8U5A
 
 | | Improving protein expression, stability, and function with ProteinMPNN | | Descriptor: | Designed myoglobin, PROTOPORPHYRIN IX CONTAINING FE | | Authors: | Kalvet, I, Bera, A.K, Baker, D. | | Deposit date: | 2023-09-12 | | Release date: | 2024-01-17 | | Last modified: | 2024-01-31 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | Improving Protein Expression, Stability, and Function with ProteinMPNN.
J.Am.Chem.Soc., 146, 2024
|
|
8UAO
 | | DpHF18 filament | | Descriptor: | DpHF18 | | Authors: | Lynch, E.M, Shen, H, Kollman, J.M, Baker, D. | | Deposit date: | 2023-09-21 | | Release date: | 2024-04-10 | | Last modified: | 2024-08-07 | | Method: | ELECTRON MICROSCOPY (3.6 Å) | | Cite: | De novo design of pH-responsive self-assembling helical protein filaments.
Nat Nanotechnol, 19, 2024
|
|
8UB3
 | | DpHF7 filament | | Descriptor: | DpHF7 filament | | Authors: | Lynch, E.M, Farrell, D, Shen, H, Kollman, J.M, DiMaio, F, Baker, D. | | Deposit date: | 2023-09-22 | | Release date: | 2024-04-10 | | Last modified: | 2024-08-07 | | Method: | ELECTRON MICROSCOPY (3.3 Å) | | Cite: | De novo design of pH-responsive self-assembling helical protein filaments.
Nat Nanotechnol, 19, 2024
|
|
6DMA
 | | DHD15_closed | | Descriptor: | DHD15_closed_A, DHD15_closed_B | | Authors: | Bick, M.J, Chen, Z, Baker, D. | | Deposit date: | 2018-06-04 | | Release date: | 2018-12-19 | | Last modified: | 2024-04-03 | | Method: | X-RAY DIFFRACTION (3.363 Å) | | Cite: | Programmable design of orthogonal protein heterodimers.
Nature, 565, 2019
|
|
6DLM
 | | DHD127 | | Descriptor: | DHD127_A, DHD127_B | | Authors: | Bick, M.J, Chen, Z, Baker, D. | | Deposit date: | 2018-06-01 | | Release date: | 2018-12-19 | | Last modified: | 2024-04-03 | | Method: | X-RAY DIFFRACTION (1.753 Å) | | Cite: | Programmable design of orthogonal protein heterodimers.
Nature, 565, 2019
|
|
6DLC
 | |
6DM9
 | | DHD15_extended | | Descriptor: | DHD15_extended_A, DHD15_extended_B, SULFATE ION | | Authors: | Bick, M.J, Chen, Z, Baker, D. | | Deposit date: | 2018-06-04 | | Release date: | 2018-12-19 | | Last modified: | 2024-10-23 | | Method: | X-RAY DIFFRACTION (2.25 Å) | | Cite: | Programmable design of orthogonal protein heterodimers.
Nature, 565, 2019
|
|
6DKM
 | | DHD131 | | Descriptor: | DHD131_A, DHD131_B | | Authors: | Bick, M.J, Chen, Z, Baker, D. | | Deposit date: | 2018-05-29 | | Release date: | 2018-12-19 | | Last modified: | 2024-04-03 | | Method: | X-RAY DIFFRACTION (2.38 Å) | | Cite: | Programmable design of orthogonal protein heterodimers.
Nature, 565, 2019
|
|
5TVY
 | | Computationally Designed Fentanyl Binder - Fen49 | | Descriptor: | 3,6,9,12,15,18,21,24,27-NONAOXANONACOSANE-1,29-DIOL, Endo-1,4-beta-xylanase A | | Authors: | Bick, M.J, Greisen, P.J, Morey, K.J, Antunes, M.S, La, D, Sankaran, B, Reymond, L, Johnsson, K, Medford, J.I, Baker, D. | | Deposit date: | 2016-11-10 | | Release date: | 2017-10-04 | | Last modified: | 2024-04-03 | | Method: | X-RAY DIFFRACTION (1 Å) | | Cite: | Computational design of environmental sensors for the potent opioid fentanyl.
Elife, 6, 2017
|
|
1YSB
 | | Yeast Cytosine Deaminase Triple Mutant | | Descriptor: | CALCIUM ION, Cytosine deaminase, ZINC ION | | Authors: | Korkegian, A, Black, M.E, Baker, D, Stoddard, B.L. | | Deposit date: | 2005-02-08 | | Release date: | 2005-05-17 | | Last modified: | 2024-02-14 | | Method: | X-RAY DIFFRACTION (1.7 Å) | | Cite: | Computational thermostabilization of an enzyme.
Science, 308, 2005
|
|
6C2V
 | | Solution structure of a phosphate-loop protein | | Descriptor: | phosphate-loop protein | | Authors: | Yang, F, Yang, W, Lin, Y.R, Romero Romero, M.L, Tawfik, D, Baker, D, Varani, G. | | Deposit date: | 2018-01-09 | | Release date: | 2018-11-21 | | Last modified: | 2024-05-15 | | Method: | SOLUTION NMR | | Cite: | Simple yet functional phosphate-loop proteins.
Proc. Natl. Acad. Sci. U.S.A., 115, 2018
|
|
1YSD
 | | Yeast Cytosine Deaminase Double Mutant | | Descriptor: | CALCIUM ION, Cytosine deaminase, ZINC ION | | Authors: | Korkegian, A, Black, M.E, Baker, D, Stoddard, B.L. | | Deposit date: | 2005-02-08 | | Release date: | 2005-05-17 | | Last modified: | 2024-02-14 | | Method: | X-RAY DIFFRACTION (1.9 Å) | | Cite: | Computational thermostabilization of an enzyme.
Science, 308, 2005
|
|
6C2U
 | | Solution structure of a phosphate-loop protein | | Descriptor: | phosphate-loop protein | | Authors: | Yang, F, Yang, W, Lin, Y.R, Romero Romero, M.L, Tawfik, D, Baker, D, Varani, G. | | Deposit date: | 2018-01-09 | | Release date: | 2018-11-21 | | Last modified: | 2024-05-15 | | Method: | SOLUTION NMR | | Cite: | Simple yet functional phosphate-loop proteins.
Proc. Natl. Acad. Sci. U.S.A., 115, 2018
|
|
2LPB
 | | Structure of the complex of the central activation domain of Gcn4 bound to the mediator co-activator domain 1 of Gal11/med15 | | Descriptor: | General control protein GCN4, Mediator of RNA polymerase II transcription subunit 15 | | Authors: | Brzovic, P.S, Heikaus, C.C, Kisselev, L, Vernon, R, Herbig, E, Pacheco, D, Warfield, L, Littlefield, P, Baker, D, Klevit, R.E, Hahn, S. | | Deposit date: | 2012-02-07 | | Release date: | 2012-02-22 | | Last modified: | 2024-05-01 | | Method: | SOLUTION NMR | | Cite: | The acidic transcription activator Gcn4 binds the mediator subunit Gal11/Med15 using a simple protein interface forming a fuzzy complex.
Mol.Cell, 44, 2011
|
|
6WHO
 | | Histone deacetylases complex with peptide macrocycles | | Descriptor: | 2-[N-CYCLOHEXYLAMINO]ETHANE SULFONIC ACID, Histone deacetylase 2, SODIUM ION, ... | | Authors: | Bera, A.K, Hosseinzadeh, P, Watson, P, Baker, D. | | Deposit date: | 2020-04-08 | | Release date: | 2021-04-21 | | Last modified: | 2024-10-16 | | Method: | X-RAY DIFFRACTION (2.2 Å) | | Cite: | Anchor extension: a structure-guided approach to design cyclic peptides targeting enzyme active sites.
Nat Commun, 12, 2021
|
|
6WHN
 | | Histone deacetylases complex with peptide macrocycles | | Descriptor: | 2-[N-CYCLOHEXYLAMINO]ETHANE SULFONIC ACID, DI(HYDROXYETHYL)ETHER, Histone deacetylase 2, ... | | Authors: | Bera, A.K, Hosseinzadeh, P, Watson, P, Baker, D. | | Deposit date: | 2020-04-08 | | Release date: | 2021-04-21 | | Last modified: | 2024-10-30 | | Method: | X-RAY DIFFRACTION (1.54 Å) | | Cite: | Anchor extension: a structure-guided approach to design cyclic peptides targeting enzyme active sites.
Nat Commun, 12, 2021
|
|
6WHQ
 | | Histone deacetylases complex with peptide macrocycles | | Descriptor: | 2-[N-CYCLOHEXYLAMINO]ETHANE SULFONIC ACID, Histone deacetylase 2, SODIUM ION, ... | | Authors: | Bera, A.K, Hosseinzadeh, P, Watson, P, Baker, D. | | Deposit date: | 2020-04-08 | | Release date: | 2021-04-21 | | Last modified: | 2024-10-09 | | Method: | X-RAY DIFFRACTION (2.35 Å) | | Cite: | Anchor extension: a structure-guided approach to design cyclic peptides targeting enzyme active sites.
Nat Commun, 12, 2021
|
|
6WHZ
 | | Histone deacetylases complex with peptide macrocycles | | Descriptor: | Histone deacetylase 2, SODIUM ION, TETRAETHYLENE GLYCOL, ... | | Authors: | Bera, A.K, Hosseinzadeh, P, Watson, P, Baker, D. | | Deposit date: | 2020-04-08 | | Release date: | 2021-04-21 | | Last modified: | 2023-11-15 | | Method: | X-RAY DIFFRACTION (2.9 Å) | | Cite: | Anchor extension: a structure-guided approach to design cyclic peptides targeting enzyme active sites.
Nat Commun, 12, 2021
|
|
6WI3
 | | Histone deacetylases complex with peptide macrocycles | | Descriptor: | (SHA)W(DTH)DN(DSN)(DME)(DAS)K peptide macrocycle, 2-[N-CYCLOHEXYLAMINO]ETHANE SULFONIC ACID, Histone deacetylase 2, ... | | Authors: | Bera, A.K, Hosseinzadeh, P, Watson, P, Baker, D. | | Deposit date: | 2020-04-08 | | Release date: | 2021-04-21 | | Last modified: | 2024-11-13 | | Method: | X-RAY DIFFRACTION (2.35 Å) | | Cite: | Anchor extension: a structure-guided approach to design cyclic peptides targeting enzyme active sites.
Nat Commun, 12, 2021
|
|
6WMK
 | | Crystal structure of beta sheet heterodimer LHD29 | | Descriptor: | Beta sheet heterodimer LHD29 - Chain A, Beta sheet heterodimer LHD29 - Chain B | | Authors: | Bera, A.K, Sahtoe, D.D, Kang, A, Sankaran, B, Baker, D. | | Deposit date: | 2020-04-21 | | Release date: | 2021-11-10 | | Last modified: | 2024-04-03 | | Method: | X-RAY DIFFRACTION (2.2 Å) | | Cite: | Reconfigurable asymmetric protein assemblies through implicit negative design.
Science, 375, 2022
|
|
6X1K
 | | Solution NMR structure of de novo designed TMB2.3 | | Descriptor: | De novo designed transmembrane beta-barrel TMB2.3 | | Authors: | Liang, B, Vorobieva, A.A, Chow, C.M, Baker, D, Tamm, L.K. | | Deposit date: | 2020-05-19 | | Release date: | 2021-02-17 | | Last modified: | 2024-05-15 | | Method: | SOLUTION NMR | | Cite: | De novo design of transmembrane beta barrels.
Science, 371, 2021
|
|
6X9Z
 | |
8SKD
 | |
8SKX
 | |
8SKE
 | |
