6WW5
| Structure of VcINDY-Na-Fab84 in nanodisc | Descriptor: | 1,2-DIHEXANOYL-SN-GLYCERO-3-PHOSPHOETHANOLAMINE, DASS family sodium-coupled anion symporter, Fab84 Heavy Chain, ... | Authors: | Sauer, D.B, Marden, J, Song, J.M, Koide, A, Koide, S, Wang, D.N. | Deposit date: | 2020-05-07 | Release date: | 2020-09-16 | Method: | ELECTRON MICROSCOPY (3.15 Å) | Cite: | Structural basis for the reaction cycle of DASS dicarboxylate transporters. Elife, 9, 2020
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8TTF
| NorA double mutant - E222QD307N at pH 7.5 | Descriptor: | Heavy Chain of FabDA1 Variable Domain, Light Chain of FabDA1 Variable Domain, Quinolone resistance protein NorA | Authors: | Li, J.P, Li, Y, Koide, A, Kuang, H.H, Torres, V.J, Koide, S, Wang, D.N, Traaseth, N.J. | Deposit date: | 2023-08-13 | Release date: | 2024-05-29 | Last modified: | 2024-07-03 | Method: | ELECTRON MICROSCOPY (3.61 Å) | Cite: | Proton-coupled transport mechanism of the efflux pump NorA. Nat Commun, 15, 2024
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8TTH
| NorA single mutant - D307N at pH 7.5 | Descriptor: | Heavy Chain of FabDA1 Variable Domain, Light Chain of FabDA1 Variable Domain, Quinolone resistance protein NorA | Authors: | Li, J.P, Li, Y, Koide, A, Kuang, H.H, Torres, V.J, Koide, S, Wang, D.N, Traaseth, N.J. | Deposit date: | 2023-08-13 | Release date: | 2024-05-29 | Last modified: | 2024-07-03 | Method: | ELECTRON MICROSCOPY (3.54 Å) | Cite: | Proton-coupled transport mechanism of the efflux pump NorA. Nat Commun, 15, 2024
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8TTE
| Protonated state of NorA at pH 5.0 | Descriptor: | FabDA1 CDRH3 loop, Quinolone resistance protein NorA | Authors: | Li, J.P, Li, Y, Koide, A, Kuang, H.H, Torres, V.J, Koide, S, Wang, D.N, Traaseth, N.J. | Deposit date: | 2023-08-13 | Release date: | 2024-05-29 | Last modified: | 2024-07-03 | Method: | ELECTRON MICROSCOPY (3.26 Å) | Cite: | Proton-coupled transport mechanism of the efflux pump NorA. Nat Commun, 15, 2024
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8TTG
| NorA single mutant - E222Q at pH 7.5 | Descriptor: | FabDA1 CDRH3 loop, Quinolone resistance protein NorA | Authors: | Li, J.P, Li, Y, Koide, A, Kuang, H.H, Torres, V.J, Koide, S, Wang, D.N, Traaseth, N.J. | Deposit date: | 2023-08-13 | Release date: | 2024-05-29 | Last modified: | 2024-07-03 | Method: | ELECTRON MICROSCOPY (3.35 Å) | Cite: | Proton-coupled transport mechanism of the efflux pump NorA. Nat Commun, 15, 2024
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4JQI
| Structure of active beta-arrestin1 bound to a G protein-coupled receptor phosphopeptide | Descriptor: | 1,2-ETHANEDIOL, Beta-arrestin-1, CHLORIDE ION, ... | Authors: | Shukla, A.K, Manglik, A, Kruse, A.C, Xiao, K, Reis, R.I, Tseng, W.C, Staus, D.P, Hilger, D, Uysal, S, Huang, L.H, Paduch, M, Shukla, P.T, Koide, A, Koide, S, Weis, W.I, Kossiakoff, A.A, Kobilka, B.K, Lefkowitz, R.J. | Deposit date: | 2013-03-20 | Release date: | 2013-04-17 | Last modified: | 2023-09-20 | Method: | X-RAY DIFFRACTION (2.6 Å) | Cite: | Structure of active beta-arrestin-1 bound to a G-protein-coupled receptor phosphopeptide. Nature, 497, 2013
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7JW7
| Structure of monobody 27 human MLKL pseudokinase domain complex | Descriptor: | Mixed lineage kinase domain-like protein, Monobody 27 | Authors: | Meng, Y, Garnish, S.E, Koide, A, Koide, S, Czabotar, P.E, Murphy, J.M. | Deposit date: | 2020-08-25 | Release date: | 2021-03-10 | Last modified: | 2023-10-18 | Method: | X-RAY DIFFRACTION (2.63 Å) | Cite: | Conformational interconversion of MLKL and disengagement from RIPK3 precede cell death by necroptosis. Nat Commun, 12, 2021
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7JXU
| Structure of monobody 32 human MLKL pseudokinase domain complex | Descriptor: | 1,2-ETHANEDIOL, Mixed lineage kinase domain-like protein, Monobody 32 | Authors: | Meng, Y, Garnish, S.E, Koide, A, Koide, S, Czabotar, P.E, Murphy, J.M. | Deposit date: | 2020-08-28 | Release date: | 2021-03-10 | Last modified: | 2023-10-18 | Method: | X-RAY DIFFRACTION (2.44 Å) | Cite: | Conformational interconversion of MLKL and disengagement from RIPK3 precede cell death by necroptosis. Nat Commun, 12, 2021
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7KZX
| Cryo-EM structure of YiiP-Fab complex in Apo state | Descriptor: | Cadmium and zinc efflux pump FieF, Fab2R heavy chain, Fab2R light chain | Authors: | Lopez-Redondo, M.L, Fan, S, Koide, A, Koide, S, Beckstein, O, Stokes, D.L. | Deposit date: | 2020-12-10 | Release date: | 2021-01-06 | Last modified: | 2021-07-28 | Method: | ELECTRON MICROSCOPY (4 Å) | Cite: | Zinc binding alters the conformational dynamics and drives the transport cycle of the cation diffusion facilitator YiiP. J.Gen.Physiol., 153, 2021
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7KZZ
| Cryo-EM structure of YiiP-Fab complex in Holo state | Descriptor: | Cadmium and zinc efflux pump FieF, Fab2R heavy chain, Fab2R light chain, ... | Authors: | Lopez-Redondo, M.L, Fan, S, Koide, A, Koide, S, Beckstein, O, Stokes, D.L. | Deposit date: | 2020-12-10 | Release date: | 2021-01-06 | Last modified: | 2021-07-28 | Method: | ELECTRON MICROSCOPY (3.42 Å) | Cite: | Zinc binding alters the conformational dynamics and drives the transport cycle of the cation diffusion facilitator YiiP. J.Gen.Physiol., 153, 2021
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3CH8
| The crystal structure of PDZ-Fibronectin fusion protein | Descriptor: | C-terminal octapeptide from protein ARVCF, MAGNESIUM ION, fusion protein PDZ-Fibronectin,Fibronectin | Authors: | Makabe, K, Huang, J, Koide, A, Koide, S. | Deposit date: | 2008-03-08 | Release date: | 2009-03-31 | Last modified: | 2024-02-21 | Method: | X-RAY DIFFRACTION (1.9 Å) | Cite: | Structural basis for exquisite specificity of affinity clamps, synthetic binding proteins generated through directed domain-interface evolution. J.Mol.Biol., 392, 2009
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3EC5
| The crystal structure of Thioflavin-T (ThT) binding OspA mutant | Descriptor: | Outer Surface Protein A, TETRAETHYLENE GLYCOL | Authors: | Biancalana, M, Makabe, K, Koide, A, Koide, S. | Deposit date: | 2008-08-28 | Release date: | 2009-02-03 | Last modified: | 2023-08-30 | Method: | X-RAY DIFFRACTION (1.75 Å) | Cite: | Molecular mechanism of thioflavin-T binding to the surface of beta-rich peptide self-assemblies J.Mol.Biol., 385, 2009
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2P46
| Complex of a camelid single-domain vhh antibody fragment with RNASE A at 2.5A resolution: se5b-ortho-2 crystal form with five se-met sites (L4M, M34, M51, F68M, M83) in vhh scaffold. | Descriptor: | ANTIBODY CAB-RN05, Ribonuclease pancreatic, ZINC ION | Authors: | Tereshko, V, Uysal, S, Koide, A, Margalef, K, Koide, S, Kossiakoff, A.A. | Deposit date: | 2007-03-11 | Release date: | 2008-03-11 | Last modified: | 2011-07-13 | Method: | X-RAY DIFFRACTION (2.5 Å) | Cite: | Toward chaperone-assisted crystallography: protein engineering enhancement of crystal packing and X-ray phasing capabilities of a camelid single-domain antibody (VHH) scaffold Protein Sci., 17, 2008
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2P49
| Complex of a camelid single-domain vhh antibody fragment with RNASE A at 1.4A resolution: native mono_1 crystal form | Descriptor: | ANTIBODY CAB-RN05, PHOSPHATE ION, Ribonuclease pancreatic | Authors: | Tereshko, V, Uysal, S, Margalef, K, Koide, A, Kossiakoff, A.A, Koide, S. | Deposit date: | 2007-03-11 | Release date: | 2007-08-28 | Last modified: | 2023-08-30 | Method: | X-RAY DIFFRACTION (1.38 Å) | Cite: | Exploring the capacity of minimalist protein interfaces: interface energetics and affinity maturation to picomolar KD of a single-domain antibody with a flat paratope. J.Mol.Biol., 373, 2007
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2P42
| Complex of a camelid single-domain vhh antibody fragment with RNASE A at 1.8A resolution: SE3-mono-2 crystal form with three se-met sites (M34, M51, M83) in vhh scaffold | Descriptor: | ANTIBODY CAB-RN05, MAGNESIUM ION, Ribonuclease pancreatic | Authors: | Tereshko, V, Uysal, S, Koide, A, Margalef, K, Koide, S, Kossiakoff, A.A. | Deposit date: | 2007-03-11 | Release date: | 2008-03-11 | Last modified: | 2011-07-13 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Toward chaperone-assisted crystallography: protein engineering enhancement of crystal packing and X-ray phasing capabilities of a camelid single-domain antibody (VHH) scaffold Protein Sci., 17, 2008
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2P48
| Complex of a camelid single-domain vhh antibody fragment with RNASE A at 2.3A resolution: SE5B-tetra crystal form with five se-met sites (L4M, M34, M51, F68M, M83) in vhh scaffold. | Descriptor: | ANTIBODY CAB-RN05, Ribonuclease pancreatic, SULFATE ION | Authors: | Tereshko, V, Uysal, S, Koide, A, Margalef, K, Koide, S, Kossiakoff, A.A. | Deposit date: | 2007-03-11 | Release date: | 2008-03-11 | Last modified: | 2023-11-15 | Method: | X-RAY DIFFRACTION (2.3 Å) | Cite: | Toward chaperone-assisted crystallography: protein engineering enhancement of crystal packing and X-ray phasing capabilities of a camelid single-domain antibody (VHH) scaffold Protein Sci., 17, 2008
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2P45
| Complex of a camelid single-domain vhh antibody fragment with RNASE A at 1.1A resolution: SE5B-ORTHO-1 crystal form with five se-met sites (L4M, M34, M51, F68M, M83) in vhh scaffold. | Descriptor: | ANTIBODY CAB-RN05, Ribonuclease pancreatic, SULFATE ION | Authors: | Tereshko, V, Uysal, S, Koide, A, Margalef, K, Koide, S, Kossiakoff, A.A. | Deposit date: | 2007-03-11 | Release date: | 2008-03-11 | Last modified: | 2011-07-13 | Method: | X-RAY DIFFRACTION (1.1 Å) | Cite: | Toward chaperone-assisted crystallography: protein engineering enhancement of crystal packing and X-ray phasing capabilities of a camelid single-domain antibody (VHH) scaffold Protein Sci., 17, 2008
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2P47
| Complex of a camelid single-domain vhh antibody fragment with RNASE A at 2.5A resolution: SE5B-TRI crystal form with five se-met sites (L4M, M34, M51, F68M, M83) in vhh scaffold. | Descriptor: | ANTIBODY CAB-RN05, Ribonuclease pancreatic | Authors: | Tereshko, V, Uysal, S, Koide, A, Margalef, K, Koide, S, Kossiakoff, A.A. | Deposit date: | 2007-03-11 | Release date: | 2008-03-11 | Last modified: | 2023-11-15 | Method: | X-RAY DIFFRACTION (2.5 Å) | Cite: | Toward chaperone-assisted crystallography: protein engineering enhancement of crystal packing and X-ray phasing capabilities of a camelid single-domain antibody (VHH) scaffold Protein Sci., 17, 2008
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2P43
| Complex of a camelid single-domain vhh antibody fragment with RNASE A at 1.65A resolution: SE3-mono-1 crystal form with three se-met sites (M34, M51, M83) in vhh scaffold | Descriptor: | ANTIBODY CAB-RN05, Ribonuclease pancreatic | Authors: | Tereshko, V, Uysal, S, Koide, A, Margalef, K, Koide, S, Kossiakoff, A.A. | Deposit date: | 2007-03-11 | Release date: | 2008-03-11 | Last modified: | 2011-07-13 | Method: | X-RAY DIFFRACTION (1.65 Å) | Cite: | Toward chaperone-assisted crystallography: protein engineering enhancement of crystal packing and X-ray phasing capabilities of a camelid single-domain antibody (VHH) scaffold Protein Sci., 17, 2008
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2P4A
| X-ray structure of a camelid affinity matured single-domain vhh antibody fragment in complex with RNASE A | Descriptor: | ANTIBODY CAB-RN05, Ribonuclease pancreatic, SULFATE ION | Authors: | Tereshko, V, Koide, A, Uysal, S, Koide, S. | Deposit date: | 2007-03-11 | Release date: | 2007-08-28 | Last modified: | 2023-08-30 | Method: | X-RAY DIFFRACTION (1.9 Å) | Cite: | Exploring the capacity of minimalist protein interfaces: interface energetics and affinity maturation to picomolar KD of a single-domain antibody with a flat paratope. J.Mol.Biol., 373, 2007
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2P44
| Complex of a camelid single-domain vhh antibody fragment with RNASE A at 1.8A resolution: SE5A-mono-1 crystal form with five se-met sites (M34, M51, F68M, M83, L86M) in vhh scaffold | Descriptor: | ANTIBODY CAB-RN05, Ribonuclease pancreatic | Authors: | Tereshko, V, Uysal, S, Koide, A, Margalef, K, Koide, S, Kossiakoff, A.A. | Deposit date: | 2007-03-11 | Release date: | 2008-03-11 | Last modified: | 2011-07-13 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Toward chaperone-assisted crystallography: protein engineering enhancement of crystal packing and X-ray phasing capabilities of a camelid single-domain antibody (VHH) scaffold Protein Sci., 17, 2008
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2OY8
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2OY7
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2QBW
| The crystal structure of PDZ-Fibronectin fusion protein | Descriptor: | PDZ-Fibronectin fusion protein, Polypeptide | Authors: | Huang, J, Makabe, K, Koide, A, Koide, S. | Deposit date: | 2007-06-18 | Release date: | 2008-04-22 | Last modified: | 2024-02-21 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Design of protein function leaps by directed domain interface evolution. Proc.Natl.Acad.Sci.Usa, 105, 2008
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