2DEO
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3ABL
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![BU of 3abl by Molmil](/molmil-images/mine/3abl) | Bovine heart cytochrome c oxidase at the fully oxidized state (15-s X-ray exposure dataset) | Descriptor: | (1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL (11E)-OCTADEC-11-ENOATE, (1S)-2-{[(2-AMINOETHOXY)(HYDROXY)PHOSPHORYL]OXY}-1-[(STEAROYLOXY)METHYL]ETHYL (5E,8E,11E,14E)-ICOSA-5,8,11,14-TETRAENOATE, (7R,17E,20E)-4-HYDROXY-N,N,N-TRIMETHYL-9-OXO-7-[(PALMITOYLOXY)METHYL]-3,5,8-TRIOXA-4-PHOSPHAHEXACOSA-17,20-DIEN-1-AMINIUM 4-OXIDE, ... | Authors: | Aoyama, H, Muramoto, K, Shinzawa-Itoh, K, Yamashita, E, Tsukihara, T, Ogura, T, Yoshikawa, S. | Deposit date: | 2009-12-16 | Release date: | 2010-01-19 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (2.1 Å) | Cite: | A peroxide bridge between Fe and Cu ions in the O2 reduction site of fully oxidized cytochrome c oxidase could suppress the proton pump Proc.Natl.Acad.Sci.USA, 106, 2009
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3ABM
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![BU of 3abm by Molmil](/molmil-images/mine/3abm) | Bovine heart cytochrome c oxidase at the fully oxidized state (200-s X-ray exposure dataset) | Descriptor: | (1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL (11E)-OCTADEC-11-ENOATE, (1S)-2-{[(2-AMINOETHOXY)(HYDROXY)PHOSPHORYL]OXY}-1-[(STEAROYLOXY)METHYL]ETHYL (5E,8E,11E,14E)-ICOSA-5,8,11,14-TETRAENOATE, (7R,17E,20E)-4-HYDROXY-N,N,N-TRIMETHYL-9-OXO-7-[(PALMITOYLOXY)METHYL]-3,5,8-TRIOXA-4-PHOSPHAHEXACOSA-17,20-DIEN-1-AMINIUM 4-OXIDE, ... | Authors: | Aoyama, H, Muramoto, K, Shinzawa-Itoh, K, Yamashita, E, Tsukihara, T, Ogura, T, Yoshikawa, S. | Deposit date: | 2009-12-16 | Release date: | 2010-01-19 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (1.95 Å) | Cite: | A peroxide bridge between Fe and Cu ions in the O2 reduction site of fully oxidized cytochrome c oxidase could suppress the proton pump Proc.Natl.Acad.Sci.USA, 106, 2009
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2ZXW
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![BU of 2zxw by Molmil](/molmil-images/mine/2zxw) | Bovine heart cytochrome c oxidase at the fully oxidized state (1-s X-ray exposure dataset) | Descriptor: | (1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL (11E)-OCTADEC-11-ENOATE, (1S)-2-{[(2-AMINOETHOXY)(HYDROXY)PHOSPHORYL]OXY}-1-[(STEAROYLOXY)METHYL]ETHYL (5E,8E,11E,14E)-ICOSA-5,8,11,14-TETRAENOATE, (7R,17E,20E)-4-HYDROXY-N,N,N-TRIMETHYL-9-OXO-7-[(PALMITOYLOXY)METHYL]-3,5,8-TRIOXA-4-PHOSPHAHEXACOSA-17,20-DIEN-1-AMINIUM 4-OXIDE, ... | Authors: | Aoyama, H, Muramoto, K, Shinzawa-Itoh, K, Hirata, K, Yamashita, E, Tsukihara, T, Ogura, T, Yoshikawa, S. | Deposit date: | 2009-01-08 | Release date: | 2009-02-24 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (2.5 Å) | Cite: | A peroxide bridge between Fe and Cu ions in the O2 reduction site of fully oxidized cytochrome c oxidase could suppress the proton pump Proc.Natl.Acad.Sci.USA, 106, 2009
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6LBW
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7L7B
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![BU of 7l7b by Molmil](/molmil-images/mine/7l7b) | Clostridioides difficile RNAP with fidaxomicin | Descriptor: | DNA-directed RNA polymerase subunit alpha, DNA-directed RNA polymerase subunit beta, DNA-directed RNA polymerase subunit beta', ... | Authors: | Boyaci, H, Campbell, E.A, Darst, S.A, Chen, J. | Deposit date: | 2020-12-28 | Release date: | 2022-02-02 | Last modified: | 2024-05-29 | Method: | ELECTRON MICROSCOPY (3.26 Å) | Cite: | Basis of narrow-spectrum activity of fidaxomicin on Clostridioides difficile. Nature, 604, 2022
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3O59
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8HU5
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![BU of 8hu5 by Molmil](/molmil-images/mine/8hu5) | Crystal structure of DNA octamer containing GuNA[Me,tBu] | Descriptor: | DNA (5'-D(*GP*(LR6)P*GP*(BRU)P*AP*CP*AP*C)-3') | Authors: | Aoyama, H, Obika, H, Yamaguchi, T. | Deposit date: | 2022-12-22 | Release date: | 2023-08-09 | Last modified: | 2023-09-06 | Method: | X-RAY DIFFRACTION (0.93 Å) | Cite: | Mechanism of the extremely high duplex-forming ability of oligonucleotides modified with N-tert-butylguanidine- or N-tert-butyl-N'- methylguanidine-bridged nucleic acids. Nucleic Acids Res., 51, 2023
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8HIS
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![BU of 8his by Molmil](/molmil-images/mine/8his) | Crystal structure of DNA decamer containing GuNA[Me,tBu] | Descriptor: | CACODYLIC ACID, DNA (5'-D(*GP*CP*GP*TP*AP*(LR6)P*AP*CP*GP*C)-3') | Authors: | Aoyama, H, Obika, S, Yamaguchi, T. | Deposit date: | 2022-11-21 | Release date: | 2023-08-09 | Last modified: | 2023-09-06 | Method: | X-RAY DIFFRACTION (2.01 Å) | Cite: | Mechanism of the extremely high duplex-forming ability of oligonucleotides modified with N-tert-butylguanidine- or N-tert-butyl-N'- methylguanidine-bridged nucleic acids. Nucleic Acids Res., 51, 2023
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8I50
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![BU of 8i50 by Molmil](/molmil-images/mine/8i50) | Crystal structure of DNA octamer containing GuNA[Me,Me] | Descriptor: | DNA (5'-D(*GP*(OIQ)P*GP*(BRU)P*AP*CP*AP*C)-3') | Authors: | Aoyama, H, Obika, S, Yamaguchi, T. | Deposit date: | 2023-01-21 | Release date: | 2023-08-09 | Last modified: | 2023-09-06 | Method: | X-RAY DIFFRACTION (0.95 Å) | Cite: | Mechanism of the extremely high duplex-forming ability of oligonucleotides modified with N-tert-butylguanidine- or N-tert-butyl-N'- methylguanidine-bridged nucleic acids. Nucleic Acids Res., 51, 2023
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7VCG
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3AMO
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![BU of 3amo by Molmil](/molmil-images/mine/3amo) | Time-resolved X-ray Crystal Structure Analysis of Enzymatic Reaction of Copper Amine Oxidase from Arthrobacter globiformis | Descriptor: | COPPER (II) ION, GLYCEROL, Phenylethylamine oxidase, ... | Authors: | Kataoka, M, Oya, H, Tominaga, A, Otsu, M, Okajima, T, Tanizawa, K, Yamaguchi, H. | Deposit date: | 2010-08-20 | Release date: | 2011-11-23 | Last modified: | 2017-10-11 | Method: | X-RAY DIFFRACTION (2.1 Å) | Cite: | Detection of the reaction intermediates catalyzed by a copper amine oxidase. J.SYNCHROTRON RADIAT., 18, 2011
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2RU3
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![BU of 2ru3 by Molmil](/molmil-images/mine/2ru3) | Solution structure of c.elegans SUP-12 RRM in complex with RNA | Descriptor: | Protein SUP-12, isoform a, RNA (5'-R(*GP*UP*GP*UP*GP*C)-3') | Authors: | Takahashi, M, Kuwasako, K, Unzai, S, Tsuda, K, Yoshikawa, S, He, F, Kobayashi, N, Guntert, P, Shirouzu, M, Ito, T, Tanaka, A, Yokoyama, S, Hagiwara, M, Kuroyanagi, H, Muto, Y. | Deposit date: | 2013-11-12 | Release date: | 2014-08-13 | Last modified: | 2024-05-15 | Method: | SOLUTION NMR | Cite: | RBFOX and SUP-12 sandwich a G base to cooperatively regulate tissue-specific splicing Nat.Struct.Mol.Biol., 21, 2014
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8HFH
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![BU of 8hfh by Molmil](/molmil-images/mine/8hfh) | CENP-E motor domain in complex with AMPPNP and Mg2+ | Descriptor: | Centromere-associated protein E, IMIDAZOLE, MAGNESIUM ION, ... | Authors: | Shibuya, A, Yokoyama, H. | Deposit date: | 2022-11-10 | Release date: | 2023-03-08 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Crystal structure of the motor domain of centromere-associated protein E in complex with a non-hydrolysable ATP analogue. Febs Lett., 597, 2023
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1OCC
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![BU of 1occ by Molmil](/molmil-images/mine/1occ) | STRUCTURE OF BOVINE HEART CYTOCHROME C OXIDASE AT THE FULLY OXIDIZED STATE | Descriptor: | COPPER (II) ION, CYTOCHROME C OXIDASE, HEME-A, ... | Authors: | Tsukihara, T, Aoyama, H, Yamashita, E, Tomizaki, T, Yamaguchi, H, Shinzawa-Itoh, K, Nakashima, R, Yaono, R, Yoshikawa, S. | Deposit date: | 1996-04-18 | Release date: | 1996-12-07 | Last modified: | 2018-03-21 | Method: | X-RAY DIFFRACTION (2.8 Å) | Cite: | The whole structure of the 13-subunit oxidized cytochrome c oxidase at 2.8 A. Science, 272, 1996
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6VVZ
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![BU of 6vvz by Molmil](/molmil-images/mine/6vvz) | Mycobacterium tuberculosis RNAP S456L mutant transcription initiation intermediate structure with Sorangicin | Descriptor: | DNA (62-MER), DNA (65-MER), DNA-directed RNA polymerase subunit alpha, ... | Authors: | Lilic, M, Boyaci, H, Chen, J, Darst, S.A, Campbell, E.A. | Deposit date: | 2020-02-18 | Release date: | 2020-10-21 | Last modified: | 2024-03-06 | Method: | ELECTRON MICROSCOPY (3.72 Å) | Cite: | The antibiotic sorangicin A inhibits promoter DNA unwinding in a Mycobacterium tuberculosis rifampicin-resistant RNA polymerase. Proc.Natl.Acad.Sci.USA, 117, 2020
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6VVX
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![BU of 6vvx by Molmil](/molmil-images/mine/6vvx) | Mycobacterium tuberculosis WT RNAP transcription initiation intermediate structure with Sorangicin | Descriptor: | DNA (63-MER), DNA (65-MER), DNA-directed RNA polymerase subunit alpha, ... | Authors: | Lilic, M, Boyaci, H, Chen, J, Campbell, E.A, Darst, S.A. | Deposit date: | 2020-02-18 | Release date: | 2020-10-21 | Last modified: | 2024-03-06 | Method: | ELECTRON MICROSCOPY (3.39 Å) | Cite: | The antibiotic sorangicin A inhibits promoter DNA unwinding in a Mycobacterium tuberculosis rifampicin-resistant RNA polymerase. Proc.Natl.Acad.Sci.USA, 117, 2020
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6VW0
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![BU of 6vw0 by Molmil](/molmil-images/mine/6vw0) | Mycobacterium tuberculosis RNAP S456L mutant open promoter complex | Descriptor: | DNA (65-MER), DNA-directed RNA polymerase subunit alpha, DNA-directed RNA polymerase subunit beta, ... | Authors: | Lilic, M, Boyaci, H, Chen, J, Darst, S.A, Campbell, E.A. | Deposit date: | 2020-02-18 | Release date: | 2020-10-21 | Last modified: | 2024-03-06 | Method: | ELECTRON MICROSCOPY (3.59 Å) | Cite: | The antibiotic sorangicin A inhibits promoter DNA unwinding in a Mycobacterium tuberculosis rifampicin-resistant RNA polymerase. Proc.Natl.Acad.Sci.USA, 117, 2020
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6VVY
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![BU of 6vvy by Molmil](/molmil-images/mine/6vvy) | Mycobacterium tuberculosis WT RNAP transcription open promoter complex with Sorangicin | Descriptor: | DNA (65-MER), DNA-directed RNA polymerase subunit alpha, DNA-directed RNA polymerase subunit beta, ... | Authors: | Lilic, M, Boyaci, H, Chen, J, Darst, S.A, Campbell, E.A. | Deposit date: | 2020-02-18 | Release date: | 2020-10-21 | Last modified: | 2024-03-06 | Method: | ELECTRON MICROSCOPY (3.42 Å) | Cite: | The antibiotic sorangicin A inhibits promoter DNA unwinding in a Mycobacterium tuberculosis rifampicin-resistant RNA polymerase. Proc.Natl.Acad.Sci.USA, 117, 2020
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8GN9
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![BU of 8gn9 by Molmil](/molmil-images/mine/8gn9) | SPFH domain of Pyrococcus horikoshii stomatin | Descriptor: | SODIUM ION, Stomatin homolog PH1511 | Authors: | Komatsu, T, Matsui, I, Yokoyama, H. | Deposit date: | 2022-08-23 | Release date: | 2022-12-07 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (2.5 Å) | Cite: | Structural and mutational studies suggest key residues to determine whether stomatin SPFH domains form dimers or trimers. Biochem Biophys Rep, 32, 2022
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2MGZ
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![BU of 2mgz by Molmil](/molmil-images/mine/2mgz) | Solution structure of RBFOX family ASD-1 RRM and SUP-12 RRM in ternary complex with RNA | Descriptor: | Protein ASD-1, isoform a, Protein SUP-12, ... | Authors: | Takahashi, M, Kuwasako, K, Unzai, S, Tsuda, K, Yoshikawa, S, He, F, Kobayashi, N, Guntert, P, Shirouzu, M, Ito, T, Tanaka, A, Yokoyama, S, Hagiwara, M, Kuroyanagi, H, Muto, Y. | Deposit date: | 2013-11-12 | Release date: | 2014-08-13 | Last modified: | 2024-05-01 | Method: | SOLUTION NMR | Cite: | RBFOX and SUP-12 sandwich a G base to cooperatively regulate tissue-specific splicing Nat.Struct.Mol.Biol., 21, 2014
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8WZR
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![BU of 8wzr by Molmil](/molmil-images/mine/8wzr) | SFX structure of an Mn-carbonyl complex immobilized in hen egg white lysozyme microcrystals, 100 ns after photoexcitation at RT. | Descriptor: | CHLORIDE ION, Lysozyme C, SODIUM ION, ... | Authors: | Maity, B, Shoji, M, Luo, F, Nakane, T, Abe, S, Owada, S, Kang, J, Tono, K, Tanaka, R, Thuc, T.T, Kojima, M, Hishikawa, Y, Tanaka, J, Tian, J, Noya, H, Nakasuji, Y, Asanuma, A, Yao, X, Iwata, S, Shigeta, Y, Nango, E, Ueno, T. | Deposit date: | 2023-11-02 | Release date: | 2024-09-04 | Method: | X-RAY DIFFRACTION (1.6 Å) | Cite: | Real-time observation of a metal complex-driven reaction intermediate using a porous protein crystal and serial femtosecond crystallography. Nat Commun, 15, 2024
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6M9C
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![BU of 6m9c by Molmil](/molmil-images/mine/6m9c) | PSEUDOMONAS SERINE-CARBOXYL PROTEINASE (SEDOLISIN) COMPLEXED WITH THE INHIBITOR Pseudotyrostatin | Descriptor: | ACETIC ACID, CALCIUM ION, Pseudotyrostatin, ... | Authors: | Wlodawer, A, Li, M, Gustchina, A, Dauter, Z, Uchida, K, Oyama, H, Goldfarb, N.E, Dunn, B.M, Oda, K. | Deposit date: | 2018-08-23 | Release date: | 2018-10-24 | Last modified: | 2024-07-10 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Inhibitor complexes of the Pseudomonas serine-carboxyl proteinase Biochemistry, 40, 2001
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6M9D
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![BU of 6m9d by Molmil](/molmil-images/mine/6m9d) | PSEUDOMONAS SERINE-CARBOXYL PROTEINASE (SEDOLISIN) COMPLEXED WITH THE INHIBITOR Chymostatin | Descriptor: | CALCIUM ION, Chymostatin A, SEDOLISIN | Authors: | Wlodawer, A, Li, M, Gustchina, A, Dauter, Z, Uchida, K, Oyama, H, Goldfarb, N.E, Dunn, B.M, Oda, K. | Deposit date: | 2018-08-23 | Release date: | 2018-10-24 | Last modified: | 2023-10-11 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Inhibitor complexes of the Pseudomonas serine-carboxyl proteinase Biochemistry, 40, 2001
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6M9F
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![BU of 6m9f by Molmil](/molmil-images/mine/6m9f) | PSEUDOMONAS SERINE-CARBOXYL PROTEINASE (SEDOLISIN) COMPLEXED WITH THE INHIBITOR Tyrostatin | Descriptor: | CALCIUM ION, SEDOLISIN, SULFATE ION, ... | Authors: | Wlodawer, A, Li, M, Gustchina, A, Dauter, Z, Uchida, K, Oyama, H, Goldfarb, N.E, Dunn, B.M, Oda, K. | Deposit date: | 2018-08-23 | Release date: | 2018-10-24 | Last modified: | 2024-07-10 | Method: | X-RAY DIFFRACTION (1.3 Å) | Cite: | Inhibitor complexes of the Pseudomonas serine-carboxyl proteinase Biochemistry, 40, 2001
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