6QGM
 
 | | VirX1 apo structure | | Descriptor: | VirX1 | | Authors: | Gkotsi, D.S, Ludewig, H, Sharma, S.V, Unsworth, W.P, Taylor, R.J.K, McLachlan, M.M.W, Shanahan, S, Naismith, J.H, Goss, R.J.M. | | Deposit date: | 2019-01-11 | | Release date: | 2019-10-30 | | Last modified: | 2024-01-24 | | Method: | X-RAY DIFFRACTION (2.75 Å) | | Cite: | A marine viral halogenase that iodinates diverse substrates.
Nat.Chem., 11, 2019
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8UNF
 | | Cryo-EM structure of T4 Bacteriophage Clamp Loader with Sliding Clamp and DNA | | Descriptor: | ADENOSINE-5'-DIPHOSPHATE, MAGNESIUM ION, Sliding clamp, ... | | Authors: | Huang, Y, Marcus, K, Subramanian, S, Gee, L.C, Gorday, K, Ghaffari-Kashani, S, Luo, X, Zhang, L, O'Donnell, M, Subramanian, S, Kuriyan, J. | | Deposit date: | 2023-10-18 | | Release date: | 2023-12-13 | | Last modified: | 2024-04-03 | | Method: | ELECTRON MICROSCOPY (3.15 Å) | | Cite: | Autoinhibition of a clamp-loader ATPase revealed by deep mutagenesis and cryo-EM.
Nat.Struct.Mol.Biol., 31, 2024
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8UNH
 | | Cryo-EM structure of T4 Bacteriophage Clamp Loader with Sliding Clamp | | Descriptor: | MAGNESIUM ION, PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER, Sliding clamp, ... | | Authors: | Huang, Y, Marcus, K, Subramanian, S, Gee, L.C, Gorday, K, Ghaffari-Kashani, S, Luo, X, Zhang, L, O'Donnell, M, Subramanian, S, Kuriyan, J. | | Deposit date: | 2023-10-19 | | Release date: | 2023-12-13 | | Last modified: | 2024-04-03 | | Method: | ELECTRON MICROSCOPY (3.21 Å) | | Cite: | Autoinhibition of a clamp-loader ATPase revealed by deep mutagenesis and cryo-EM.
Nat.Struct.Mol.Biol., 31, 2024
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5TCU
 | | Methicillin sensitive Staphylococcus aureus 70S ribosome | | Descriptor: | 16S RRNA, 23S RRNA, 30S ribosomal protein S10, ... | | Authors: | Eyal, Z, Ahmed, T, Belousoff, N, Mishra, S, Matzov, D, Bashan, A, Zimmerman, E, Lithgow, T, Bhushan, S, Yonath, A. | | Deposit date: | 2016-09-15 | | Release date: | 2017-05-24 | | Last modified: | 2024-10-16 | | Method: | ELECTRON MICROSCOPY (3.9 Å) | | Cite: | Structural Basis for Linezolid Binding Site Rearrangement in the Staphylococcus aureus Ribosome.
MBio, 8, 2017
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8UK9
 | | Structure of T4 Bacteriophage clamp loader mutant D110C bound to the T4 clamp, primer-template DNA, and ATP analog | | Descriptor: | ADENOSINE-5'-DIPHOSPHATE, ALUMINUM FLUORIDE, DNA primer, ... | | Authors: | Marcus, K, Ghaffari-Kashani, S, Gee, C.L. | | Deposit date: | 2023-10-12 | | Release date: | 2023-12-13 | | Last modified: | 2024-04-03 | | Method: | X-RAY DIFFRACTION (3.1 Å) | | Cite: | Autoinhibition of a clamp-loader ATPase revealed by deep mutagenesis and cryo-EM.
Nat.Struct.Mol.Biol., 31, 2024
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3IZD
 | | Model of the large subunit RNA expansion segment ES27L-out based on a 6.1 A cryo-EM map of Saccharomyces cerevisiae translating 80S ribosome. 3IZD is a small part (an expansion segment) which is in an alternative conformation to what is in already 3IZF. | | Descriptor: | rRNA expansion segment ES27L in an "out" conformation | | Authors: | Armache, J.-P, Jarasch, A, Anger, A.M, Villa, E, Becker, T, Bhushan, S, Jossinet, F, Habeck, M, Dindar, G, Franckenberg, S, Marquez, V, Mielke, T, Thomm, M, Berninghausen, O, Beatrix, B, Soeding, J, Westhof, E, Wilson, D.N, Beckmann, R. | | Deposit date: | 2010-10-13 | | Release date: | 2010-12-01 | | Last modified: | 2024-02-21 | | Method: | ELECTRON MICROSCOPY (8.6 Å) | | Cite: | Cryo-EM structure and rRNA model of a translating eukaryotic 80S ribosome at 5.5-A resolution.
Proc.Natl.Acad.Sci.USA, 107, 2010
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8H8X
 | | Cryo-EM structure of HACE1 monomer | | Descriptor: | E3 ubiquitin-protein ligase HACE1 | | Authors: | Singh, S, Machida, S, Tulsian, N.K, Choong, Y.K, Ng, J, Shanker, S, Yaochen, L.D, Shi, J, Sivaraman, J. | | Deposit date: | 2022-10-24 | | Release date: | 2023-06-28 | | Last modified: | 2024-01-10 | | Method: | ELECTRON MICROSCOPY (3.92 Å) | | Cite: | Structural Basis for the Enzymatic Activity of the HACE1 HECT-Type E3 Ligase Through N-Terminal Helix Dimerization.
Adv Sci, 10, 2023
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8HAE
 | | Cryo-EM structure of HACE1 dimer | | Descriptor: | E3 ubiquitin-protein ligase HACE1 | | Authors: | Singh, S, Machida, S, Tulsian, N.K, Choong, Y.K, Ng, J, Shanker, S, Yaochen, L.D, Shi, J, Sivaraman, J, Machida, S. | | Deposit date: | 2022-10-26 | | Release date: | 2023-06-28 | | Last modified: | 2023-10-04 | | Method: | ELECTRON MICROSCOPY (4.55 Å) | | Cite: | Structural Basis for the Enzymatic Activity of the HACE1 HECT-Type E3 Ligase Through N-Terminal Helix Dimerization.
Adv Sci, 10, 2023
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6YQX
 | | Crystal structure of DeNovoTIM13, a de novo designed TIM barrel | | Descriptor: | CHLORIDE ION, GLYCEROL, de novo designed TIM barrel DeNovoTIM13 | | Authors: | Romero-Romero, S, Kordes, S, Shanmugaratnam, S, Fernandez-Velasco, D.A, Hocker, B. | | Deposit date: | 2020-04-18 | | Release date: | 2021-07-21 | | Last modified: | 2024-05-01 | | Method: | X-RAY DIFFRACTION (1.638 Å) | | Cite: | The Stability Landscape of de novo TIM Barrels Explored by a Modular Design Approach.
J.Mol.Biol., 433, 2021
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6YQY
 | | Crystal structure of sTIM11noCys, a de novo designed TIM barrel | | Descriptor: | de novo designed TIM barrel sTIM11noCys | | Authors: | Romero-Romero, S, Wiese, G.J, Kordes, S, Shanmugaratnam, S, Fernandez-Velasco, D.A, Hocker, B. | | Deposit date: | 2020-04-18 | | Release date: | 2021-07-21 | | Last modified: | 2024-01-24 | | Method: | X-RAY DIFFRACTION (1.876 Å) | | Cite: | The Stability Landscape of de novo TIM Barrels Explored by a Modular Design Approach.
J.Mol.Biol., 433, 2021
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6Z2I
 | | Crystal structure of DeNovoTIM6, a de novo designed TIM barrel | | Descriptor: | de novo designed TIM barrel DeNovoTIM6 | | Authors: | Romero-Romero, S, Kordes, S, Shanmugaratnam, S, Rodriguez-Romero, A, Fernandez-Velasco, D.A, Hocker, B. | | Deposit date: | 2020-05-15 | | Release date: | 2021-07-21 | | Last modified: | 2024-05-01 | | Method: | X-RAY DIFFRACTION (2.901 Å) | | Cite: | The Stability Landscape of de novo TIM Barrels Explored by a Modular Design Approach.
J.Mol.Biol., 433, 2021
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7OYY
 | | E.coli's putrescine receptor variant PotF/D (4JDF) with mutation S247D in complex with spermidine | | Descriptor: | 1,2-ETHANEDIOL, CHLORIDE ION, DI(HYDROXYETHYL)ETHER, ... | | Authors: | Kroeger, P, Shanmugaratnam, S, Hocker, B. | | Deposit date: | 2021-06-25 | | Release date: | 2021-12-01 | | Last modified: | 2024-10-16 | | Method: | X-RAY DIFFRACTION (1.36 Å) | | Cite: | Fine-tuning spermidine binding modes in the putrescine binding protein PotF.
J.Biol.Chem., 297, 2021
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8R8O
 | | Hallucinated de novo TIM barrel with three helical extensions - HalluTIM3-1 | | Descriptor: | ACETATE ION, CHLORIDE ION, GLYCEROL, ... | | Authors: | Beck, J, Shanmugaratnam, S, Hocker, B. | | Deposit date: | 2023-11-29 | | Release date: | 2024-05-22 | | Method: | X-RAY DIFFRACTION (2.15 Å) | | Cite: | Diversifying de novo TIM barrels by hallucination.
Protein Sci., 33, 2024
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8R8N
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7LUP
 | | Human TRiC/CCT complex with reovirus outer capsid protein sigma-3 | | Descriptor: | Outer capsid protein sigma-3, T-complex protein 1 subunit alpha, T-complex protein 1 subunit beta, ... | | Authors: | Knowlton, J.J, Gestaut, D, Ma, B, Taylor, G, Seven, A.B, Leitner, A, Wilson, G.J, Shanker, S, Yates, N.A, Prasad, B.V.V, Aebersold, R, Chiu, W, Frydman, J, Dermody, T.S. | | Deposit date: | 2021-02-22 | | Release date: | 2021-03-03 | | Last modified: | 2024-03-06 | | Method: | ELECTRON MICROSCOPY (6.2 Å) | | Cite: | Structural and functional dissection of reovirus capsid folding and assembly by the prefoldin-TRiC/CCT chaperone network.
Proc.Natl.Acad.Sci.USA, 118, 2021
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7LUM
 | | Human TRiC in ATP/AlFx closed state | | Descriptor: | T-complex protein 1 subunit alpha, T-complex protein 1 subunit beta, T-complex protein 1 subunit delta, ... | | Authors: | Knowlton, J.J, Gestaut, D, Ma, B, Taylor, G, Seven, A.B, Leitner, A, Wilson, G.J, Shanker, S, Yates, N.A, Prasad, B.V.V, Aebersold, R, Chiu, W, Frydman, J, Dermody, T.S. | | Deposit date: | 2021-02-22 | | Release date: | 2021-03-03 | | Last modified: | 2024-03-06 | | Method: | ELECTRON MICROSCOPY (4.5 Å) | | Cite: | Structural and functional dissection of reovirus capsid folding and assembly by the prefoldin-TRiC/CCT chaperone network.
Proc.Natl.Acad.Sci.USA, 118, 2021
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2WWA
 | | Cryo-EM structure of idle yeast Ssh1 complex bound to the yeast 80S ribosome | | Descriptor: | 25S RRNA, 60S RIBOSOMAL PROTEIN L17-A, 60S RIBOSOMAL PROTEIN L19, ... | | Authors: | Becker, T, Mandon, E, Bhushan, S, Jarasch, A, Armache, J.P, Funes, S, Jossinet, F, Gumbart, J, Mielke, T, Berninghausen, O, Schulten, K, Westhof, E, Gilmore, R, Beckmann, R. | | Deposit date: | 2009-10-22 | | Release date: | 2009-12-08 | | Last modified: | 2024-05-08 | | Method: | ELECTRON MICROSCOPY (8.9 Å) | | Cite: | Structure of Monomeric Yeast and Mammalian Sec61 Complexes Interacting with the Translating Ribosome.
Science, 326, 2009
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2WW9
 | | Cryo-EM structure of the active yeast Ssh1 complex bound to the yeast 80S ribosome | | Descriptor: | 25S RRNA, 60S RIBOSOMAL PROTEIN L17-A, 60S RIBOSOMAL PROTEIN L19, ... | | Authors: | Becker, T, Mandon, E, Bhushan, S, Jarasch, A, Armache, J.P, Funes, S, Jossinet, F, Gumbart, J, Mielke, T, Berninghausen, O, Schulten, K, Westhof, E, Gilmore, R, Beckmann, R. | | Deposit date: | 2009-10-22 | | Release date: | 2009-12-08 | | Last modified: | 2024-05-08 | | Method: | ELECTRON MICROSCOPY (8.6 Å) | | Cite: | Structure of Monomeric Yeast and Mammalian Sec61 Complexes Interacting with the Translating Ribosome.
Science, 326, 2009
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8AT0
 | | PotF with mutation D247K | | Descriptor: | (2R)-1-methoxypropan-2-amine, (2~{S})-1-(2-methoxyethoxy)propan-2-amine, 1,2-ETHANEDIOL, ... | | Authors: | Kroeger, P, Shanmugaratnam, S, Hocker, B. | | Deposit date: | 2022-08-22 | | Release date: | 2024-03-06 | | Last modified: | 2024-10-16 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | A fluorescent biosensor for the visualization of Agmatine
To Be Published
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8ASZ
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2WWB
 | | CRYO-EM STRUCTURE OF THE MAMMALIAN SEC61 COMPLEX BOUND TO THE ACTIVELY TRANSLATING WHEAT GERM 80S RIBOSOME | | Descriptor: | 25S RRNA, 5.8S RRNA, 60S RIBOSOMAL PROTEIN L17-A, ... | | Authors: | Becker, T, Mandon, E, Bhushan, S, Jarasch, A, Armache, J.P, Funes, S, Jossinet, F, Gumbart, J, Mielke, T, Berninghausen, O, Schulten, K, Westhof, E, Gilmore, R, Beckmann, R. | | Deposit date: | 2009-10-22 | | Release date: | 2009-12-08 | | Last modified: | 2024-05-08 | | Method: | ELECTRON MICROSCOPY (6.48 Å) | | Cite: | Structure of Monomeric Yeast and Mammalian Sec61 Complexes Interacting with the Translating Ribosome.
Science, 326, 2009
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6SLD
 | | Structure of the Phosphatidylcholine Binding Mutant of Yeast Sec14 Homolog Sfh1 (S175I,T177I) in Complex with Phosphatidylinositol | | Descriptor: | (1R)-2-{[(S)-hydroxy{[(1S,2R,3R,4S,5S,6R)-2,3,4,5,6-pentahydroxycyclohexyl]oxy}phosphoryl]oxy}-1-[(octadecanoyloxy)methyl]ethyl (9Z)-octadec-9-enoate, CRAL-TRIO domain-containing protein YKL091C | | Authors: | Berger, J, Fitz, M, Johnen, P, Shanmugaratnam, S, Hocker, B, Stiel, A.C, Schaaf, G. | | Deposit date: | 2019-08-19 | | Release date: | 2020-08-19 | | Last modified: | 2024-05-15 | | Method: | X-RAY DIFFRACTION (1.4 Å) | | Cite: | Structure of the Phosphatidylcholine Binding Mutant of Yeast Sec14 Homolog Sfh1 (S175I,T177I) in Complex with Phosphatidylinositol
To Be Published
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3JYI
 | | Structural and biochemical evidence that a TEM-1 {beta}-lactamase Asn170Gly active site mutant acts via substrate-assisted catalysis | | Descriptor: | 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID, Beta-lactamase TEM, PHOSPHATE ION | | Authors: | Brown, N.G, Palzkill, T.G, Prasad, B.V.V, Shanker, S. | | Deposit date: | 2009-09-21 | | Release date: | 2009-10-06 | | Last modified: | 2023-09-06 | | Method: | X-RAY DIFFRACTION (2.703 Å) | | Cite: | Structural and biochemical evidence that a TEM-1 beta-lactamase N170G active site mutant acts via substrate-assisted catalysis
J.Biol.Chem., 284, 2009
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5ZEU
 | | M. smegmatis P/P state 30S ribosomal subunit | | Descriptor: | 16S rRNA, 30S ribosomal protein S10, 30S ribosomal protein S11, ... | | Authors: | Mishra, S, Ahmed, T, Tyagi, A, Shi, J, Bhushan, S. | | Deposit date: | 2018-02-28 | | Release date: | 2018-09-26 | | Last modified: | 2019-11-06 | | Method: | ELECTRON MICROSCOPY (3.7 Å) | | Cite: | Structures of Mycobacterium smegmatis 70S ribosomes in complex with HPF, tmRNA, and P-tRNA.
Sci Rep, 8, 2018
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1T60
 | | Crystal structure of Type IV collagen NC1 domain from bovine lens capsule | | Descriptor: | (4S)-2-METHYL-2,4-PENTANEDIOL, CHLORIDE ION, POTASSIUM ION, ... | | Authors: | Vanacore, R.M, Shanmugasundararaj, S, Friedman, D.B, Bondar, O, Hudson, B.G, Sundaramoorthy, M. | | Deposit date: | 2004-05-05 | | Release date: | 2004-09-21 | | Last modified: | 2023-08-23 | | Method: | X-RAY DIFFRACTION (1.5 Å) | | Cite: | The alpha1.alpha2 network of collagen IV. Reinforced stabilization of the noncollagenous domain-1 by noncovalent forces and the absence of Met-Lys cross-links
J.Biol.Chem., 279, 2004
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