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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
7C95
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BU of 7c95 by Molmil
Crystal structure of the anti-human podoplanin antibody Fab fragment
Descriptor: GLYCEROL, Heavy chain of Fab fragment, Light chain of Fab fragment, ...
Authors:Nakamura, S, Suzuki, K, Ogasawara, S, Naruchi, K, Shimabukuro, J, Tukahara, N, Kaneko, M.K, Kato, Y, Murata, T.
Deposit date:2020-06-04
Release date:2020-09-30
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.13 Å)
Cite:Crystal structure of an anti-podoplanin antibody bound to a disialylated O-linked glycopeptide.
Biochem.Biophys.Res.Commun., 533, 2020
7C94
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BU of 7c94 by Molmil
Crystal structure of the anti-human podoplanin antibody Fab fragment complex with glycopeptide
Descriptor: GLYCEROL, Heavy chain of Fab fragment, Light chain of Fab fragment, ...
Authors:Suzuki, K, Nakamura, S, Ogasawara, S, Naruchi, K, Shimabukuro, J, Tukahara, N, Kaneko, M.K, Kato, Y, Murata, T.
Deposit date:2020-06-04
Release date:2020-09-30
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.84 Å)
Cite:Crystal structure of an anti-podoplanin antibody bound to a disialylated O-linked glycopeptide.
Biochem.Biophys.Res.Commun., 533, 2020
6AL1
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BU of 6al1 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 184
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 (3.2 Å)
Cite:Application of the NZ-1 Fab as a crystallization chaperone for PA tag-inserted target proteins.
Protein Sci., 28, 2019
6AKQ
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BU of 6akq by Molmil
The PDZ tandem fragment of A. aeolicus S2P homolog with the PA12 tag inserted between the residues 263 and 267
Descriptor: PDZ tandem fragment of A. aeolicus site-2 protease homolog with the PA tag insertion
Authors:Tamura, R, Oi, R, Kaneko, M.K, Kato, Y, Nogi, T.
Deposit date:2018-09-03
Release date:2019-02-13
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Application of the NZ-1 Fab as a crystallization chaperone for PA tag-inserted target proteins.
Protein Sci., 28, 2019
6AL0
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BU of 6al0 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 267
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 (2.6 Å)
Cite:Application of the NZ-1 Fab as a crystallization chaperone for PA tag-inserted target proteins.
Protein Sci., 28, 2019
6LZ4
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BU of 6lz4 by Molmil
Crystal structure of PMab-1 Fv-clasp fragment with its antigen peptide
Descriptor: MAP peptide, PMab-1 VH(S112C)-SARAH Chimera, PMab-1 VL-SARAH(S37C) Chimera
Authors:Arimori, T, Takagi, J.
Deposit date:2020-02-18
Release date:2020-05-20
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.49 Å)
Cite:Site-specific epitope insertion into recombinant proteins using the MAP tag system.
J.Biochem., 168, 2020
5GIS
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BU of 5gis by Molmil
Crystal structure of a Fab fragment with its ligand peptide
Descriptor: Heavy chain of Fab fragment, Light chain of Fab fragment, SULFATE ION, ...
Authors:Kitago, Y, Kaneko, K.K, Ogasawara, S, Kato, Y, Takagi, J.
Deposit date:2016-06-24
Release date:2016-09-14
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.93 Å)
Cite:Structural basis for multi-specific peptide recognition by the anti-IDH1/2 monoclonal antibody, MsMab-1.
Biochem. Biophys. Res. Commun., 478, 2016
5GIR
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BU of 5gir by Molmil
Crystal structure of a Fab fragment with its ligand peptide
Descriptor: 1,2-ETHANEDIOL, Heavy chain of Fab fragment, LYS-PRO-ILE-ILE-ILE-GLY-SER-HIS-ALA-TYR-GLY-ASP, ...
Authors:Kitago, Y, Kaneko, K.K, Ogasawara, S, Kato, Y, Takagi, J.
Deposit date:2016-06-24
Release date:2016-09-14
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.93 Å)
Cite:Structural basis for multi-specific peptide recognition by the anti-IDH1/2 monoclonal antibody, MsMab-1.
Biochem. Biophys. Res. Commun., 478, 2016
5X2M
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BU of 5x2m by Molmil
Crystal structure of the medaka fish taste receptor T1r2a-T1r3 ligand binding domains in complex with L-glutamine
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, CALCIUM ION, CHLORIDE ION, ...
Authors:Nuemket, N, Yasui, N, Atsumi, N, Yamashita, A.
Deposit date:2017-02-02
Release date:2017-05-24
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.206 Å)
Cite:Structural basis for perception of diverse chemical substances by T1r taste receptors
Nat Commun, 8, 2017
4YO0
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BU of 4yo0 by Molmil
Crystal structure of monoclonal anti-human podoplanin antibody NZ-1 with bound PA peptide
Descriptor: 1,2-ETHANEDIOL, Heavy chain of antigen binding fragment, Fab, ...
Authors:Fujii, Y, Kitago, Y, Arimori, T, Takagi, J.
Deposit date:2015-03-11
Release date:2016-03-02
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.56 Å)
Cite:Tailored placement of a turn-forming PA tag into the structured domain of a protein to probe its conformational state
J.Cell.Sci., 129, 2016
4YNY
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BU of 4yny by Molmil
Crystal structure of monoclonal anti-human podoplanin antibody NZ-1
Descriptor: Heavy chain of antigen binding fragment, Fab, Light chain of antigen binding fragment
Authors:Fujii, Y, Kitago, Y, Arimori, T, Takagi, J.
Deposit date:2015-03-11
Release date:2016-03-02
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.584 Å)
Cite:Tailored placement of a turn-forming PA tag into the structured domain of a protein to probe its conformational state
J.Cell.Sci., 129, 2016
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
8JYR
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BU of 8jyr by Molmil
Crystal structure of anti-HER2 antibody H2Mab-119 in complex with HER2 domain I
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, H2Mab-119 VH-CH1, H2Mab-119 light chain, ...
Authors:Arimori, T, Takagi, J.
Deposit date:2023-07-03
Release date:2024-03-13
Last modified:2024-03-27
Method:X-RAY DIFFRACTION (1.69 Å)
Cite:Locally misfolded HER2 expressed on cancer cells is a promising target for development of cancer-specific antibodies.
Structure, 2024
8JYQ
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BU of 8jyq by Molmil
Crystal structure of cancer-specific anti-HER2 antibody H2Mab-214 in complex with epitope peptide
Descriptor: H2CasMab-1 VH(S112C),SARAH, H2CasMab-1 VL,SARAH(S37C), H2CasMab-1 epitope peptide
Authors:Arimori, T, Takagi, J.
Deposit date:2023-07-03
Release date:2024-03-13
Last modified:2024-03-27
Method:X-RAY DIFFRACTION (1.75 Å)
Cite:Locally misfolded HER2 expressed on cancer cells is a promising target for development of cancer-specific antibodies.
Structure, 2024
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
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
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
5X2P
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BU of 5x2p by Molmil
Crystal structure of the medaka fish taste receptor T1r2a-T1r3 ligand binding domains in complex with L-glutamate
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:Nuemket, N, Yasui, N, Atsumi, N, Yamashita, A.
Deposit date:2017-02-02
Release date:2017-05-24
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.608 Å)
Cite:Structural basis for perception of diverse chemical substances by T1r taste receptors
Nat Commun, 8, 2017
5X2N
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BU of 5x2n by Molmil
Crystal structure of the medaka fish taste receptor T1r2a-T1r3 ligand binding domains in complex with L-alanine
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, ALANINE, CHLORIDE ION, ...
Authors:Nuemket, N, Yasui, N, Atsumi, N, Yamashita, A.
Deposit date:2017-02-02
Release date:2017-05-24
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Structural basis for perception of diverse chemical substances by T1r taste receptors
Nat Commun, 8, 2017

 

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PDB entries from 2024-04-24

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