Structure of the IFN-lambda4/IFN-lambdaR1/IL-10Rbeta receptor complex with an engineered IL-10Rbeta
Grubbe WS, Zhang B, Kauffman A, Bylehn F, Padol K, Jung HG, Park SB, Priest JM, Ozkan E, de Pablo JJ, Liang TJ, Zhao M, Mendoza JL
Nat Commun (2025) 16 pp. 818-818 [ DOI: doi:10.1038/s41467-025-56119-y Pubmed: 39827213 ]
- Interferon lambda-4 (19 kDa, Protein from Homo sapiens)
- Interferon lambda receptor 1 (23 kDa, Protein from Homo sapiens)
- Structure of the ifn-lambda4/ifn-lambdar1/il-10rbeta receptor complex with an engineered il-10rbeta (71 kDa, Complex from Homo sapiens)
- Interleukin-10 receptor subunit beta (24 kDa, Protein from Homo sapiens)
Structure of the IFN-lambda3/IFN-lambdaR1/IL-10Rbeta receptor complex with an engineered IL-10Rbeta
Grubbe WS, Zhang B, Kauffman A, Bylehn F, Padol K, Jung HG, Park SB, Priest JM, Ozkan E, de Pablo JJ, Liang TJ, Zhao M, Mendoza JL
Nat Commun (2025) 16 pp. 818-818 [ DOI: doi:10.1038/s41467-025-56119-y Pubmed: 39827213 ]
- Interleukin-10 receptor subunit beta (24 kDa, Protein from Homo sapiens)
- Interferon lambda-3 (19 kDa, Protein from Homo sapiens)
- Interferon lambda receptor 1 (23 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Structure of the ifn-lambda3/ifn-lambdar1/il-10rbeta receptor complex with an engineered il-10rbeta (71 kDa, Complex from Homo sapiens)
Cryo-EM structure of PGDM1400 Fab bound to HIV-1 BG505 DS-SOSIP.664 Env trimer
Resolution: 3.44 Å
EM Method: Single-particle
Fitted PDBs: 9d1w
Q-score: 0.483
Mason RD, Zhang B, Morano NC, Shen CH, McKee K, Heimann A, Du R, Nazzari AF, Hodges S, Kanai T, Lin BC, Louder MK, Doria-Rose NA, Zhou T, Shapiro L, Roederer M, Kwong PD, Gorman J
Cell Rep (2025) 44 pp. 115223-115223 [ DOI: doi:10.1016/j.celrep.2024.115223 Pubmed: 39826122 ]
- Pgdm1400 heavy chain (26 kDa, Protein from Homo sapiens)
- Pgdm1400 fab with hiv-1 bg505 ds-sosip.664 env trimer (Complex from Human immunodeficiency virus 1)
- Hiv-1 bg505 ds-sosip gp120 (54 kDa, Protein from Human immunodeficiency virus 1)
- Hiv-1 bg505 ds-sosip glycoprotein gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- Pgdm1400 light chain (24 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Structure of VRC44.01 Fab in complex with 3BNC117-purified C1080.c3 RnS SOSIP.664 HIV-1 Env trimer
Resolution: 2.83 Å
EM Method: Single-particle
Fitted PDBs: 9bio
Q-score: 0.547
Cale EM, Shen CH, Olia AS, Radakovich NA, Rawi R, Yang Y, Ambrozak DR, Bennici AK, Chuang GY, Crooks ED, Driscoll JI, Lin BC, Louder MK, Madden PJ, Messina MA, Osawa K, Stewart-Jones GBE, Verardi R, Vrakas Z, Xie D, Zhang B, Binley JM, Connors M, Koup RA, Pierson TC, Doria-Rose NA, Kwong PD, Mascola JR, Gorman J
Cell Rep (2024) 43 pp. 115010-115010 [ Pubmed: 39675002 DOI: doi:10.1016/j.celrep.2024.115010 ]
- Vrc44 and 3bnc117 fabs with repaired c1080 env trimer (Complex from Human immunodeficiency virus 1)
- Envelope glycoprotein gp41 (19 kDa, Protein from Human immunodeficiency virus 1)
- Phosphate ion (94 Da, Ligand)
- Vrc44.01 heavy chain (13 kDa, Protein from Homo sapiens)
- 3bnc117 heavy chain (24 kDa, Protein from Homo sapiens)
- 3bnc117 light chain (23 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Vrc44.01 light chain (11 kDa, Protein from Homo sapiens)
- Envelope glycoprotein gp160 (54 kDa, Protein from Human immunodeficiency virus 1)
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(t) subunit beta-1 (39 kDa, Protein from Homo sapiens)
- Kiss1r (Complex)
- 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)
- Tak448 (1 kDa, Protein from synthetic construct)
- Scfv16 (Complex)
- Kissar-gq-scfv16 (130 kDa, Complex from Homo sapiens)
- Scfv16 (27 kDa, Protein from Homo sapiens)
- Kiss-1 receptor (42 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(q) subunit alpha (41 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(t) subunit beta-1 (39 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(q) subunit alpha (41 kDa, Protein 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)
- Kp54-kiss1r-gq-scfv16 (130 kDa, Complex from Homo sapiens)
- Metastin (5 kDa, Protein from synthetic construct)
- Kiss1r (Complex from Homo sapiens)
- Kiss-1 receptor (42 kDa, Protein from Homo sapiens)
- Scfv16 (Complex from Homo sapiens)
- Scfv16 (27 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Homo sapiens)
a peptide receptor complex structure
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 8xgu
Q-score: 0.482
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(t) subunit beta-1 (39 kDa, Protein from Homo sapiens)
- Scfv16 (Complex from Homo sapiens)
- Guanine nucleotide-binding protein g(i) subunit alpha-1 (40 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Homo sapiens)
- Kp54-kiss1r-gq-scfv16 (130 kDa, Complex from Homo sapiens)
- Kiss1r (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(i) subunit alpha-1 (Complex from Homo sapiens)
- Scfv16 (27 kDa, Protein from Homo sapiens)
- Kiss-1 receptor (42 kDa, Protein from Homo sapiens)
- Tak448 (1 kDa, Protein from synthetic construct)
Cryo-EM structure of Mycobacterium tuberculosis DppABCD in apo form
Resolution: 3.35 Å
EM Method: Single-particle
Fitted PDBs: 8wd9
Q-score: 0.528
To Be Published
- (2s)-1-(hexadecanoyloxy)propan-2-yl (10s)-10-methyloctadecanoate (594 Da, Ligand)
- Probable dipeptide-transport integral membrane protein abc transporter dppc (30 kDa, Protein from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
- Probable dipeptide-transport integral membrane protein abc transporter dppb (32 kDa, Protein from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
- Dppabcd (Complex from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
- Probable periplasmic dipeptide-binding lipoprotein dppa (56 kDa, Protein from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
- Probable dipeptide-transport atp-binding protein abc transporter dppd (59 kDa, Protein from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
- Palmitic acid (256 Da, Ligand)
Cryo-EM structure of the substrate-bound DppABCD complex
Resolution: 3.26 Å
EM Method: Single-particle
Fitted PDBs: 8wda
Q-score: 0.545
To Be Published
- (2s)-1-(hexadecanoyloxy)propan-2-yl (10s)-10-methyloctadecanoate (594 Da, Ligand)
- Probable dipeptide-transport integral membrane protein abc transporter dppc (30 kDa, Protein from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
- Probable dipeptide-transport integral membrane protein abc transporter dppb (32 kDa, Protein from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
- Dppabcd (Complex from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
- Probable periplasmic dipeptide-binding lipoprotein dppa (56 kDa, Protein from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
- Probable dipeptide-transport atp-binding protein abc transporter dppd (59 kDa, Protein from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
- Tetrapeptide (330 Da, Protein from Mycolicibacterium smegmatis MC2 155)
- Palmitic acid (256 Da, Ligand)
Cryo-EM structure of the ATP-bound DppABCD complex
Resolution: 2.86 Å
EM Method: Single-particle
Fitted PDBs: 8wdb
Q-score: 0.605
To Be Published
- Probable dipeptide-transport integral membrane protein abc transporter dppc (30 kDa, Protein from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
- Probable dipeptide-transport integral membrane protein abc transporter dppb (32 kDa, Protein from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
- Dppabcd (Complex from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
- Probable periplasmic dipeptide-binding lipoprotein dppa (56 kDa, Protein from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Probable dipeptide-transport atp-binding protein abc transporter dppd (59 kDa, Protein from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
- Magnesium ion (24 Da, Ligand)