7KPX
| Structure of the yeast CKM | Descriptor: | Mediator of RNA polymerase II transcription subunit 12, Mediator of RNA polymerase II transcription subunit 13, Meiotic mRNA stability protein kinase SSN3, ... | Authors: | Li, Y.C, Chao, T.C, Kim, H.J, Cholko, T, Chen, S.F, Nakanishi, K, Chang, C.E, Murakami, K, Garcia, B.A, Boyer, T.G, Tsai, K.L. | Deposit date: | 2020-11-12 | Release date: | 2021-01-27 | Last modified: | 2024-03-06 | Method: | ELECTRON MICROSCOPY (4.4 Å) | Cite: | Structure and noncanonical Cdk8 activation mechanism within an Argonaute-containing Mediator kinase module. Sci Adv, 7, 2021
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7KPV
| Structure of kinase and Central lobes of yeast CKM | Descriptor: | Mediator of RNA polymerase II transcription subunit 12, Mediator of RNA polymerase II transcription subunit 13, Meiotic mRNA stability protein kinase SSN3, ... | Authors: | Li, Y.C, Chao, T.C, Kim, H.J, Cholko, T, Chen, S.F, Nakanishi, K, Chang, C.E, Murakami, K, Garcia, B.A, Boyer, T.G, Tsai, K.L. | Deposit date: | 2020-11-12 | Release date: | 2021-01-27 | Last modified: | 2024-03-06 | Method: | ELECTRON MICROSCOPY (3.8 Å) | Cite: | Structure and noncanonical Cdk8 activation mechanism within an Argonaute-containing Mediator kinase module. Sci Adv, 7, 2021
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6XKW
| R. capsulatus CIII2CIV bipartite super-complex (SC-2A) with CcoH/cy | Descriptor: | COPPER (II) ION, Cbb3-type cytochrome c oxidase subunit CcoP, Cytochrome b, ... | Authors: | Steimle, S, Van Eeuwen, T, Ozturk, Y, Kim, H.J, Braitbard, M, Selamoglu, N, Garcia, B.A, Schneidman-Duhovny, D, Murakami, K, Daldal, F. | Deposit date: | 2020-06-27 | Release date: | 2020-12-30 | Last modified: | 2021-03-03 | Method: | ELECTRON MICROSCOPY (5.2 Å) | Cite: | Cryo-EM structures of engineered active bc 1 -cbb 3 type CIII 2 CIV super-complexes and electronic communication between the complexes. Nat Commun, 12, 2021
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6XKT
| R. capsulatus cyt bc1 with both FeS proteins in c position (CIII2 c-c) | Descriptor: | Cytochrome b, Cytochrome c1, FE2/S2 (INORGANIC) CLUSTER, ... | Authors: | Steimle, S, Van Eeuwen, T, Ozturk, Y, Kim, H.J, Braitbard, M, Selamoglu, N, Garcia, B.A, Schneidman-Duhovny, D, Murakami, K, Daldal, F. | Deposit date: | 2020-06-27 | Release date: | 2020-12-30 | Last modified: | 2021-03-03 | Method: | ELECTRON MICROSCOPY (3.75 Å) | Cite: | Cryo-EM structures of engineered active bc 1 -cbb 3 type CIII 2 CIV super-complexes and electronic communication between the complexes. Nat Commun, 12, 2021
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6XKX
| R. capsulatus CIII2CIV tripartite super-complex, conformation A (SC-1A) | Descriptor: | COPPER (II) ION, Cbb3-type cytochrome c oxidase subunit CcoP,Cytochrome c-type cyt cy, Cytochrome b, ... | Authors: | Steimle, S, Van Eeuwen, T, Ozturk, Y, Kim, H.J, Braitbard, M, Selamoglu, N, Garcia, B.A, Schneidman-Duhovny, D, Murakami, K, Daldal, F. | Deposit date: | 2020-06-27 | Release date: | 2020-12-30 | Last modified: | 2021-03-03 | Method: | ELECTRON MICROSCOPY (6.1 Å) | Cite: | Cryo-EM structures of engineered active bc 1 -cbb 3 type CIII 2 CIV super-complexes and electronic communication between the complexes. Nat Commun, 12, 2021
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7ML0
| RNA polymerase II pre-initiation complex (PIC1) | Descriptor: | BJ4_G0050160.mRNA.1.CDS.1, DNA-directed RNA polymerase II subunit RPB11, DNA-directed RNA polymerase II subunit RPB3, ... | Authors: | Yang, C, Fujiwara, R, Kim, H.J, Gorbea Colon, J.J, Steimle, S, Garcia, B.A, Murakami, K. | Deposit date: | 2021-04-27 | Release date: | 2022-02-02 | Last modified: | 2022-02-16 | Method: | ELECTRON MICROSCOPY (3 Å) | Cite: | Structural visualization of de novo transcription initiation by Saccharomyces cerevisiae RNA polymerase II. Mol.Cell, 82, 2022
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7ML1
| RNA polymerase II pre-initiation complex (PIC2) | Descriptor: | BJ4_G0050160.mRNA.1.CDS.1, DNA-directed RNA polymerase II subunit RPB11, DNA-directed RNA polymerase II subunit RPB3, ... | Authors: | Yang, C, Fujiwara, R, Kim, H.J, Gorbea Colon, J.J, Steimle, S, Garcia, B.A, Murakami, K. | Deposit date: | 2021-04-27 | Release date: | 2022-02-02 | Last modified: | 2022-02-16 | Method: | ELECTRON MICROSCOPY (4 Å) | Cite: | Structural visualization of de novo transcription initiation by Saccharomyces cerevisiae RNA polymerase II. Mol.Cell, 82, 2022
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7ML3
| General transcription factor TFIIH (weak binding) | Descriptor: | BJ4_G0050160.mRNA.1.CDS.1, General transcription and DNA repair factor IIH, General transcription and DNA repair factor IIH helicase subunit XPB, ... | Authors: | Yang, C, Fujiwara, R, Kim, H.J, Gorbea Colon, J.J, Steimle, S, Garcia, B.A, Murakami, K. | Deposit date: | 2021-04-27 | Release date: | 2022-02-02 | Last modified: | 2022-02-16 | Method: | ELECTRON MICROSCOPY (7.6 Å) | Cite: | Structural visualization of de novo transcription initiation by Saccharomyces cerevisiae RNA polymerase II. Mol.Cell, 82, 2022
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7ML4
| RNA polymerase II initially transcribing complex (ITC) | Descriptor: | BJ4_G0050160.mRNA.1.CDS.1, DNA-directed RNA polymerase II subunit RPB11, DNA-directed RNA polymerase II subunit RPB3, ... | Authors: | Yang, C, Fujiwara, R, Kim, H.J, Gorbea Colon, J.J, Steimle, S, Garcia, B.A, Murakami, K. | Deposit date: | 2021-04-27 | Release date: | 2022-02-02 | Last modified: | 2022-03-09 | Method: | ELECTRON MICROSCOPY (3.1 Å) | Cite: | Structural visualization of de novo transcription initiation by Saccharomyces cerevisiae RNA polymerase II. Mol.Cell, 82, 2022
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7ML2
| RNA polymerase II pre-initiation complex (PIC3) | Descriptor: | BJ4_G0004860.mRNA.1.CDS.1, BJ4_G0050160.mRNA.1.CDS.1, DNA-directed RNA polymerase II subunit RPB11, ... | Authors: | Yang, C, Fujiwara, R, Kim, H.J, Gorbea Colon, J.J, Steimle, S, Garcia, B.A, Murakami, K. | Deposit date: | 2021-04-27 | Release date: | 2022-02-02 | Last modified: | 2022-02-16 | Method: | ELECTRON MICROSCOPY (3.4 Å) | Cite: | Structural visualization of de novo transcription initiation by Saccharomyces cerevisiae RNA polymerase II. Mol.Cell, 82, 2022
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8I9M
| The RAGE and HMGB1 complex | Descriptor: | Advanced glycosylation end product-specific receptor, High mobility group protein B1 | Authors: | Han, C.W, Kim, H.J. | Deposit date: | 2023-02-07 | Release date: | 2024-02-14 | Method: | ELECTRON MICROSCOPY (5.19 Å) | Cite: | The RAGE and HMGB1 complex To Be Published
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3RYO
| Crystal Structure of Enhanced Intracellular Survival (Eis) Protein from Mycobacterium tuberculosis with Acetyl CoA | Descriptor: | ACETYL COENZYME *A, Enhanced intracellular survival protein | Authors: | Kim, K.H, An, D.R, Yoon, J.Y, Kim, H.S, Yoon, H.J, Song, J, Im, H.N, Kim, J, Kim, D.J, Lee, S.J, Kim, H.J, Lee, J.Y, Suh, S.W. | Deposit date: | 2011-05-11 | Release date: | 2012-05-23 | Method: | X-RAY DIFFRACTION (2.8 Å) | Cite: | Mycobacterium tuberculosis Eis protein initiates suppression of host immune responses by acetylation of DUSP16/MKP-7 Proc.Natl.Acad.Sci.USA, 2012
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3SXN
| Mycobacterium tuberculosis Eis protein initiates modulation of host immune responses by acetylation of DUSP16/MKP-7 | Descriptor: | COENZYME A, Enhanced intracellular survival protein | Authors: | Kim, K.H, An, D.R, Yoon, J.Y, Kim, H.S, Yoon, H.J, Song, J.S, Im, H.N, Kim, J, Kim, D.J, Lee, S.J, Kim, H.J, Lee, J.Y, Suh, S.W. | Deposit date: | 2011-07-15 | Release date: | 2012-05-23 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (2.03 Å) | Cite: | Mycobacterium tuberculosis Eis protein initiates suppression of host immune responses by acetylation of DUSP16/MKP-7 Proc.Natl.Acad.Sci.USA, 109, 2012
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3SXO
| Mycobacterium tuberculosis Eis protein initiates modulation of host immune responses by acetylation of DUSP16/MKP-7 | Descriptor: | Enhanced intracellular survival protein | Authors: | Kim, K.H, An, D.R, Yoon, J.Y, Kim, H.S, Yoon, H.J, Song, J.S, Im, H.N, Kim, J, Kim, D.J, Lee, S.J, Kim, H.J, Lee, J.Y, Suh, S.W. | Deposit date: | 2011-07-15 | Release date: | 2012-07-25 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (2.5 Å) | Cite: | Mycobacterium tuberculosis Eis protein initiates modulation of host immune responses by acetylation of DUSP16/MKP-7 To be Published
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4ZZ7
| Crystal structure of methylmalonate-semialdehyde dehydrogenase (DddC) from Oceanimonas doudoroffii | Descriptor: | Methylmalonate-semialdehyde dehydrogenase, NICOTINAMIDE-ADENINE-DINUCLEOTIDE | Authors: | Do, H, Lee, C.W, Lee, S.G, Kang, H, Park, C.M, Kim, H.J, Park, H, Park, H, Lee, J.H. | Deposit date: | 2015-05-22 | Release date: | 2016-04-06 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (2.9 Å) | Cite: | Crystal structure and modeling of the tetrahedral intermediate state of methylmalonate-semialdehyde dehydrogenase (MMSDH) from Oceanimonas doudoroffii. J. Microbiol., 54, 2016
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3X2Y
| Crystal structure of metallo-beta-lactamase H8A from Thermotoga maritima | Descriptor: | NICKEL (II) ION, UPF0173 metal-dependent hydrolase TM_1162 | Authors: | Choi, H.J, Kim, H.J, Matsuura, A, Mikami, B, Yoon, H.J, Lee, H.H. | Deposit date: | 2015-01-07 | Release date: | 2016-02-17 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (2.67 Å) | Cite: | Crystal structure of metallo-beta-lactamase H8A from Thermotoga maritima To be Published
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3X30
| Crystal structure of metallo-beta-lactamase from Thermotoga maritima | Descriptor: | MANGANESE (II) ION, NICKEL (II) ION, UPF0173 metal-dependent hydrolase TM_1162 | Authors: | Choi, H.J, Kim, H.J, Matsuura, A, Mikami, B, Yoon, H.J, Lee, H.H. | Deposit date: | 2015-01-07 | Release date: | 2016-02-17 | Method: | X-RAY DIFFRACTION (1.921 Å) | Cite: | Crystal structure of metallo-beta-lactamase from Thermotoga maritima To be Published
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3X2X
| Crystal structure of metallo-beta-lactamase H48A from Thermotoga maritima | Descriptor: | MANGANESE (II) ION, UPF0173 metal-dependent hydrolase TM_1162 | Authors: | Choi, H.J, Kim, H.J, Matsuura, A, Mikami, B, Yoon, H.J, Lee, H.H. | Deposit date: | 2015-01-07 | Release date: | 2016-02-17 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (3.42 Å) | Cite: | Crystal structure of metallo-beta-lactamase H48A from Thermotoga maritima To be Published
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3X2Z
| Crystal structure of metallo-beta-lactamase in complex with nickel from Thermotoga maritima | Descriptor: | NICKEL (II) ION, UPF0173 metal-dependent hydrolase TM_1162 | Authors: | Choi, H.J, Kim, H.J, Matsuura, A, Mikami, B, Yoon, H.J, Lee, H.H. | Deposit date: | 2015-01-07 | Release date: | 2016-02-17 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (2.33 Å) | Cite: | Crystal structure of metallo-beta-lactamase in complex with nickel from Thermotoga maritima To be Published
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2HK0
| Crystal structure of D-psicose 3-epimerase (DPEase) in the absence of substrate | Descriptor: | D-PSICOSE 3-EPIMERASE | Authors: | Kim, K, Kim, H.J, Oh, D.K, Cha, S.S, Rhee, S. | Deposit date: | 2006-07-03 | Release date: | 2006-08-29 | Last modified: | 2017-10-18 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Crystal Structure of d-Psicose 3-epimerase from Agrobacterium tumefaciens and its Complex with True Substrate d-Fructose: A Pivotal Role of Metal in Catalysis, an Active Site for the Non-phosphorylated Substrate, and its Conformational Changes J.Mol.Biol., 361, 2006
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2HK1
| Crystal structure of D-psicose 3-epimerase (DPEase) in the presence of D-fructose | Descriptor: | D-PSICOSE 3-EPIMERASE, D-fructose, MANGANESE (II) ION | Authors: | Kim, K, Kim, H.J, Oh, D.K, Cha, S.S, Rhee, S. | Deposit date: | 2006-07-03 | Release date: | 2006-08-29 | Last modified: | 2017-10-18 | Method: | X-RAY DIFFRACTION (2.3 Å) | Cite: | Crystal Structure of d-Psicose 3-epimerase from Agrobacterium tumefaciens and its Complex with True Substrate d-Fructose: A Pivotal Role of Metal in Catalysis, an Active Site for the Non-phosphorylated Substrate, and its Conformational Changes J.Mol.Biol., 361, 2006
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4J4L
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1PVE
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3UYU
| Structural basis for the antifreeze activity of an ice-binding protein (LeIBP) from Arctic yeast | Descriptor: | Antifreeze protein, GLYCEROL | Authors: | Lee, J.H, Park, A.K, Do, H, Park, K.S, Moh, S.H, Chi, Y.M, Kim, H.J. | Deposit date: | 2011-12-06 | Release date: | 2012-02-15 | Method: | X-RAY DIFFRACTION (1.57 Å) | Cite: | Structural basis for the antifreeze activity of an ice-binding protein from an Arctic yeast. J.Biol.Chem., 2012
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3UYV
| Crystal structure of a glycosylated ice-binding protein (LeIBP) from Arctic yeast | Descriptor: | Antifreeze protein, alpha-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | Authors: | Lee, J.H, Park, A.K, Do, H, Park, K.S, Moh, S.H, Chi, Y.M, Kim, H.J. | Deposit date: | 2011-12-06 | Release date: | 2012-02-29 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2.43 Å) | Cite: | Structural basis for the antifreeze activity of an ice-binding protein from an Arctic yeast. J.Biol.Chem., 2012
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