Cryo-EM structure of PAPP-A in complex with IGFBP5
Resolution: 3.28 Å
EM Method: Single-particle
Fitted PDBs: 7ufg
Q-score: 0.443
Judge RA, Sridar J, Tunyasunvunakool K, Jain R, Wang JCK, Ouch C, Xu J, Mafi A, Nile AH, Remarcik C, Smith CL, Ghosh C, Xu C, Stoll V, Jumper J, Singh AH, Eaton D, Hao Q
Nat Commun (2022) 13 pp. 5500- [ Pubmed: 36127359 DOI: doi:10.1038/s41467-022-33175-2 ]
- Zinc ion (65 Da, Ligand)
- Complex of papp-a with igfbp5 (Complex from Homo sapiens)
- Pappalysin-1 (176 kDa, Protein from Homo sapiens)
- Insulin-like growth factor-binding protein 5 (30 kDa, Protein from Homo sapiens)
Cryo-EM structure of substrate unbound PAPP-A
Resolution: 3.35 Å
EM Method: Single-particle
Fitted PDBs: 8d8o
Q-score: 0.44
Judge RA, Sridar J, Tunyasunvunakool K, Jain R, Wang JCK, Ouch C, Xu J, Mafi A, Nile AH, Remarcik C, Smith CL, Ghosh C, Xu C, Stoll V, Jumper J, Singh AH, Eaton D, Hao Q
Nat Commun (2022) 13 pp. 5500- [ Pubmed: 36127359 DOI: doi:10.1038/s41467-022-33175-2 ]
- Papp-a homodimer (Complex from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Pappalysin-1 (176 kDa, Protein from Homo sapiens)
Cryo-EM structure of PilA-N/C from Geobacter sulfurreducens
Gu Y, Srikanth V, Salazar-Morales AI, Jain R, O'Brien JP, Yi SM, Soni RK, Samatey FA, Yalcin SE, Malvankar NS
Nature (2021) 597 pp. 430-434 [ Pubmed: 34471289 DOI: 10.1038/s41586-021-03857-w ]
Image sets:
Sugar phosphate activation of the stress sensor eIF2B
Resolution: 2.91 Å
EM Method: Single-particle
Fitted PDBs: 7kmf
Q-score: 0.527
Hao Q, Heo JM, Nocek BP, Hicks KG, Stoll VS, Remarcik C, Hackett S, LeBon L, Jain R, Eaton D, Rutter J, Wong YL, Sidrauski C
Nat Commun (2021) 12 pp. 3440-3440 [ DOI: doi:10.1038/s41467-021-23836-z Pubmed: 34103529 ]
- 6-o-phosphono-beta-d-fructofuranose (260 Da, Ligand)
- Translation initiation factor eif-2b subunit beta (41 kDa, Protein from Homo sapiens)
- Translation initiation factor eif-2b subunit gamma (50 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
- Tranlation initiation factor eif-2b (Complex from Homo sapiens)
- Translation initiation factor eif-2b subunit epsilon (80 kDa, Protein from Homo sapiens)
- Translation initiation factor eif-2b subunit alpha (40 kDa, Protein from Homo sapiens)
- Translation initiation factor eif-2b subunit delta (57 kDa, Protein from Homo sapiens)
Cryo-EM structure of PilA-N/C from Geobacter sulfurreducens
Resolution: 3.8 Å
EM Method: Helical reconstruction
Fitted PDBs: 6vk9
Q-score: 0.434
Gu Y, Srikanth V, Salazar-Morales AI, Jain R, O'Brien P, Yi SM, Soni RK, Samatey FA, Yalcin SE, Malvankar NS
Nature (2021) 597 pp. 430-434 [ DOI: doi:10.1038/s41586-021-03857-w ]
Structure of DNA Polymerase Zeta (Apo)
Resolution: 4.1 Å
EM Method: Single-particle
Fitted PDBs: 6v8p
Q-score: 0.369
Malik R, Kopylov M, Gomez-Llorente Y, Jain R, Johnson RE, Prakash L, Prakash S, Ubarretxena-Belandia I, Aggarwal AK
Nat Struct Mol Biol (2020) 27 pp. 913-924 [ Pubmed: 32807989 DOI: doi:10.1038/s41594-020-0476-7 ]
- Iron/sulfur cluster (351 Da, Ligand)
- Dna polymerase zeta catalytic subunit (177 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Apo (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna polymerase delta small subunit (55 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna polymerase delta subunit 3 (40 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna polymerase zeta processivity subunit (28 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Structure of DNA Polymerase Zeta/DNA/dNTP Ternary Complex
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 6v93
Q-score: 0.539
Malik R, Kopylov M, Gomez-Llorente Y, Jain R, Johnson RE, Prakash L, Prakash S, Ubarretxena-Belandia I, Aggarwal AK
Nat Struct Mol Biol (2020) 27 pp. 913-924 [ Pubmed: 32807989 DOI: doi:10.1038/s41594-020-0476-7 ]
- Iron/sulfur cluster (351 Da, Ligand)
- 2'-deoxycytidine-5'-triphosphate (467 Da, Ligand)
- Dna polymerase zeta catalytic subunit (177 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Water (18 Da, Ligand)
- Structure of dna complex (Complex from Saccharomyces cerevisiae)
- Dna polymerase delta small subunit (55 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna polymerase delta subunit 3 (40 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Calcium ion (40 Da, Ligand)
- Dna polymerase zeta processivity subunit (28 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna (9 kDa, DNA from synthetic construct)
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 6p1h
Q-score: 0.515
Jain R, Rice WJ, Malik R, Johnson RE, Prakash L, Prakash S, Ubarretxena-Belandia I, Aggarwal AK
Nat Struct Mol Biol (2019) 26 pp. 955-962 [ Pubmed: 31582849 DOI: doi:10.1038/s41594-019-0305-z ]
- Iron/sulfur cluster (351 Da, Ligand)
- 2'-deoxycytidine-5'-triphosphate (467 Da, Ligand)
- Dna polymerase delta catalytic subunit (127 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Water (18 Da, Ligand)
- Dna polymerase delta small subunit (55 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna (30-mer) (9 kDa, DNA from synthetic construct)
- Dna polymerase delta subunit 3 (40 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Calcium ion (40 Da, Ligand)
- Enzymatic complex with ligands (220 kDa, Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Gomez-Llorente Y, Malik R, Jain R, Roy Choudhury J, Johnson RE, Prakash L, Prakash S, Ubarretxena-Belandia I, Aggarwal AK
Cell Rep (2013) 5 pp. 79-86 [ DOI: doi:10.1016/j.celrep.2013.08.046 Pubmed: 24120860 ]
- Dna polymerase 'zeta' processivity subunit (28 kDa, Protein from Saccharomyces cerevisiae)
- Dna polymerase 'delta' small subunit (55 kDa, Protein from Saccharomyces cerevisiae)
- Dna polymerase 'zeta' catalytic subunit (173 kDa, Protein from Saccharomyces cerevisiae)
- Dna polymerase 'delta' subunit 3 (40 kDa, Protein from Saccharomyces cerevisiae)
- Polymerase zeta heterotetramer of saccharomyces cerevisiae (300 kDa, Sample)