protein from Homo sapiens)
- Dna_61bp_cag2_loop_fwd (20 kDa, DNA from Homo sapiens)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Mutsbeta (Complex from Homo sapiens)
- Dna mismatch repair protein msh3 (127 kDa, Protein from Homo sapiens)
- Sulfate ion (96 Da, Ligand)
- Dna_61bp_complement_rev (18 kDa, DNA from Homo sapiens)
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 [ DOI: doi:10.1016/j.celrep.2024.114518 Pubmed: 39028623 ]
- Envelope glycoprotein gp120 (53 kDa, Protein from Human immunodeficiency virus 1)
- 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)
- Pgt122 light chain (11 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sulfate ion (96 Da, Ligand)
- Envelope glycoprotein gp41 (17 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 [ DOI: doi:10.1016/j.jbc.2023.102884 Pubmed: 36626983 ]
- 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)
- 1 atp-bound v1eg of v/a-atpase from thermus thermophilus (600 kDa, Complex from Thermus thermophilus HB8)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- 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)
- V-type atp synthase subunit e (20 kDa, Protein from Thermus thermophilus HB8)
- V-type atp synthase subunit f (11 kDa, Protein from Thermus thermophilus HB8)
- Sulfate ion (96 Da, Ligand)
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 [ DOI: doi:10.1016/j.jbc.2023.102884 Pubmed: 36626983 ]
- V-type atp synthase subunit d (24 kDa, Protein from Thermus thermophilus HB8)
- Magnesium ion (24 Da, Ligand)
- V-type atp synthase beta chain (53 kDa, Protein from Thermus thermophilus HB8)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- 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)
- V-type atp synthase subunit e (20 kDa, Protein from Thermus thermophilus HB8)
- 2 atp-bound v1eg of v/a-atpase from thermus thermophilus (600 kDa, Complex from Thermus thermophilus HB8)
- V-type atp synthase subunit f (11 kDa, Protein from Thermus thermophilus HB8)
- Sulfate ion (96 Da, Ligand)
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 [ DOI: doi:10.1016/j.jbc.2023.102884 Pubmed: 36626983 ]
- 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 (vapc-therm) (13 kDa, Protein from Thermus thermophilus HB8)
- V-type atp synthase alpha chain (63 kDa, Protein from Thermus thermophilus HB8)
- V-type atp synthase subunit e (20 kDa, Protein from Thermus thermophilus HB8)
- V-type atp synthase subunit f (11 kDa, Protein from Thermus thermophilus HB8)
- Sulfate ion (96 Da, Ligand)
- 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 [ DOI: doi:10.1016/j.jbc.2023.102884 Pubmed: 36626983 ]
- V-type atp synthase subunit d (24 kDa, Protein from Thermus thermophilus HB8)
- Magnesium ion (24 Da, Ligand)
- V-type atp synthase beta chain (53 kDa, Protein from Thermus thermophilus HB8)
- 1 sulfate and 1 atp bound v1eg of v/a-atpase from thermus thermophilus (600 kDa, Complex from Thermus thermophilus HB8)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- 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)
- V-type atp synthase subunit e (20 kDa, Protein from Thermus thermophilus HB8)
- V-type atp synthase subunit f (11 kDa, Protein from Thermus thermophilus HB8)
- Sulfate ion (96 Da, Ligand)
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 [ DOI: doi:10.1038/s41586-018-0014-5 Pubmed: 29618818 ]
- 15-cis-1,2-dihydroneurosporene (540 Da, Ligand)
- Light-harvesting protein b-1015 gamma chain (2 kDa, Protein from Rhodopseudomonas viridis)
- Bacteriochlorophyll b (909 Da, Ligand)
- Reaction centre-light harvesting complex 1 (rc-lh1) (414 kDa, Complex from Blastochloris viridis)
- Light-harvesting protein b-1015 beta chain (6 kDa, Protein from Rhodopseudomonas viridis)
- Ubiquinone-9 (795 Da, Ligand)
- Lauryl dimethylamine-n-oxide (229 Da, Ligand)
- Fe (iii) ion (55 Da, Ligand)
- Sulfate ion (96 Da, Ligand)
- Photosynthetic reaction center cytochrome c subunit (37 kDa, Protein from Rhodopseudomonas viridis)
- Menaquinone-9 (785 Da, Ligand)
- All-trans-1,2-dihydroneurosporene (540 Da, Ligand)
- Reaction center protein h chain (28 kDa, Protein from Rhodopseudomonas viridis)
- Reaction center protein l chain (30 kDa, Protein from Rhodopseudomonas viridis)
- Reaction center protein m chain (35 kDa, Protein from Rhodopseudomonas viridis)
- Light-harvesting protein b-1015 alpha chain (6 kDa, Protein from Rhodopseudomonas viridis)
- Bacteriopheophytin b (887 Da, Ligand)
- Protoporphyrin ix containing fe (616 Da, Ligand)