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3RI0
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BU of 3ri0 by Molmil
Epitope backbone grafting by computational design for improved presentation of linear epitopes on scaffold proteins
Descriptor: BB_2cx5_001, GLYCEROL, SULFATE ION
Authors:Azoitei, M.L, Ban, Y.A, Julien, J.P, Bryson, S, Schroeter, A, Kalyuzhniy, O, Porter, J.R, Adachi, Y, Baker, D, Szabo, E, Pai, E.F, Schief, W.R.
Deposit date:2011-04-12
Release date:2011-11-09
Last modified:2023-09-13
Method:X-RAY DIFFRACTION (2.25 Å)
Cite:Computational design of high-affinity epitope scaffolds by backbone grafting of a linear epitope.
J.Mol.Biol., 415, 2012
3RIJ
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BU of 3rij by Molmil
Epitope backbone grafting by computational design for improved presentation of linear epitopes on scaffold proteins
Descriptor: GLYCEROL, SC_2cx5
Authors:Azoitei, M.L, Ban, Y.A, Julien, J.P, Bryson, S, Schroeter, A, Kalyuzhniy, O, Porter, J.R, Adachi, Y, Baker, D, Szabo, E, Pai, E.F, Schief, W.R.
Deposit date:2011-04-13
Release date:2011-11-09
Last modified:2023-09-13
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Computational design of high-affinity epitope scaffolds by backbone grafting of a linear epitope.
J.Mol.Biol., 415, 2012
3RFN
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BU of 3rfn by Molmil
Epitope backbone grafting by computational design for improved presentation of linear epitopes on scaffold proteins
Descriptor: BB_1wnu_001, ZINC ION
Authors:Azoitei, M.L, Ban, Y.A, Julien, J.P, Bryson, S, Schroeter, A, Kalyuzhniy, O, Porter, J.R, Adachi, Y, Baker, D, Szabo, E, Pai, E.F, Schief, W.R.
Deposit date:2011-04-06
Release date:2011-11-09
Last modified:2023-09-13
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Computational design of high-affinity epitope scaffolds by backbone grafting of a linear epitope.
J.Mol.Biol., 415, 2012
3RHU
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BU of 3rhu by Molmil
Epitope backbone grafting by computational design for improved presentation of linear epitopes on scaffold proteins
Descriptor: SC_1wnu
Authors:Azoitei, M.L, Ban, Y.A, Julien, J.P, Bryson, S, Schroeter, A, Kalyuzhniy, O, Porter, J.R, Adachi, Y, Baker, D, Szabo, E, Pai, E.F, Schief, W.R.
Deposit date:2011-04-12
Release date:2011-11-09
Last modified:2023-09-13
Method:X-RAY DIFFRACTION (2.8 Å)
Cite:Computational design of high-affinity epitope scaffolds by backbone grafting of a linear epitope.
J.Mol.Biol., 415, 2012
8V2E
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BU of 8v2e by Molmil
Crystal structure of B055 scaffold boost immunogen in complex with a mature 10E8 Fab
Descriptor: 10E8 EPITOPE SCAFFOLD B055, 2-acetamido-2-deoxy-beta-D-glucopyranose, Antibody 10E8 FAB HEAVY CHAIN, ...
Authors:Cho, S.Y, Wilson, I.A.
Deposit date:2023-11-22
Release date:2024-06-12
Method:X-RAY DIFFRACTION (2.62 Å)
Cite:Vaccination induces broadly neutralizing antibody precursors to HIV gp41.
Nat.Immunol., 25, 2024
1TQX
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BU of 1tqx by Molmil
Crystal Structure of Pfal009167 A Putative D-Ribulose 5-Phosphate 3-Epimerase from P.falciparum
Descriptor: D-ribulose-5-phosphate 3-epimerase, putative, SULFATE ION, ...
Authors:Caruthers, J, Bosch, J, Hol, W.G.J, Structural Genomics of Pathogenic Protozoa Consortium (SGPP)
Deposit date:2004-06-18
Release date:2004-12-21
Last modified:2023-08-23
Method:X-RAY DIFFRACTION (2 Å)
Cite:Structure of a ribulose 5-phosphate 3-epimerase from Plasmodium falciparum.
Proteins, 62, 2006
8VFV
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BU of 8vfv by Molmil
HIV Env BG505_MD39_B16 SOSIP boosting trimer in complex with B16_d77.5 mouse Fab and RM20A3 Fab
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, B16_d77.5 mouse Fab heavy chain Fv, ...
Authors:Ozorowski, G, Torres, J.L, Ward, A.B.
Deposit date:2023-12-22
Release date:2024-05-15
Last modified:2024-06-05
Method:ELECTRON MICROSCOPY (3.3 Å)
Cite:mRNA-LNP HIV-1 trimer boosters elicit precursors to broad neutralizing antibodies.
Science, 384, 2024
5KZC
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BU of 5kzc by Molmil
Crystal structure of an HIV-1 gp120 engineered outer domain with a Man9 glycan at position N276, in complex with broadly neutralizing antibody VRC01
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, Engineered outer domain of gp120, VRC01 Fab heavy chain, ...
Authors:Julien, J.-P, Jardine, J.G, Diwanji, D, Schief, W.R, Wilson, I.A.
Deposit date:2016-07-24
Release date:2016-08-10
Last modified:2023-10-04
Method:X-RAY DIFFRACTION (3.25 Å)
Cite:Minimally Mutated HIV-1 Broadly Neutralizing Antibodies to Guide Reductionist Vaccine Design.
Plos Pathog., 12, 2016
5T85
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BU of 5t85 by Molmil
Crystal structure of 10E8 Fab in complex with the MPER epitope scaffold T117v2 and phosphatidylglycerol (06:0 PG)
Descriptor: (2S)-3-{[(R)-{[(2R)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-2-(hexanoyloxy)propyl hexanoate, 10E8 EPITOPE SCAFFOLD T117V2, Antibody 10E8 FAB HEAVY CHAIN, ...
Authors:Irimia, A, Wilson, I.A.
Deposit date:2016-09-06
Release date:2017-03-08
Last modified:2023-10-04
Method:X-RAY DIFFRACTION (2.373 Å)
Cite:Lipid interactions and angle of approach to the HIV-1 viral membrane of broadly neutralizing antibody 10E8: Insights for vaccine and therapeutic design.
PLoS Pathog., 13, 2017
3RPT
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BU of 3rpt by Molmil
Crystal structure of the anti-HIV b12 scaffold protein
Descriptor: Endoglucanase E-2, SULFATE ION
Authors:Chen, L, Kwong, P.D.
Deposit date:2011-04-27
Release date:2011-12-21
Last modified:2017-07-26
Method:X-RAY DIFFRACTION (1.303 Å)
Cite:Computation-guided backbone grafting of a discontinuous motif onto a protein scaffold.
Science, 334, 2011
3RU8
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BU of 3ru8 by Molmil
Structure of an HIV epitope scaffold in complex with neutralizing antibody b12 Fab
Descriptor: Antibody b12, Heavy Chain, Light Chain, ...
Authors:Carrico, C.T.D, Strong, R.K.
Deposit date:2011-05-04
Release date:2011-11-02
Last modified:2023-09-13
Method:X-RAY DIFFRACTION (2.07 Å)
Cite:Computation-guided backbone grafting of a discontinuous motif onto a protein scaffold.
Science, 334, 2011
2QLK
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BU of 2qlk by Molmil
Adenovirus AD35 fibre head
Descriptor: Fiber, GLYCEROL
Authors:Liaw, Y.-C, Amiraslanov, I, Wang, H, Lieber, A.
Deposit date:2007-07-13
Release date:2008-02-19
Last modified:2023-08-30
Method:X-RAY DIFFRACTION (2.02 Å)
Cite:Identification of CD46 binding sites within the adenovirus serotype 35 fiber knob
J.Virol., 81, 2007
5D9Q
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BU of 5d9q by Molmil
Crystal Structure of the BG505 SOSIP gp140 HIV-1 Env trimer in Complex with the Broadly Neutralizing Fab PGT122 and scFv NIH45-46
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Envelope glycoprotein gp120, ...
Authors:Julien, J.-P, Stanfield, R.L, Ward, A.B, Wilson, I.A.
Deposit date:2015-08-18
Release date:2016-08-17
Last modified:2023-09-27
Method:X-RAY DIFFRACTION (4.4 Å)
Cite:Minimally Mutated HIV-1 Broadly Neutralizing Antibodies to Guide Reductionist Vaccine Design.
Plos Pathog., 12, 2016
4N9G
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BU of 4n9g by Molmil
Crystal Structure of a Computationally Designed RSV-Presenting Epitope Scaffold And Its Elicited Antibody 17HD9
Descriptor: Antibody 17HD9, Heavy Chain, Light Chain, ...
Authors:Carrico, C.T.D, Strong, R.K.
Deposit date:2013-10-21
Release date:2014-02-12
Last modified:2023-09-20
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Proof of principle for epitope-focused vaccine design.
Nature, 507, 2014
7TI6
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BU of 7ti6 by Molmil
Crystal structure of the wild-type least mutated common ancestor (LMCA) of the HIV-targeting PCT64 antibody lineage
Descriptor: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID, PCT64_LMCA Fab heavy chain, PCT64_LMCA light chain (wild type)
Authors:Omorodion, O, Wilson, I.A.
Deposit date:2022-01-12
Release date:2022-10-05
Last modified:2023-10-18
Method:X-RAY DIFFRACTION (2.64 Å)
Cite:Human immunoglobulin repertoire analysis guides design of vaccine priming immunogens targeting HIV V2-apex broadly neutralizing antibody precursors.
Immunity, 55, 2022
7T75
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BU of 7t75 by Molmil
HIV-1 Envelope ApexGT2 in complex with RM20A3 Fab
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, HIV Envelope ApexGT2 gp120, ...
Authors:Berndsen, Z.T, Ward, A.B.
Deposit date:2021-12-14
Release date:2022-09-28
Last modified:2023-07-05
Method:ELECTRON MICROSCOPY (2.7 Å)
Cite:Human immunoglobulin repertoire analysis guides design of vaccine priming immunogens targeting HIV V2-apex broadly neutralizing antibody precursors.
Immunity, 55, 2022
7T76
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BU of 7t76 by Molmil
HIV-1 Envelope ApexGT3 in complex with PG9.iGL Fab
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, HIV Envelope ApexGT3 gp120, ...
Authors:Berndsen, Z.T, Ward, A.B.
Deposit date:2021-12-14
Release date:2022-09-28
Last modified:2023-07-05
Method:ELECTRON MICROSCOPY (4.43 Å)
Cite:Human immunoglobulin repertoire analysis guides design of vaccine priming immunogens targeting HIV V2-apex broadly neutralizing antibody precursors.
Immunity, 55, 2022
7T74
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BU of 7t74 by Molmil
HIV-1 Envelope ApexGT2 in complex with PCT64.35S Fab and RM20A3 Fab
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, HIV Envelope ApexGT2 gp120, ...
Authors:Berndsen, Z.T, Ward, A.B.
Deposit date:2021-12-14
Release date:2022-09-28
Last modified:2023-07-05
Method:ELECTRON MICROSCOPY (3.35 Å)
Cite:Human immunoglobulin repertoire analysis guides design of vaccine priming immunogens targeting HIV V2-apex broadly neutralizing antibody precursors.
Immunity, 55, 2022
7T77
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BU of 7t77 by Molmil
HIV-1 Envelope ApexGT3.N130 in complex with PG9 Fab
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, HIV Envelope ApexGT3.N130 gp120, ...
Authors:Berndsen, Z.T, Ward, A.B.
Deposit date:2021-12-14
Release date:2022-09-28
Last modified:2023-07-05
Method:ELECTRON MICROSCOPY (4.75 Å)
Cite:Human immunoglobulin repertoire analysis guides design of vaccine priming immunogens targeting HIV V2-apex broadly neutralizing antibody precursors.
Immunity, 55, 2022
7T73
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BU of 7t73 by Molmil
HIV-1 Envelope ApexGT2.2MUT in complex with PCT64.LMCA Fab
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, HIV Envelope ApexGT2.2MUT gp120, ...
Authors:Berndsen, Z.T, Ward, A.B.
Deposit date:2021-12-14
Release date:2022-09-28
Last modified:2023-07-05
Method:ELECTRON MICROSCOPY (4 Å)
Cite:Human immunoglobulin repertoire analysis guides design of vaccine priming immunogens targeting HIV V2-apex broadly neutralizing antibody precursors.
Immunity, 55, 2022
1ZSO
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BU of 1zso by Molmil
Hypothetical protein from plasmodium falciparum
Descriptor: hypothetical protein
Authors:Holmes, M.A, Merritt, E.A, Structural Genomics of Pathogenic Protozoa Consortium (SGPP)
Deposit date:2005-05-24
Release date:2005-06-07
Last modified:2017-10-11
Method:X-RAY DIFFRACTION (2.17 Å)
Cite:Structure of the conserved hypothetical protein MAL13P1.257 from Plasmodium falciparum.
Acta Crystallogr.,Sect.F, 62, 2006
2A0K
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BU of 2a0k by Molmil
Crystal structure of Nucleoside 2-deoxyribosyltransferase from Trypanosoma brucei at 1.8 A resolution
Descriptor: GLYCEROL, Nucleoside 2-deoxyribosyltransferase, SULFATE ION
Authors:Bosch, J, Robien, M.A, Hol, W.G.J, Structural Genomics of Pathogenic Protozoa Consortium (SGPP)
Deposit date:2005-06-16
Release date:2005-07-26
Last modified:2021-10-20
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Using fragment cocktail crystallography to assist inhibitor design of Trypanosoma brucei nucleoside 2-deoxyribosyltransferase.
J.Med.Chem., 49, 2006
6NFC
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BU of 6nfc by Molmil
BG505 MD64 N332-GT5 SOSIP trimer in complex with BG18-like precursor HMP42 fragmentantigen binding and base-binding RM20A3 fragment antigen binding
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, BG18-like precursor HMP42 fragment antigen binding heavy chain, ...
Authors:Ozorowski, G, Torres, J.L, Ward, A.B.
Deposit date:2018-12-19
Release date:2019-11-06
Last modified:2020-07-29
Method:ELECTRON MICROSCOPY (3.43 Å)
Cite:A generalized HIV vaccine design strategy for priming of broadly neutralizing antibody responses.
Science, 366, 2019
6NF5
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BU of 6nf5 by Molmil
BG505 MD64 N332-GT5 SOSIP trimer in complex with BG18-like precursor HMP1 fragmentantigen binding and base-binding RM20A3 fragment antigen binding
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, BG18-like precursor HMP1 fragment antigen binding heavy chain, ...
Authors:Ozorowski, G, Torres, J.L, Steichen, J.M, Schief, W.R, Ward, A.B.
Deposit date:2018-12-18
Release date:2019-11-06
Last modified:2020-07-29
Method:ELECTRON MICROSCOPY (3.71 Å)
Cite:A generalized HIV vaccine design strategy for priming of broadly neutralizing antibody responses.
Science, 366, 2019
8F9M
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BU of 8f9m by Molmil
HIV Env germline targeting BG505_MD64_N332-GT5 SOSIP in complex with V3-glycan polyclonal Fab isolated from immunized wild type mice, and NHP monoclonal Fab RM20A3
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, BG505_MD64_N332-GT5 gp120, ...
Authors:Ozorowski, G, Ward, A.B.
Deposit date:2022-11-23
Release date:2024-05-15
Last modified:2024-05-29
Method:ELECTRON MICROSCOPY (4.1 Å)
Cite:mRNA-LNP HIV-1 trimer boosters elicit precursors to broad neutralizing antibodies.
Science, 384, 2024

 

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