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1EYT
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BU of 1eyt by Molmil
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
1EYS
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BU of 1eys by Molmil
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
2ZPK
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BU of 2zpk by Molmil
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
1IU1
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BU of 1iu1 by Molmil
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
3AL8
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BU of 3al8 by Molmil
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
3AL9
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BU of 3al9 by Molmil
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
2DDU
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BU of 2ddu by Molmil
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
5B4Y
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BU of 5b4y by Molmil
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
3AFC
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BU of 3afc by Molmil
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
3WKL
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BU of 3wkl by Molmil
The periplasmic PDZ tandem fragment of the RseP homologue from Aquifex aeolicus
Descriptor: 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 (2.8 Å)
Cite:A Structure-Based Model of Substrate Discrimination by a Noncanonical PDZ Tandem in the Intramembrane-Cleaving Protease RseP
Structure, 22, 2013
3WKM
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BU of 3wkm by Molmil
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
8IPC
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BU of 8ipc by Molmil
The recombinant NZ-1 Fab complexed with the PDZ tandem fragment of A. aeolicus S2P homolog with the PA14 tag inserted between the residues 181 and 184
Descriptor: Putative zinc metalloprotease aq_1964, The recombinantly-expressed heavy chain of the monoclonal antibody NZ-1, The recombinantly-expressed light chain of the monoclonal antibody NZ-1
Authors:Adachi, Y, Nogi, T.
Deposit date:2023-03-14
Release date:2024-01-31
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Recombinant production of antibody antigen-binding fragments with an N-terminal human growth hormone tag in mammalian cells.
Protein Expr.Purif., 208-209, 2023
1O3Y
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BU of 1o3y by Molmil
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
1O3X
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BU of 1o3x by Molmil
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
1IUA
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BU of 1iua by Molmil
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
7CQD
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BU of 7cqd by Molmil
The NZ-1 Fab complexed with the PDZ tandem fragment of A. aeolicus S2P homolog with the PA14 tag inserted between the residues 235 and 236
Descriptor: Heavy chain of antigen binding fragment, Fab of NZ-1, Light chain of antigen binding fragment, ...
Authors:Tamura-Sakaguchi, R, Aruga, R, Nogi, T.
Deposit date:2020-08-10
Release date:2021-05-19
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (3.2 Å)
Cite:Moving toward generalizable NZ-1 labeling for 3D structure determination with optimized epitope-tag insertion.
Acta Crystallogr D Struct Biol, 77, 2021
7CQC
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BU of 7cqc by Molmil
The NZ-1 Fab complexed with the PDZ tandem fragment of A. aeolicus S2P homolog with the PA14 tag inserted between the residues 181 and 184
Descriptor: Heavy chain of antigen binding fragment, Fab of NZ-1, Light chain of antigen binding fragment, ...
Authors:Aruga, R, Tamura-Sakaguchi, R, Nogi, T.
Deposit date:2020-08-10
Release date:2021-05-19
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Moving toward generalizable NZ-1 labeling for 3D structure determination with optimized epitope-tag insertion.
Acta Crystallogr D Struct Biol, 77, 2021
7W71
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BU of 7w71 by Molmil
Crystal structure of the PDZ-C domain of E. coli RseP in complex with 12C7 Fab
Descriptor: Heavy chain of Fab, Light chain of Fab, Regulator of sigma-E protease RseP
Authors:Hirose, T, Katagiri, S, Nogi, T.
Deposit date:2021-12-02
Release date:2022-09-07
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (3.2 Å)
Cite:Mechanistic insights into intramembrane proteolysis by E. coli site-2 protease homolog RseP.
Sci Adv, 8, 2022
7W6Y
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BU of 7w6y by Molmil
Crystal structure of Kangiella koreensis RseP orthologue in complex with batimastat in space group P1
Descriptor: 4-(N-HYDROXYAMINO)-2R-ISOBUTYL-2S-(2-THIENYLTHIOMETHYL)SUCCINYL-L-PHENYLALANINE-N-METHYLAMIDE, Anti sigma-E protein, RseA, ...
Authors:Imaizumi, Y, Takanuki, K, Nogi, T.
Deposit date:2021-12-02
Release date:2022-09-07
Method:X-RAY DIFFRACTION (3.1 Å)
Cite:Mechanistic insights into intramembrane proteolysis by E. coli site-2 protease homolog RseP.
Sci Adv, 8, 2022
7W6X
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BU of 7w6x by Molmil
Crystal structure of E. coli RseP in complex with batimastat
Descriptor: 4-(N-HYDROXYAMINO)-2R-ISOBUTYL-2S-(2-THIENYLTHIOMETHYL)SUCCINYL-L-PHENYLALANINE-N-METHYLAMIDE, Regulator of sigma-E protease RseP, ZINC ION
Authors:Takanuki, K, Imaizumi, Y, Nogi, T.
Deposit date:2021-12-02
Release date:2022-09-07
Method:X-RAY DIFFRACTION (3.2 Å)
Cite:Mechanistic insights into intramembrane proteolysis by E. coli site-2 protease homolog RseP.
Sci Adv, 8, 2022
7W6Z
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BU of 7w6z by Molmil
Crystal structure of Kangiella koreensis RseP orthologue in complex with batimastat in space group P21
Descriptor: 4-(N-HYDROXYAMINO)-2R-ISOBUTYL-2S-(2-THIENYLTHIOMETHYL)SUCCINYL-L-PHENYLALANINE-N-METHYLAMIDE, ZINC ION, Zinc metalloprotease
Authors:Imaizumi, Y, Takanuki, K, Nogi, T.
Deposit date:2021-12-02
Release date:2022-09-07
Method:X-RAY DIFFRACTION (3.15 Å)
Cite:Mechanistic insights into intramembrane proteolysis by E. coli site-2 protease homolog RseP.
Sci Adv, 8, 2022
7W70
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BU of 7w70 by Molmil
Crystal structure of the PDZ-C domain fragment of Kangiella koreensis RseP orthologue
Descriptor: Zinc metalloprotease
Authors:Miyoshi, K, Nogi, T.
Deposit date:2021-12-02
Release date:2022-09-07
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.15 Å)
Cite:Mechanistic insights into intramembrane proteolysis by E. coli site-2 protease homolog RseP.
Sci Adv, 8, 2022
6ICF
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BU of 6icf by Molmil
The NZ-1 Fab complexed with the PDZ tandem fragment of A. aeolicus S2P homolog with the PA12 tag inserted between the residues 263 and 266
Descriptor: Heavy chain of antigen binding fragment, Fab of NZ-1, Light chain of antigen binding fragment, ...
Authors:Tamura, R, Oi, R, Kaneko, M.K, Kato, Y, Nogi, T.
Deposit date:2018-09-05
Release date:2019-02-13
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (4 Å)
Cite:Application of the NZ-1 Fab as a crystallization chaperone for PA tag-inserted target proteins.
Protein Sci., 28, 2019
6ICC
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BU of 6icc by Molmil
The NZ-1 Fab complexed with the PDZ tandem fragment of A. aeolicus S2P homolog with the PA12 tag inserted between the residues 181 and 186
Descriptor: Heavy chain of antigen binding fragment, Fab of NZ-1, Light chain of antigen binding fragment, ...
Authors:Tamura, R, Oi, R, Kaneko, M.K, Kato, Y, Nogi, T.
Deposit date:2018-09-05
Release date:2019-02-13
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2 Å)
Cite:Application of the NZ-1 Fab as a crystallization chaperone for PA tag-inserted target proteins.
Protein Sci., 28, 2019
7Y4Q
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BU of 7y4q by Molmil
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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