a peptide receptor complex structure
Resolution: 2.68 Å
EM Method: Single-particle
Fitted PDBs: 8xgo
Q-score: 0.535
Wu Z, Chen G, Qiu C, Yan X, Xu L, Jiang S, Xu J, Han R, Shi T, Liu Y, Gao W, Wang Q, Li J, Ye F, Pan X, Zhang Z, Ning P, Zhang B, Chen J, Du Y
Sci Adv (2024) 10 pp. eadn7771-eadn7771 [ Pubmed: 39151001 DOI: doi:10.1126/sciadv.adn7771 ]
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Homo sapiens)
- Kiss1r (Complex)
- Scfv16 (Complex)
- Kissar-gq-scfv16 (130 kDa, Complex from Homo sapiens)
- Kiss1r,guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1,guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2,guanine nucleotide-binding protein g(q) subunit alpha (Complex)
- Kiss-1 receptor (42 kDa, Protein from Homo sapiens)
- Tak448 (1 kDa, Protein from synthetic construct)
- Guanine nucleotide-binding protein g(q) subunit alpha (41 kDa, Protein from Homo sapiens)
- Scfv16 (27 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (39 kDa, Protein from Homo sapiens)
a peptide receptor complex structure
Resolution: 2.95 Å
EM Method: Single-particle
Fitted PDBs: 8xgs
Q-score: 0.475
Wu Z, Chen G, Qiu C, Yan X, Xu L, Jiang S, Xu J, Han R, Shi T, Liu Y, Gao W, Wang Q, Li J, Ye F, Pan X, Zhang Z, Ning P, Zhang B, Chen J, Du Y
Sci Adv (2024) 10 pp. eadn7771-eadn7771 [ Pubmed: 39151001 DOI: doi:10.1126/sciadv.adn7771 ]
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Homo sapiens)
- Scfv16 (Complex from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1,guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2,guanine nucleotide-binding protein g(q) subunit alpha (Complex from Homo sapiens)
- Guanine nucleotide-binding protein g(q) subunit alpha (41 kDa, Protein from Homo sapiens)
- Kiss1r (Complex from Homo sapiens)
- Metastin (5 kDa, Protein from synthetic construct)
- Kiss-1 receptor (42 kDa, Protein from Homo sapiens)
- Kp54-kiss1r-gq-scfv16 (130 kDa, Complex from Homo sapiens)
- Scfv16 (27 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (39 kDa, Protein from Homo sapiens)
Cryo-EM structure of SARS-CoV-2 spike in complex with antibodies B1-182.1 and A19-61.1
Resolution: 2.83 Å
EM Method: Single-particle
Fitted PDBs: 7tb8
Q-score: 0.41
Zhou T, Wang L, Misasi J, Pegu A, Zhang Y, Harris DR, Olia AS, Talana CA, Yang ES, Chen M, Choe M, Shi W, Teng IT, Creanga A, Jenkins C, Leung K, Liu T, Stancofski ED, Stephens T, Zhang B, Tsybovsky Y, Graham BS, Mascola JR, Sullivan NJ, Kwong PD
Science (2022) 376 pp. eabn8897-eabn8897 [ Pubmed: 35324257 DOI: doi:10.1126/science.abn8897 ]
- The light chain of sars-cov-2 antibody b1-182.1 (11 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- The light chain of sars-cov-2 antibody a19-61.1 (11 kDa, Protein from Homo sapiens)
- The heavy chain of sars-cov-2 antibody a19-61.1 (13 kDa, Protein from Homo sapiens)
- Sars-cov-2 spike in complex with antibodies b1-182.1 and a19-61.1 (570 kDa, Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (132 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- The heavy chain of sars-cov-2 antiboddy antibody b1-182.1 (13 kDa, Protein from Homo sapiens)
Cryo-EM structure of EcmrR-RNAP-promoter open complex (EcmrR-RPo)
Resolution: 2.5 Å
EM Method: Single-particle
Fitted PDBs: 6xl5
Q-score: 0.541
Yang Y, Liu C, Zhou W, Shi W, Chen M, Zhang B, Schatz DG, Hu Y, Liu B
Nat Commun (2021) 12 pp. 2702-2702 [ DOI: doi:10.1038/s41467-021-22990-8 Pubmed: 33976201 ]
- Ecmrr-rnap-promoter open complex (ecmrr-rpo) (Complex from Escherichia coli O157:H7)
- Dna-directed rna polymerase subunit beta' (155 kDa, Protein from Escherichia coli O157:H7)
- Zinc ion (65 Da, Ligand)
- Water (18 Da, Ligand)
- Synthetic template strand dna (54-mer) (16 kDa, DNA from Escherichia coli O157:H7)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli O157:H7)
- Tetraphenylantimonium ion (430 Da, Ligand)
- Merr family transcriptional regulator ecmrr (31 kDa, Protein from Escherichia coli O157:H7)
- Dna-directed rna polymerase subunit alpha (36 kDa, Protein from Escherichia coli O157:H7)
- Rna polymerase sigma factor rpod (70 kDa, Protein from Escherichia coli O157:H7)
- Magnesium ion (24 Da, Ligand)
- Synthetic non-template strand dna (54-mer) (16 kDa, DNA from Escherichia coli O157:H7)
- Chapso (631 Da, Ligand)
- Dna-directed rna polymerase subunit omega (10 kDa, Protein from Escherichia coli O157:H7)
Resolution: 2.5 Å
EM Method: Single-particle
Fitted PDBs: 6xl9
Q-score: 0.517
Yang Y, Liu C, Zhou W, Shi W, Chen M, Zhang B, Schatz DG, Hu Y, Liu B
Nat Commun (2021) 12 pp. 2702-2702 [ DOI: doi:10.1038/s41467-021-22990-8 Pubmed: 33976201 ]
- Dna-directed rna polymerase subunit beta' (155 kDa, Protein from Escherichia coli O157:H7)
- Zinc ion (65 Da, Ligand)
- Water (18 Da, Ligand)
- Rna (5'-d(*(gtp))-r(p*ap*g)-3') (1 kDa, RNA from Escherichia coli O157:H7)
- Synthetic template strand dna (54-mer) (16 kDa, DNA from Escherichia coli O157:H7)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli O157:H7)
- Tetraphenylantimonium ion (430 Da, Ligand)
- Ecmrr-rnap-promoter initial transcribing complex with 3-nt rna transcript (ecmrr-rpitc-3nt) (Complex from Escherichia coli O157:H7)
- Merr family transcriptional regulator ecmrr (31 kDa, Protein from Escherichia coli O157:H7)
- Dna-directed rna polymerase subunit alpha (36 kDa, Protein from Escherichia coli O157:H7)
- Magnesium ion (24 Da, Ligand)
- Synthetic non-template strand dna (54-mer) (16 kDa, DNA from Escherichia coli O157:H7)
- Rna polymerase sigma factor rpod (70 kDa, Protein from Escherichia coli O157:H7)
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 6xlj
Q-score: 0.512
Yang Y, Liu C, Zhou W, Shi W, Chen M, Zhang B, Schatz DG, Hu Y, Liu B
Nat Commun (2021) 12 pp. 2702-2702 [ DOI: doi:10.1038/s41467-021-22990-8 Pubmed: 33976201 ]
- Synthetic template strand dna (54-mer) (16 kDa, DNA from Escherichia coli O157:H7)
- Dna-directed rna polymerase subunit beta' (155 kDa, Protein from Escherichia coli O157:H7)
- Zinc ion (65 Da, Ligand)
- Ecmrr-rnap-promoter initial transcribing complex with 4-nt rna transcript (ecmrr-rpitc-4nt) (Complex from Escherichia coli O157:H7)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli O157:H7)
- Tetraphenylantimonium ion (430 Da, Ligand)
- Merr family transcriptional regulator ecmrr (31 kDa, Protein from Escherichia coli O157:H7)
- Dna-directed rna polymerase subunit alpha (36 kDa, Protein from Escherichia coli O157:H7)
- Rna polymerase sigma factor rpod (70 kDa, Protein from Escherichia coli O157:H7)
- Rna (5'-d(*(gtp))-r(p*cp*ap*g)-3') (1 kDa, RNA from Escherichia coli O157:H7)
- Magnesium ion (24 Da, Ligand)
- Synthetic non-template strand dna (54-mer) (16 kDa, DNA from Escherichia coli O157:H7)
- Chapso (631 Da, Ligand)
- Dna-directed rna polymerase subunit omega (10 kDa, Protein from Escherichia coli O157:H7)
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 6xll
Q-score: 0.519
Yang Y, Liu C, Zhou W, Shi W, Chen M, Zhang B, Schatz DG, Hu Y, Liu B
Nat Commun (2021) 12 pp. 2702-2702 [ DOI: doi:10.1038/s41467-021-22990-8 Pubmed: 33976201 ]
- Synthetic template strand dna (54-mer) (16 kDa, DNA from Escherichia coli O157:H7)
- Dna-directed rna polymerase subunit beta' (155 kDa, Protein from Escherichia coli O157:H7)
- Rna transcript (5-mer) (1 kDa, RNA from Escherichia coli O157:H7)
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli O157:H7)
- Rnap-promoter initial transcribing complex with 5-nt rna transcript (rpitc-5nt) (Complex from Escherichia coli O157:H7)
- Dna-directed rna polymerase subunit alpha (36 kDa, Protein from Escherichia coli O157:H7)
- Rna polymerase sigma factor rpod (70 kDa, Protein from Escherichia coli O157:H7)
- Magnesium ion (24 Da, Ligand)
- Synthetic non-template strand dna (54-mer) (16 kDa, DNA from Escherichia coli O157:H7)
- Chapso (631 Da, Ligand)
- Dna-directed rna polymerase subunit omega (10 kDa, Protein from Escherichia coli O157:H7)
Cryo-EM structure of E. coli RNAP-DNA elongation complex 2 (RDe2) in EcmrR-dependent transcription
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 6xln
Q-score: 0.528
Yang Y, Liu C, Zhou W, Shi W, Chen M, Zhang B, Schatz DG, Hu Y, Liu B
Nat Commun (2021) 12 pp. 2702-2702 [ DOI: doi:10.1038/s41467-021-22990-8 Pubmed: 33976201 ]
- Synthetic template strand dna (54-mer) (16 kDa, DNA from Escherichia coli O157:H7)
- Dna-directed rna polymerase subunit beta' (155 kDa, Protein from Escherichia coli O157:H7)
- Zinc ion (65 Da, Ligand)
- 9-nt rna transcript (2 kDa, RNA from Escherichia coli O157:H7)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli O157:H7)
- Dna-directed rna polymerase subunit alpha (36 kDa, Protein from Escherichia coli O157:H7)
- Magnesium ion (24 Da, Ligand)
- Synthetic non-template strand dna (54-mer) (16 kDa, DNA from Escherichia coli O157:H7)
- Chapso (631 Da, Ligand)
- E. coli rnap-dna elongation complex 2 (rde2) (Complex from Escherichia coli O157:H7)
- Dna-directed rna polymerase subunit omega (10 kDa, Protein from Escherichia coli O157:H7)
Structure of SARS-CoV-2 spike at pH 4.5
Resolution: 2.5 Å
EM Method: Single-particle
Fitted PDBs: 7jwy
Q-score: 0.612
Zhou T, Tsybovsky Y, Gorman J, Rapp M, Cerutti G, Chuang GY, Katsamba PS, Sampson JM, Schon A, Bimela J, Boyington JC, Nazzari A, Olia AS, Shi W, Sastry M, Stephens T, Stuckey J, Teng IT, Wang P, Wang S, Zhang B, Friesner RA, Ho DD, Mascola JR, Shapiro L, Kwong PD
Cell Host Microbe (2020) 28 pp. 867-879.e5 [ DOI: doi:10.1016/j.chom.2020.11.004 Pubmed: 33271067 ]
- Spike glycoprotein (140 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 spike at ph 4.5 (423 kDa, Complex from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Water (18 Da, Ligand)