Cryo-EM structure of E. coli FimH lectin domain bound to Fabs 440-2 and 454-3
Resolution: 4.24 Å
EM Method: Single-particle
Fitted PDBs: 9d6f
Q-score: 0.412
Silmon de Monerri NC, Che Y, Lees JA, Jasti J, Wu H, Griffor MC, Kodali S, Hawkins JC, Lypowy J, Ponce C, Curley K, Esadze A, Carcamo J, Keeney D, Illenberger A, Matsuka YV, Shanker S, Chorro L, Gribenko AV, Han S, Anderson AS, Donald RGK
To Be Published
- Fimh-dsg tm (Complex from Escherichia coli)
- Fab 440-2 (Complex from Mus musculus)
- 440-2 fab light chain (24 kDa, Protein from Mus musculus)
- Fimh-dsg tm in complex with fabs 440-2 and 445-3 (Complex)
- 445-3 fab heavy chain (24 kDa, Protein from Mus musculus)
- Fab 445-3 (Complex from Mus musculus)
- 440-2 fab heavy chain (24 kDa, Protein from Mus musculus)
- 445-3 fab light chain (23 kDa, Protein from Mus musculus)
- Type 1 fimbrin d-mannose specific adhesin fimh, donor strand complemented with fimg peptide 'triple mutant' (32 kDa, Protein from Escherichia coli)
Resolution: 3.06 Å
EM Method: Single-particle
Fitted PDBs: 8znz
Q-score: 0.547
Xu JG, Chen S, He Y, Zhu X, Wang Y, Ye Z, Zhou JC, Wu X, Zhang L, Ren X, Jia H, Yu H, Wei X, Feng Y, Chen X, Cui X, Pan X, Wang S, Xia S, Shang H, Pu Y, Xu W, Li H, Chen Q, Chen Z, Wang M, Yan X, Shi H, Li M, Xia Y, Bellelli R, Dong S, He J, Huang J, Cai CL, Zhu X, Zhan Y, Wan L
Nat Commun (2024) 15 pp. 10872-10872 [ DOI: doi:10.1038/s41467-024-55207-9 Pubmed: 39738003 ]
- Zinc ion (65 Da, Ligand)
- Hb0038 fab light chain (11 kDa, Protein from Homo sapiens)
- Calcium ion (40 Da, Ligand)
- Hb0038 fab heavy chain (13 kDa, Protein from Homo sapiens)
- Hb0039 fab light chain (11 kDa, Protein from Homo sapiens)
- Sodium ion (22 Da, Ligand)
- Hb0039 fab heavy chain (13 kDa, Protein from Homo sapiens)
- Cd73 complexed with hb0017 antibody coaktail (630 kDa, Complex from Homo sapiens)
- 5'-nucleotidase (58 kDa, Protein from Homo sapiens)
Fibriansah G, Ng TS, Lim XN, Tan AWK, Shi J, Crowe JE, Lok SM
To Be Published
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Dengue serotype 2 strain d2y98p-pp1 n153q mutant (Complex from dengue virus type 2)
- Envelope protein (54 kDa, Protein from dengue virus type 2)
- Dengue virus serotype 2 strain y98p-pp1 n153q mutant in complex with human antibody 2d22 fab at 37 deg c (Complex)
- Human antibody 2d22 fab (heavy and light chains) (Complex from Homo sapiens)
- Membrane polyprotein (8 kDa, Protein from dengue virus type 2)
- Human antibody 2d22 fab heavy chain (13 kDa, Protein from Homo sapiens)
- Human antibody 2d22 fab light chain (12 kDa, Protein from Homo sapiens)
Fibriansah G, Ng TS, Lim XN, Tan AWK, Shi J, Crowe JE, Lok SM
To Be Published
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Membrane protein (8 kDa, Protein from dengue virus type 2)
- Dengue serotype 2 strain d2y98p-pp1 n153q mutant (Complex from dengue virus type 2)
- Envelope protein (54 kDa, Protein from dengue virus type 2)
- Human antibody c10 fab (light chain) (11 kDa, Protein from Homo sapiens)
- Human antibody c10 fab (heavy chain) (14 kDa, Protein from Homo sapiens)
- Human antibody c10 fab (heavy and light chains) (Complex from Homo sapiens)
- Dengue virus serotype 2 strain y98p-pp1 n153q mutant in complex with human antibody c10 fab at 37 deg c (Complex)
Fibriansah G, Ng TS, Lim XN, Tan AWK, Shi J, Crowe JE, Lok SM
To Be Published
- Human antibody 2d22 fab (heavy chain) (13 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Dengue virus serotype 2 strain d2y98p-pp1 in complex with human antibody 2d22 fab at 37 deg c (Complex)
- Envelope protein (54 kDa, Protein from dengue virus type 2)
- Human antibody 2d22 fab (light chain) (12 kDa, Protein from Homo sapiens)
- Human antibody 2d22 fab (heavy and light chains) (Complex from Homo sapiens)
- Dengue serotype 2 strain d2y98p-pp1 (Complex from dengue virus type 2)
- Membrane polyprotein (8 kDa, Protein from dengue virus type 2)
Fibriansah G, Ng TS, Lim XN, Tan AWK, Shi J, Crowe JE, Lok SM
To Be Published
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Envelope protein (54 kDa, Protein from dengue virus type 2)
- Dengue virus type 2 (Virus)
- Human antibody c10 fab (light chain) (11 kDa, Protein from Homo sapiens)
- Dengue serotype 2 strain d2y98p-pp1 (Complex from dengue virus type 2)
- Human antibody c10 fab (heavy chain) (14 kDa, Protein from Homo sapiens)
- Membrane polyprotein (8 kDa, Protein from dengue virus type 2)
- Human antibody c10 fab (heavy and light chains) (Complex from Homo sapiens)
Structure of rat beta-arrestin 1 by fiducial-assisted cryo-EM
Resolution: 3.52 Å
EM Method: Single-particle
Fitted PDBs: 9dng
Q-score: 0.431
Kahsai AW, Pakharukova N, Kwon HY, Shah KS, Liang-Lin JG, Del Real CT, Shim PJ, Lee MA, Ngo VA, Shreiber BN, Liu S, Schwalb AM, Espinoza EF, Thomas BN, Kunzle CA, Smith JS, Wang J, Kim J, Zhang X, Rockman HA, Thomsen ARB, Rein LAM, Shi L, Ahn S, Masoudi A, Lefkowitz RJ
bioRxiv (2024) [ Pubmed: 39763753 DOI: doi:10.1101/2024.12.27.630464 ]
- Anti-bril fab heavy chain (23 kDa, Protein from Homo sapiens)
- Beta-arrestin-1,soluble cytochrome b562 (55 kDa, Protein from Rattus norvegicus)
- Beta-arrestin 1 with insertion of soluble cytochrome b562 bound to anti-bril fab (Complex from Rattus norvegicus)
- Anti-bril fab light chain (23 kDa, Protein from Homo sapiens)
Structure of rat beta-arrestin 1 bound to allosteric inhibitor
Resolution: 3.47 Å
EM Method: Single-particle
Fitted PDBs: 9dnm
Q-score: 0.466
Kahsai AW, Pakharukova N, Kwon HY, Shah KS, Liang-Lin JG, Del Real CT, Shim PJ, Lee MA, Ngo VA, Shreiber BN, Liu S, Schwalb AM, Espinoza EF, Thomas BN, Kunzle CA, Smith JS, Wang J, Kim J, Zhang X, Rockman HA, Thomsen ARB, Rein LAM, Shi L, Ahn S, Masoudi A, Lefkowitz RJ
bioRxiv (2024) [ Pubmed: 39763753 DOI: doi:10.1101/2024.12.27.630464 ]
- Anti-bril fab heavy chain (23 kDa, Protein from Homo sapiens)
- Beta-arrestin-1,soluble cytochrome b562 (55 kDa, Protein from Rattus norvegicus)
- Anti-bril fab light chain (23 kDa, Protein from Homo sapiens)
- Beta-arrestin 1 with insertion of soluble cytochrome b562 bound to anti-bril fab (Complex from Rattus norvegicus)
- (1beta,6beta,7beta,8alpha,9beta,10alpha,13alpha,14r,16beta)-1,6,7,14-tetrahydroxy-7,20-epoxykauran-15-one (366 Da, Ligand)
G115 gamma delta TCR/CD3 complex bound by OKT3 Fab
Resolution: 3.27 Å
EM Method: Single-particle
Fitted PDBs: 9cq4
Q-score: 0.464
Hoque M, Grigg JB, Ramlall T, Jones J, McGoldrick LL, Lin JC, Olson WC, Smith E, Franklin MC, Zhang T, Saotome K
Nat Commun (2025) 16 pp. 318-318 [ DOI: doi:10.1038/s41467-024-55467-5 Pubmed: 39747888 ]
- G115 tcr delta chain (31 kDa, Protein from Homo sapiens)
- G115 tcr gamma chain (33 kDa, Protein from Homo sapiens)
- T-cell surface glycoprotein cd3 zeta chain (19 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- G115 gamma delta tcr/cd3 complex bound by okt3 fab (Complex from Homo sapiens)
- Okt3 fab heavy chain (25 kDa, Protein from Mus musculus)
- T-cell surface glycoprotein cd3 delta chain (19 kDa, Protein from Homo sapiens)
- T-cell surface glycoprotein cd3 gamma chain (20 kDa, Protein from Homo sapiens)
- Cholesterol (386 Da, Ligand)
- T-cell surface glycoprotein cd3 epsilon chain (23 kDa, Protein from Homo sapiens)
- Okt3 fab light chain (23 kDa, Protein from Mus musculus)
G115 gamma delta TCR/CD3 complex bound by OKT3 Fab
Resolution: 3.21 Å
EM Method: Single-particle
Fitted PDBs: 9cq7
Q-score: 0.437
Hoque M, Grigg JB, Ramlall T, Jones J, McGoldrick LL, Lin JC, Olson WC, Smith E, Franklin MC, Zhang T, Saotome K
Nat Commun (2025) 16 pp. 318-318 [ DOI: doi:10.1038/s41467-024-55467-5 Pubmed: 39747888 ]
- G115 tcr delta chain (31 kDa, Protein from Homo sapiens)
- G115 tcr gamma chain (33 kDa, Protein from Homo sapiens)
- Anti tcr variable delta 2 fab heavy chain (24 kDa, Protein from Mus musculus)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- G115 gamma delta tcr/cd3 complex bound by okt3 fab (Complex from Homo sapiens)
- Anti tcr variable delta 2 fab light chain (23 kDa, Protein from Mus musculus)