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8BF4
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BU of 8bf4 by Molmil
Crystal structure of Mouse Plexin-B1 (20-535) in complex with VHH15 and VHH14
Descriptor: 1,2-ETHANEDIOL, 2-acetamido-2-deoxy-beta-D-glucopyranose, CHLORIDE ION, ...
Authors:Cowan, R, Hall, G, Carr, M.
Deposit date:2022-10-24
Release date:2023-05-03
Last modified:2023-09-20
Method:X-RAY DIFFRACTION (2.15 Å)
Cite:Nanobody inhibitors of Plexin-B1 identify allostery in plexin-semaphorin interactions and signaling.
J.Biol.Chem., 299, 2023
8BB7
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BU of 8bb7 by Molmil
Crystal structure of Mouse Plexin-B1 (20-535) in complex with VHH15
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, Plexin-B1, VHH15 Nanobody
Authors:Cowan, R, Hall, G, Carr, M.
Deposit date:2022-10-12
Release date:2023-05-03
Last modified:2023-09-20
Method:X-RAY DIFFRACTION (2.95 Å)
Cite:Nanobody inhibitors of Plexin-B1 identify allostery in plexin-semaphorin interactions and signaling.
J.Biol.Chem., 299, 2023
8B3K
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BU of 8b3k by Molmil
Crystal structure of human Plexin-B1 (20-535) in the unbound state
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, CADMIUM ION, Plexin-B1
Authors:Cowan, R, Hall, G, Carr, M.
Deposit date:2022-09-16
Release date:2023-05-03
Last modified:2024-02-07
Method:X-RAY DIFFRACTION (2.685 Å)
Cite:Nanobody inhibitors of Plexin-B1 identify allostery in plexin-semaphorin interactions and signaling.
J.Biol.Chem., 299, 2023
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
7Y4P
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BU of 7y4p by Molmil
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
7Y4O
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BU of 7y4o by Molmil
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
7VG7
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BU of 7vg7 by Molmil
Plexin B1 extracellular fragment in complex with lasso-grafted PB1m6A9 peptide
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, Plexin-B1, TRIETHYLENE GLYCOL, ...
Authors:Sugano, N.N, Hirata, K, Yamashita, K, Yamamoto, M, Arimori, T, Takagi, J.
Deposit date:2021-09-14
Release date:2022-08-17
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:De novo Fc-based receptor dimerizers differentially modulate PlexinB1 function.
Structure, 30, 2022
7VF3
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BU of 7vf3 by Molmil
Plexin B1 extracellular fragment in complex with lasso-grafted PB1m7 peptide
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, DI(HYDROXYETHYL)ETHER, Plexin-B1, ...
Authors:Sugano, N.N, Hirata, K, Yamashita, K, Yamamoto, M, Arimori, T, Takagi, J.
Deposit date:2021-09-10
Release date:2022-08-17
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.29 Å)
Cite:De novo Fc-based receptor dimerizers differentially modulate PlexinB1 function.
Structure, 30, 2022
7MOB
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BU of 7mob by Molmil
Cryo-EM structure of 2:2 c-MET/NK1 complex
Descriptor: Hepatocyte growth factor, Hepatocyte growth factor receptor
Authors:Uchikawa, E, Chen, Z.M, Xiao, G.Y, Zhang, X.W, Bai, X.C.
Deposit date:2021-05-01
Release date:2021-06-09
Last modified:2021-07-28
Method:ELECTRON MICROSCOPY (5 Å)
Cite:Structural basis of the activation of c-MET receptor.
Nat Commun, 12, 2021
7MOA
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BU of 7moa by Molmil
Cryo-EM structure of the c-MET II/HGF I complex bound with HGF II in a rigid conformation
Descriptor: 2-O-sulfo-alpha-L-idopyranuronic acid-(1-4)-2-deoxy-6-O-sulfo-2-(sulfoamino)-alpha-D-glucopyranose-(1-4)-2-O-sulfo-alpha-L-idopyranuronic acid-(1-4)-2-deoxy-6-O-sulfo-2-(sulfoamino)-alpha-D-glucopyranose-(1-4)-2-O-sulfo-alpha-L-idopyranuronic acid-(1-4)-2-deoxy-6-O-sulfo-2-(sulfoamino)-alpha-D-glucopyranose, Hepatocyte growth factor, Hepatocyte growth factor receptor
Authors:Uchikawa, E, Chen, Z.M, Xiao, G.Y, Zhang, X.W, Bai, X.C.
Deposit date:2021-05-01
Release date:2021-06-09
Last modified:2021-07-28
Method:ELECTRON MICROSCOPY (4.9 Å)
Cite:Structural basis of the activation of c-MET receptor.
Nat Commun, 12, 2021
7MO9
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BU of 7mo9 by Molmil
Cryo-EM map of the c-MET II/HGF I/HGF II (K4 and SPH) sub-complex
Descriptor: 2-O-sulfo-alpha-L-idopyranuronic acid-(1-4)-2-deoxy-6-O-sulfo-2-(sulfoamino)-alpha-D-glucopyranose-(1-4)-2-O-sulfo-alpha-L-idopyranuronic acid-(1-4)-2-deoxy-6-O-sulfo-2-(sulfoamino)-alpha-D-glucopyranose-(1-4)-2-O-sulfo-alpha-L-idopyranuronic acid-(1-4)-2-deoxy-6-O-sulfo-2-(sulfoamino)-alpha-D-glucopyranose, Hepatocyte growth factor, Hepatocyte growth factor receptor
Authors:Uchikawa, E, Chen, Z.M, Xiao, G.Y, Zhang, X.W, Bai, X.C.
Deposit date:2021-05-01
Release date:2021-06-09
Last modified:2021-07-28
Method:ELECTRON MICROSCOPY (4 Å)
Cite:Structural basis of the activation of c-MET receptor.
Nat Commun, 12, 2021
7MO8
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BU of 7mo8 by Molmil
Cryo-EM structure of 1:1 c-MET I/HGF I complex after focused 3D refinement of holo-complex
Descriptor: 2-O-sulfo-alpha-L-idopyranuronic acid-(1-4)-2-deoxy-6-O-sulfo-2-(sulfoamino)-alpha-D-glucopyranose-(1-4)-2-O-sulfo-alpha-L-idopyranuronic acid-(1-4)-2-deoxy-6-O-sulfo-2-(sulfoamino)-alpha-D-glucopyranose-(1-4)-2-O-sulfo-alpha-L-idopyranuronic acid-(1-4)-2-deoxy-6-O-sulfo-2-(sulfoamino)-alpha-D-glucopyranose, Hepatocyte growth factor, Hepatocyte growth factor receptor
Authors:Uchikawa, E, Chen, Z.M, Xiao, G.Y, Zhang, X.W, Bai, X.C.
Deposit date:2021-05-01
Release date:2021-06-09
Last modified:2021-07-28
Method:ELECTRON MICROSCOPY (4.5 Å)
Cite:Structural basis of the activation of c-MET receptor.
Nat Commun, 12, 2021
7MO7
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BU of 7mo7 by Molmil
Cryo-EM structure of 2:2 c-MET/HGF holo-complex
Descriptor: 2-O-sulfo-alpha-L-idopyranuronic acid-(1-4)-2-deoxy-6-O-sulfo-2-(sulfoamino)-alpha-D-glucopyranose-(1-4)-2-O-sulfo-alpha-L-idopyranuronic acid-(1-4)-2-deoxy-6-O-sulfo-2-(sulfoamino)-alpha-D-glucopyranose-(1-4)-2-O-sulfo-alpha-L-idopyranuronic acid-(1-4)-2-deoxy-6-O-sulfo-2-(sulfoamino)-alpha-D-glucopyranose, Hepatocyte growth factor, Hepatocyte growth factor receptor
Authors:Uchikawa, E, Chen, Z.M, Xiao, G.Y, Zhang, X.W, Bai, X.C.
Deposit date:2021-05-01
Release date:2021-06-09
Last modified:2021-07-28
Method:ELECTRON MICROSCOPY (4.8 Å)
Cite:Structural basis of the activation of c-MET receptor.
Nat Commun, 12, 2021
7M0R
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BU of 7m0r by Molmil
Cryo-EM structure of the Sema3A/PlexinA4/Neuropilin 1 complex
Descriptor: CALCIUM ION, Neuropilin-1, Plexin-A4, ...
Authors:Lu, D, Shang, G, He, X, Bai, X, Zhang, X.
Deposit date:2021-03-11
Release date:2021-05-05
Last modified:2021-06-09
Method:ELECTRON MICROSCOPY (3.7 Å)
Cite:Architecture of the Sema3A/PlexinA4/Neuropilin tripartite complex.
Nat Commun, 12, 2021
6WVZ
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BU of 6wvz by Molmil
Crystal structure of anti-MET Fab arm of amivantamab in complex with human MET
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose, ...
Authors:Cardoso, R.M.F.
Deposit date:2020-05-07
Release date:2021-04-28
Last modified:2023-10-18
Method:X-RAY DIFFRACTION (3.1 Å)
Cite:Discovery of amivantamab (JNJ-61186372), a bispecific antibody targeting EGFR and MET.
J.Biol.Chem., 296, 2021
6WTS
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BU of 6wts by Molmil
CryoEM structure of the C. sordellii lethal toxin TcsL in complex with SEMA6A
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, SEMA6A, ...
Authors:Kucharska, I, Rubinstein, J.L, Julien, J.P.
Deposit date:2020-05-03
Release date:2020-07-08
Last modified:2020-08-05
Method:ELECTRON MICROSCOPY (3.3 Å)
Cite:Recognition of Semaphorin Proteins by P. sordellii Lethal Toxin Reveals Principles of Receptor Specificity in Clostridial Toxins.
Cell, 182, 2020
6VXK
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BU of 6vxk by Molmil
Cryo-EM Structure of the full-length A39R/PlexinC1 complex
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, Plexin-C1, Semaphorin-like protein 139
Authors:Kuo, Y.-C, Chen, H, Shang, G, Uchikawa, E, Tian, H, Bai, X, Zhang, X.
Deposit date:2020-02-22
Release date:2020-04-29
Last modified:2020-07-29
Method:ELECTRON MICROSCOPY (3.1 Å)
Cite:Cryo-EM structure of the PlexinC1/A39R complex reveals inter-domain interactions critical for ligand-induced activation.
Nat Commun, 11, 2020
6QP9
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BU of 6qp9 by Molmil
Drosophila Semaphorin 1a, extracellular domains 1-2
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-1A
Authors:Rozbesky, D, Robinson, R.A, Harlos, K, Siebold, C, Jones, E.Y.
Deposit date:2019-02-13
Release date:2019-08-21
Last modified:2024-01-24
Method:X-RAY DIFFRACTION (3.6 Å)
Cite:Diversity of oligomerization in Drosophila semaphorins suggests a mechanism of functional fine-tuning.
Nat Commun, 10, 2019
6QP8
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BU of 6qp8 by Molmil
Drosophila Semaphorin 2b
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, CITRATE ANION, ...
Authors:Robinson, R.A, Rozbesky, D, Harlos, K, Siebold, C, Jones, E.Y.
Deposit date:2019-02-13
Release date:2019-08-21
Last modified:2024-01-24
Method:X-RAY DIFFRACTION (2.33 Å)
Cite:Diversity of oligomerization in Drosophila semaphorins suggests a mechanism of functional fine-tuning.
Nat Commun, 10, 2019
6QP7
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BU of 6qp7 by Molmil
Drosophila Semaphorin 2a
Descriptor: 1,2-ETHANEDIOL, 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, ...
Authors:Robinson, R.A, Rozbesky, D, Harlos, K, Siebold, C, Jones, E.Y.
Deposit date:2019-02-13
Release date:2019-08-21
Last modified:2024-01-24
Method:X-RAY DIFFRACTION (1.96 Å)
Cite:Diversity of oligomerization in Drosophila semaphorins suggests a mechanism of functional fine-tuning.
Nat Commun, 10, 2019
6I04
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BU of 6i04 by Molmil
Crystal structure of Sema domain of the Met receptor in complex with FAB
Descriptor: Fab heavy chain, Fab light chain, Hepatocyte growth factor receptor
Authors:Casaletto, J.B, Geddie, M.L, Abu-Yousif, A.O, Masson, K, Fulgham, A, Boudot, A, Maiwald, T, Kearns, J.D, Kohli, N, Su, S, Razlog, M, Raue, A, Kalra, A, Hakansson, M, Logan, D.T, Welin, M, Chattopadhyay, S, Harms, B.D, Nielsen, U.B, Schoeberl, B, Lugovskoy, A.A, MacBeath, G.
Deposit date:2018-10-25
Release date:2019-03-13
Last modified:2024-01-24
Method:X-RAY DIFFRACTION (3.1 Å)
Cite:MM-131, a bispecific anti-Met/EpCAM mAb, inhibits HGF-dependent and HGF-independent Met signaling through concurrent binding to EpCAM.
Proc.Natl.Acad.Sci.USA, 116, 2019
6GCU
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BU of 6gcu by Molmil
MET receptor in complex with InlB internalin domain and DARPin A3A
Descriptor: DARPin A3A, Hepatocyte growth factor receptor, Internalin B
Authors:Meyer, T, Andres, F, Iamele, L, Gherardi, E, Pluckthun, A, Niemann, H.H.
Deposit date:2018-04-19
Release date:2019-05-15
Last modified:2024-01-17
Method:X-RAY DIFFRACTION (6.001 Å)
Cite:Inhibition of the MET Kinase Activity and Cell Growth in MET-Addicted Cancer Cells by Bi-Paratopic Linking.
J.Mol.Biol., 431, 2019
6FKN
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BU of 6fkn by Molmil
Drosophila Plexin A in complex with Semaphorin 1b
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, MIP07328p, Plexin A, ...
Authors:Rozbesky, D, Harlos, K, Jones, E.Y.
Deposit date:2018-01-24
Release date:2019-02-06
Last modified:2024-01-17
Method:X-RAY DIFFRACTION (4.801 Å)
Cite:Structural basis of semaphorin-plexin cis interaction.
Embo J., 2020
6FKM
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BU of 6fkm by Molmil
Drosophila Plexin A in complex with Semaphorin 1b
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, MIP07328p, Plexin A, ...
Authors:Rozbesky, D, Harlos, K, Jones, E.Y.
Deposit date:2018-01-24
Release date:2019-02-06
Last modified:2024-01-17
Method:X-RAY DIFFRACTION (2.96 Å)
Cite:Structural basis of semaphorin-plexin cis interaction.
Embo J., 2020
6FKK
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BU of 6fkk by Molmil
Drosophila Semaphorin 1b, extracellular domains 1-2
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, MIP07328p, alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]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:Rozbesky, D, Harlos, K, Jones, E.Y.
Deposit date:2018-01-24
Release date:2019-02-06
Last modified:2024-01-17
Method:X-RAY DIFFRACTION (2.78 Å)
Cite:Diversity of oligomerization in Drosophila semaphorins suggests a mechanism of functional fine-tuning.
Nat Commun, 10, 2019

 

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