Resolution: 3.43 Å
EM Method: Single-particle
Fitted PDBs: 7ram
Q-score: 0.452
Liu J, Vanarsdall A, Chen DH, Chin A, Johnson D, Jardetzky TS
Mbio (2021) 12 pp. e0262521-e0262521 [ Pubmed: 34700375 DOI: doi:10.1128/mBio.02625-21 ]
- Hcmv trimer in complex with receptor pdgfralpha (Complex from Human herpesvirus 5 strain AD169)
- Platelet-derived growth factor receptor alpha (59 kDa, Protein from Homo sapiens)
- Human platelet-derived growth factor receptor alpha extracellular domain (Complex from Homo sapiens)
- Envelope glycoprotein l (27 kDa, Protein from Human herpesvirus 5 strain AD169)
- Envelope glycoprotein o (53 kDa, Protein from Human betaherpesvirus 5)
- Envelope glycoprotein h (80 kDa, Protein from Human herpesvirus 5 strain AD169)
Structure of HIV-1 reverse transcriptase initiation complex core
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 7kjv
Q-score: 0.564
Ha B, Larsen KP, Zhang J, Fu Z, Montabana E, Jackson LN, Chen DH, Puglisi EV
Nat Commun (2021) 12 pp. 2500-2500 [ Pubmed: 33947853 DOI: doi:10.1038/s41467-021-22628-9 ]
- Magnesium ion (24 Da, Ligand)
- Hiv-1 reverse transcriptase initiation complex core (138 kDa, Complex from Human immunodeficiency virus 1)
- Trna lysine 3 fragment with gnra tetraloop (12 kDa, Macromolecule from Homo sapiens)
- Octyl beta-d-glucopyranoside (292 Da, Ligand)
- Reverse transcriptase p51 subunit (51 kDa, Protein from Human immunodeficiency virus 1)
- Reverse transcriptase/ribonuclease h (64 kDa, Protein from Human immunodeficiency virus type 1 group M subtype B (isolate BH10))
- Hiv-1 viral rna fragment (8 kDa, RNA from Human immunodeficiency virus 1)
Structure of HIV-1 reverse transcriptase initiation complex core with efavirenz
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 7kjw
Q-score: 0.55
Ha B, Larsen KP, Zhang J, Fu Z, Montabana E, Jackson LN, Chen DH, Puglisi EV
Nat Commun (2021) 12 pp. 2500-2500 [ Pubmed: 33947853 DOI: doi:10.1038/s41467-021-22628-9 ]
- Magnesium ion (24 Da, Ligand)
- (-)-6-chloro-4-cyclopropylethynyl-4-trifluoromethyl-1,4-dihydro-2h-3,1-benzoxazin-2-one (315 Da, Ligand)
- Trna lysine 3 fragment with gnra tetraloop (12 kDa, Macromolecule from Homo sapiens)
- Reverse transcriptase p51 subunit (51 kDa, Protein from Human immunodeficiency virus 1)
- Hiv-1 reverse transcriptase initiation complex core with efavirenz (138 kDa, Complex from Human immunodeficiency virus 1)
- Reverse transcriptase/ribonuclease h (64 kDa, Protein from Human immunodeficiency virus type 1 group M subtype B (isolate BH10))
- Hiv-1 viral rna fragment (8 kDa, RNA from Human immunodeficiency virus 1)
Structure of HIV-1 reverse transcriptase initiation complex core with nevirapine
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 7kjx
Q-score: 0.515
Ha B, Larsen KP, Zhang J, Fu Z, Montabana E, Jackson LN, Chen DH, Puglisi EV
Nat Commun (2021) 12 pp. 2500-2500 [ Pubmed: 33947853 DOI: doi:10.1038/s41467-021-22628-9 ]
- Magnesium ion (24 Da, Ligand)
- Reverse transcriptase p51 subunit (51 kDa, Protein from Human immunodeficiency virus 1)
- 11-cyclopropyl-5,11-dihydro-4-methyl-6h-dipyrido[3,2-b:2',3'-e][1,4]diazepin-6-one (266 Da, Ligand)
- Reverse transcriptase/ribonuclease h (64 kDa, Protein from Human immunodeficiency virus type 1 group M subtype B (isolate BH10))
- Hiv-1 viral rna fragment (8 kDa, RNA from Human immunodeficiency virus 1)
- Trna lysine 3 fragment with gnra tetraloop (7 kDa, Macromolecule from Homo sapiens)
- Hiv-1 reverse transcriptase initiation complex core with nevirapine (138 kDa, Complex from Human immunodeficiency virus 1)
Head-Middle module of Mediator
Resolution: 4.2 Å
EM Method: Single-particle
Fitted PDBs: 6xp5
Q-score: 0.337
Zhang H, Chen DH, Mattoo RUH, Bushnell DA, Wang Y, Yuan C, Wang L, Wang C, Davis RE, Nie Y, Kornberg RD
Mol Cell (2021) 81 pp. 1781-1788.e4 [ DOI: doi:10.1016/j.molcel.2021.01.022 Pubmed: 33571424 ]
- Mediator of rna polymerase ii transcription subunit 4 (37 kDa, Protein from Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719))
- Mediator of rna polymerase ii transcription subunit 11 (25 kDa, Protein from Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719))
- Heat (17 kDa, Protein from Chaetomium thermophilum)
- Mediator of rna polymerase ii transcription subunit 9 (18 kDa, Protein from Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719))
- Mediator of rna polymerase ii transcription subunit 7 (27 kDa, Protein from Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719))
- Mediator of rna polymerase ii transcription subunit 8 (32 kDa, Protein from Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719))
- Mediator of rna polymerase ii transcription subunit 1 (81 kDa, Protein from Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719))
- Head-middle module of mediator (Complex from Chaetomium thermophilum)
- Mediator of rna polymerase ii transcription subunit 31 (14 kDa, Protein from Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719))
- Mediator of rna polymerase ii transcription subunit 21 (15 kDa, Protein from Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719))
- Mediator of rna polymerase ii transcription subunit 17 (69 kDa, Protein from Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719))
- Mediator of rna polymerase ii transcription subunit 18 (38 kDa, Protein from Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719))
- Mediator of rna polymerase ii transcription subunit 14 (133 kDa, Protein from Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719))
- Med22 (18 kDa, Protein from Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719))
- Mediator of rna polymerase ii transcription subunit 6 (36 kDa, Protein from Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719))
- Unknown peptide (1 kDa, Protein from Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719))
Resolution: 3.58 Å
EM Method: Single-particle
Fitted PDBs: 7jmn
Q-score: 0.466
Zhang H, Chen DH, Mattoo RUH, Bushnell DA, Wang Y, Yuan C, Wang L, Wang C, Davis RE, Nie Y, Kornberg RD
Mol Cell (2021) 81 pp. 1781-1788.e4 [ DOI: doi:10.1016/j.molcel.2021.01.022 Pubmed: 33571424 ]
- Unknown peptide (4 kDa, Protein from Chaetomium thermophilum var. thermophilum DSM 1495)
- Mediator of rna polymerase ii transcription subunit 5 (118 kDa, Protein from Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719))
- Mediator of rna polymerase ii transcription subunit 16 (123 kDa, Protein from Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719))
- T module complex (Complex from Chaetomium thermophilum var. thermophilum DSM 1495)
- Mediator of rna polymerase ii transcription subunit 14 (133 kDa, Protein from Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719))
- Med15 (175 kDa, Protein from Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719))
The N-terminus of varicella-zoster virus glycoprotein B has a functional role in fusion.
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 7k1s
Q-score: 0.394
Oliver SL, Xing Y, Chen DH, Roh SH, Pintilie GD, Bushnell DA, Sommer MH, Yang E, Carfi A, Chiu W, Arvin AM
PLoS Pathog (2021) 17 pp. e1008961-e1008961 [ DOI: doi:10.1371/journal.ppat.1008961 Pubmed: 33411789 ]
+1 extended HIV-1 reverse transcriptase initiation complex core (pre-translocation state)
Resolution: 4.1 Å
EM Method: Single-particle
Fitted PDBs: 6waz
Q-score: 0.387
Larsen KP, Choi J, Jackson LN, Kappel K, Zhang J, Ha B, Chen DH, Puglisi EV
J Mol Biol (2020) 432 pp. 4499-4522 [ Pubmed: 32512005 DOI: doi:10.1016/j.jmb.2020.06.003 ]
- Trna lysine 3 (24 kDa, Macromolecule from Homo sapiens)
- Reverse transcriptase/ribonuclease h (64 kDa, Protein from Human immunodeficiency virus 1)
- Hiv-1 reverse transcriptase (Complex from Human immunodeficiency virus 1)
- Trna lysine 3 (Complex from Homo sapiens)
- +1 extended hiv-1 reverse transcriptase initiation complex core (25 kDa, Complex from Human immunodeficiency virus 1)
- Reverse transcriptase p51 subunit (51 kDa, Protein from Human immunodeficiency virus 1)
- Hiv-1 viral rna genome fragment (32 kDa, RNA from Human immunodeficiency virus 1)
- Hiv-1 rna genome fragment (Complex from Human immunodeficiency virus 1)
+3 extended HIV-1 reverse transcriptase initiation complex core (intermediate state)
Resolution: 4.7 Å
EM Method: Single-particle
Fitted PDBs: 6wb1
Q-score: 0.304
Larsen KP, Choi J, Jackson LN, Kappel K, Zhang J, Ha B, Chen DH, Puglisi EV
J Mol Biol (2020) 432 pp. 4499-4522 [ Pubmed: 32512005 DOI: doi:10.1016/j.jmb.2020.06.003 ]
- Trna lysine 3 (25 kDa, Macromolecule from Homo sapiens)
- Hiv-1 reverse transcriptase (Complex from Human immunodeficiency virus 1)
- Trna lysine 3 (Complex from Homo sapiens)
- Reverse transcriptase/ribonuclease h (64 kDa, Protein from Human immunodeficiency virus type 1 group M subtype B (isolate BH10))
- Reverse transcriptase p51 subunit (51 kDa, Protein from Human immunodeficiency virus 1)
- +3 extended hiv-1 reverse transcriptase initiation complex core (intermediate state) (25 kDa, Complex from Human immunodeficiency virus 1)
- Hiv-1 viral rna genome fragment (32 kDa, RNA from Human immunodeficiency virus 1)
- Hiv-1 rna genome fragment (Complex from Human immunodeficiency virus 1)
Cryo-EM structure of the Dvl2 DIX filament
Resolution: 3.6 Å
EM Method: Helical reconstruction
Fitted PDBs: 6vcc
Q-score: 0.388
Kan W, Enos MD, Korkmazhan E, Muennich S, Chen DH, Gammons MV, Vasishtha M, Bienz M, Dunn AR, Skiniotis G, Weis WI
eLife (2020) 9 [ DOI: doi:10.7554/eLife.55015 Pubmed: 32297861 ]