1EYT
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![BU of 1eyt by Molmil](/molmil-images/mine/1eyt) | CRYSTAL STRUCTURE OF HIGH-POTENTIAL IRON-SULFUR PROTEIN FROM THERMOCHROMATIUM TEPIDUM | Descriptor: | HIGH-POTENTIAL IRON-SULFUR PROTEIN, IRON/SULFUR CLUSTER | Authors: | Nogi, T, Fathir, I, Kobayashi, M, Nozawa, T, Miki, K. | Deposit date: | 2000-05-08 | Release date: | 2000-12-13 | Last modified: | 2024-02-07 | Method: | X-RAY DIFFRACTION (1.5 Å) | Cite: | Crystal structures of photosynthetic reaction center and high-potential iron-sulfur protein from Thermochromatium tepidum: thermostability and electron transfer. Proc.Natl.Acad.Sci.USA, 97, 2000
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1IU1
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![BU of 1iu1 by Molmil](/molmil-images/mine/1iu1) | Crystal structure of human gamma1-adaptin ear domain | Descriptor: | gamma1-adaptin | Authors: | Nogi, T, Shiba, Y, Kawasaki, M, Shiba, T, Matsugaki, N, Igarashi, N, Suzuki, M, Kato, R, Takatsu, H, Nakayama, K, Wakatsuki, S. | Deposit date: | 2002-02-19 | Release date: | 2002-07-10 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Structural basis for the accessory protein recruitment by the gamma-adaptin ear domain. Nat.Struct.Biol., 9, 2002
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1EYS
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![BU of 1eys by Molmil](/molmil-images/mine/1eys) | CRYSTAL STRUCTURE OF PHOTOSYNTHETIC REACTION CENTER FROM A THERMOPHILIC BACTERIUM, THERMOCHROMATIUM TEPIDUM | Descriptor: | 2-O-octyl-beta-D-glucopyranose, BACTERIOCHLOROPHYLL A, BACTERIOPHEOPHYTIN A, ... | Authors: | Nogi, T, Fathir, I, Kobayashi, M, Nozawa, T, Miki, K. | Deposit date: | 2000-05-08 | Release date: | 2000-12-13 | Last modified: | 2020-07-29 | Method: | X-RAY DIFFRACTION (2.2 Å) | Cite: | Crystal structures of photosynthetic reaction center and high-potential iron-sulfur protein from Thermochromatium tepidum: thermostability and electron transfer. Proc.Natl.Acad.Sci.USA, 97, 2000
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2DDU
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![BU of 2ddu by Molmil](/molmil-images/mine/2ddu) | Crystal structure of the third repeat domain of reelin | Descriptor: | CALCIUM ION, CHLORIDE ION, MAGNESIUM ION, ... | Authors: | Nogi, T, Yasui, N, Takagi, J. | Deposit date: | 2006-02-03 | Release date: | 2006-09-26 | Last modified: | 2011-10-05 | Method: | X-RAY DIFFRACTION (2.05 Å) | Cite: | Structure of a signaling-competent reelin fragment revealed by X-ray crystallography and electron tomography Embo J., 25, 2006
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2ZPK
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![BU of 2zpk by Molmil](/molmil-images/mine/2zpk) | Crystal structure of P20.1 Fab fragment in complex with its antigen peptide | Descriptor: | GLYCEROL, IgG1-lambda P20.1 Fab (heavy chain), IgG1-lambda P20.1 Fab (light chain), ... | Authors: | Nogi, T, Sanagawa, T, Takagi, J. | Deposit date: | 2008-07-16 | Release date: | 2008-12-23 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Novel affinity tag system using structurally defined antibody-tag interaction: application to single-step protein purification Protein Sci., 17, 2008
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3AL9
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![BU of 3al9 by Molmil](/molmil-images/mine/3al9) | Mouse Plexin A2 extracellular domain | Descriptor: | 1,2-ETHANEDIOL, 2-acetamido-2-deoxy-beta-D-glucopyranose, Plexin-A2 | Authors: | Nogi, T, Yasui, N, Mihara, E, Takagi, J. | Deposit date: | 2010-07-28 | Release date: | 2010-10-06 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (2.1 Å) | Cite: | Structural basis for semaphorin signalling through the plexin receptor. Nature, 467, 2010
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3AL8
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![BU of 3al8 by Molmil](/molmil-images/mine/3al8) | Plexin A2 / Semaphorin 6A complex | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Plexin-A2, ... | Authors: | Nogi, T, Yasui, N, Mihara, E, Takagi, J. | Deposit date: | 2010-07-28 | Release date: | 2010-10-06 | Last modified: | 2020-07-29 | Method: | X-RAY DIFFRACTION (3.6 Å) | Cite: | Structural basis for semaphorin signalling through the plexin receptor. Nature, 467, 2010
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5B4Y
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![BU of 5b4y by Molmil](/molmil-images/mine/5b4y) | Crystal structure of the LA12 fragment of ApoER2 | Descriptor: | CALCIUM ION, Low-density lipoprotein receptor-related protein 8 | Authors: | Nogi, T, Tabata, S, Hirai, H, Yasui, N, Takagi, J. | Deposit date: | 2016-04-20 | Release date: | 2017-04-26 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (1.9 Å) | Cite: | Crystal structure of the ectodomain from a LDLR close homologue in complex with its physiological ligand. To Be Published
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3WKL
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![BU of 3wkl by Molmil](/molmil-images/mine/3wkl) | |
3WKM
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![BU of 3wkm by Molmil](/molmil-images/mine/3wkm) | The periplasmic PDZ tandem fragment of the RseP homologue from Aquifex aeolicus in complex with the Fab fragment | Descriptor: | MOUSE IGG1-KAPPA FAB (HEAVY CHAIN), MOUSE IGG1-KAPPA FAB (LIGHT CHAIN), Putative zinc metalloprotease aq_1964 | Authors: | Nogi, T, Tabata, S, Tamura-kawakami, K, Takagi, J. | Deposit date: | 2013-10-28 | Release date: | 2013-12-18 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2.2 Å) | Cite: | A Structure-Based Model of Substrate Discrimination by a Noncanonical PDZ Tandem in the Intramembrane-Cleaving Protease RseP Structure, 22, 2013
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3AFC
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![BU of 3afc by Molmil](/molmil-images/mine/3afc) | Mouse Semaphorin 6A extracellular domain | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Semaphorin-6A | Authors: | Yasui, N, Nogi, T, Mihara, E, Takagi, J. | Deposit date: | 2010-02-26 | Release date: | 2010-10-06 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (2.5 Å) | Cite: | Structural basis for semaphorin signalling through the plexin receptor. Nature, 467, 2010
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1IUA
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![BU of 1iua by Molmil](/molmil-images/mine/1iua) | Ultra-high resolution structure of HiPIP from Thermochromatium tepidum | Descriptor: | High-potential iron-sulfur protein, IRON/SULFUR CLUSTER, SULFATE ION | Authors: | Liu, L, Nogi, T, Kobayashi, M, Nozawa, T, Miki, K. | Deposit date: | 2002-03-01 | Release date: | 2002-03-20 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (0.8 Å) | Cite: | Ultrahigh-resolution structure of high-potential iron-sulfur protein from Thermochromatium tepidum. Acta Crystallogr.,Sect.D, 58, 2002
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8IPC
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![BU of 8ipc by Molmil](/molmil-images/mine/8ipc) | |
1J2J
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![BU of 1j2j by Molmil](/molmil-images/mine/1j2j) | Crystal structure of GGA1 GAT N-terminal region in complex with ARF1 GTP form | Descriptor: | ADP-ribosylation factor 1, ADP-ribosylation factor binding protein GGA1, GUANOSINE-5'-TRIPHOSPHATE, ... | Authors: | Shiba, T, Kawasaki, M, Takatsu, H, Nogi, T, Matsugaki, N, Igarashi, N, Suzuki, M, Kato, R, Nakayama, K, Wakatsuki, S. | Deposit date: | 2003-01-05 | Release date: | 2003-05-06 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (1.6 Å) | Cite: | Molecular mechanism of membrane recruitment of GGA by ARF in lysosomal protein transport NAT.STRUCT.BIOL., 10, 2003
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7Y4P
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![BU of 7y4p by Molmil](/molmil-images/mine/7y4p) | Human Plexin A1, extracellular domains 1-4 | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Plexin-A1 | Authors: | Tanaka, T, Neyazaki, M, Nogi, T. | Deposit date: | 2022-06-15 | Release date: | 2022-10-19 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (3.5 Å) | Cite: | Hybrid in vitro/in silico analysis of low-affinity protein-protein interactions that regulate signal transduction by Sema6D. Protein Sci., 31, 2022
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7Y4O
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![BU of 7y4o by Molmil](/molmil-images/mine/7y4o) | Rat Semaphorin 6D extracellular region | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, Semaphorin 6D | Authors: | Tanaka, T, Neyazaki, M, Nogi, T. | Deposit date: | 2022-06-15 | Release date: | 2022-10-19 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (3 Å) | Cite: | Hybrid in vitro/in silico analysis of low-affinity protein-protein interactions that regulate signal transduction by Sema6D. Protein Sci., 31, 2022
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7Y4Q
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![BU of 7y4q by Molmil](/molmil-images/mine/7y4q) | Semaphorin 6D in complex with Plexin A1 | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Plexin-A1, ... | Authors: | Tanaka, T, Neyazaki, M, Nogi, T. | Deposit date: | 2022-06-16 | Release date: | 2022-10-19 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (4.7 Å) | Cite: | Hybrid in vitro/in silico analysis of low-affinity protein-protein interactions that regulate signal transduction by Sema6D. Protein Sci., 31, 2022
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1JWF
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![BU of 1jwf by Molmil](/molmil-images/mine/1jwf) | Crystal Structure of human GGA1 VHS domain. | Descriptor: | ADP-ribosylation factor binding protein GGA1 | Authors: | Shiba, T, Takatsu, H, Nogi, T, Matsugaki, N, Kawasaki, M, Igarashi, N, Suzuki, M, Kato, R, Earnest, T, Nakayama, K, Wakatsuki, S. | Deposit date: | 2001-09-04 | Release date: | 2002-03-06 | Last modified: | 2018-06-20 | Method: | X-RAY DIFFRACTION (2.1 Å) | Cite: | Structural basis for recognition of acidic-cluster dileucine sequence by GGA1. Nature, 415, 2002
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1JWG
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![BU of 1jwg by Molmil](/molmil-images/mine/1jwg) | VHS Domain of human GGA1 complexed with cation-independent M6PR C-terminal Peptide | Descriptor: | ADP-ribosylation factor binding protein GGA1, Cation-independent mannose-6-phosphate receptor, IODIDE ION | Authors: | Shiba, T, Takatsu, H, Nogi, T, Matsugaki, N, Kawasaki, M, Igarashi, N, Suzuki, M, Kato, R, Earnest, T, Nakayama, K, Wakatsuki, S. | Deposit date: | 2001-09-04 | Release date: | 2002-03-06 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Structural basis for recognition of acidic-cluster dileucine sequence by GGA1. Nature, 415, 2002
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1O3Y
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![BU of 1o3y by Molmil](/molmil-images/mine/1o3y) | Crystal structure of mouse ARF1 (delta17-Q71L), GTP form | Descriptor: | ADP-ribosylation factor 1, GUANOSINE-5'-TRIPHOSPHATE, MAGNESIUM ION | Authors: | Shiba, T, Kawasaki, M, Takatsu, H, Nogi, T, Matsugaki, N, Igarashi, N, Suzuki, M, Kato, R, Nakayama, K, Wakatsuki, S. | Deposit date: | 2003-05-08 | Release date: | 2003-05-20 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (1.5 Å) | Cite: | Molecular mechanism of membrane recruitment of GGA by ARF in lysosomal protein transport Nat.Struct.Biol., 10, 2003
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1O3X
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![BU of 1o3x by Molmil](/molmil-images/mine/1o3x) | Crystal structure of human GGA1 GAT domain | Descriptor: | ADP-ribosylation factor binding protein GGA1 | Authors: | Shiba, T, Kawasaki, M, Takatsu, H, Nogi, T, Matsugaki, N, Igarashi, N, Suzuki, M, Kato, R, Nakayama, K, Wakatsuki, S. | Deposit date: | 2003-05-08 | Release date: | 2003-05-20 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (2.1 Å) | Cite: | Molecular Mechanism of Membrane Recruitment of Gga by Arf in Lysosomal Protein Transport Nat.Struct.Biol., 10, 2003
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7W71
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![BU of 7w71 by Molmil](/molmil-images/mine/7w71) | |
3VI3
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![BU of 3vi3 by Molmil](/molmil-images/mine/3vi3) | Crystal structure of alpha5beta1 integrin headpiece (ligand-free form) | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, CALCIUM ION, ... | Authors: | Nagae, M, Nogi, T, Takagi, J. | Deposit date: | 2011-09-21 | Release date: | 2012-02-22 | Last modified: | 2020-07-29 | Method: | X-RAY DIFFRACTION (2.9 Å) | Cite: | Crystal structure of alpha5beta1 integrin ectodomain: Atomic details of the fibronectin receptor J.Cell Biol., 197, 2012
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3VKF
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![BU of 3vkf by Molmil](/molmil-images/mine/3vkf) | Crystal Structure of Neurexin 1beta/Neuroligin 1 complex | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, CALCIUM ION, Neurexin-1-beta, ... | Authors: | Tanaka, H, Miyazaki, N, Nogi, T, Iwasaki, K, Takagi, J. | Deposit date: | 2011-11-15 | Release date: | 2012-08-01 | Last modified: | 2020-07-29 | Method: | X-RAY DIFFRACTION (3.3 Å) | Cite: | Higher-order architecture of cell adhesion mediated by polymorphic synaptic adhesion molecules neurexin and neuroligin. Cell Rep, 2, 2012
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3VI4
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![BU of 3vi4 by Molmil](/molmil-images/mine/3vi4) | Crystal structure of alpha5beta1 integrin headpiece in complex with RGD peptide | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, CALCIUM ION, ... | Authors: | Nagae, M, Nogi, T, Takagi, J. | Deposit date: | 2011-09-21 | Release date: | 2012-02-22 | Last modified: | 2020-07-29 | Method: | X-RAY DIFFRACTION (2.9 Å) | Cite: | Crystal structure of alpha5beta1 integrin ectodomain: Atomic details of the fibronectin receptor J.Cell Biol., 197, 2012
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