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Sodium in PDB, part 251 (files: 10001-10040), PDB 7l03-7lm5

Experimental structures of coordination spheres of Sodium (Na) in bioorganic molecules from X-Ray and NMR experiments. Coordination spheres were calculated with 5.0 Angstroms radius around Sodium atoms. PDB files: 10001-10040 (PDB 7l03-7lm5).
  1. 7l03 (Na: 1) - The Aminoacrylate Form of the Wild-Type Salmonella Typhimurium Tryptophan Synthase in Complex with Inhibitor N-(4'- Trifluoromethoxybenzenesulfonyl)-2-Amino-1-Ethylphosphate (F9F) at the Enzyme Alpha-Site and Sodium Ion at the Metal Coordination Site at 1.60 Angstrom Resolution. Three Water Molecules Are Close to the Amynoacrylate at the Enzyme Beta-Site
    Other atoms: F (3);
  2. 7l0n (Na: 6) - Circulating Sars-Cov-2 Spike N439K Variants Maintain Fitness While Evading Antibody-Mediated Immunity
    Other atoms: Zn (2); Cl (27);
  3. 7l0z (Na: 2) - Spinach Variant Bound to Dfhbi-1T
    Other atoms: K (2); F (5); Mg (1);
  4. 7l1a (Na: 7) - Human Methionine Adenosyltransferase 2A Bound to Methylthioadenosine and Inhibitor, Di-Imido Triphosphate (Pnpnp)
    Other atoms: K (1); Mg (2);
  5. 7l2h (Na: 1) - Cryo-Em Structure of Unliganded Full-Length TRPV1 at Neutral pH
  6. 7l2m (Na: 3) - Cryo-Em Structure of Dktx/Rtx-Bound Full-Length TRPV1
  7. 7l2p (Na: 1) - Cryo-Em Structure of Unliganded Minimal TRPV1
  8. 7l2r (Na: 1) - Cryo-Em Structure of Dktx-Bound Minimal TRPV1 at the Pre-Open State
  9. 7l2s (Na: 1) - Cryo-Em Structure of Dktx-Bound Minimal TRPV1 at the Pre-Bound State
  10. 7l2t (Na: 1) - Cryo-Em Structure of Dktx-Bound Minimal TRPV1 in Partial Open State
  11. 7l2u (Na: 2) - Cryo-Em Structure of Dktx-Bound Minimal TRPV1 in Open State
  12. 7l2v (Na: 1) - Cryo-Em Structure of Rtx-Bound Minimal TRPV1 with Nmdg at State B
  13. 7l2w (Na: 1) - Cryo-Em Structure of Rtx-Bound Minimal TRPV1 with Nmdg at State A
  14. 7l35 (Na: 1) - Human Dna Ligase 1 - R771W Nicked Dna Complex
  15. 7l3m (Na: 1) - Pepck Mmqx Structure 40MS Post-Mixing with Oxaloacetic Acid
    Other atoms: Mn (3);
  16. 7l4l (Na: 2) - Crosslinked Crystal Structure of Type II Fatty Acid Synthase Ketosynthase, Fabf, and C8-Crypto Acyl Carrier Protein, Acpp
  17. 7l5m (Na: 1) - Crystal Structure of the Dib-Rm-Split Protein
  18. 7l6c (Na: 4) - Crystal Structure of Enoyl-[Acyl-Carrier-Protein] Reductase Inha From Mycobacterium Abscessus in Complex with Nad
  19. 7l6j (Na: 7) - Crystal Structure of the Putative Hydrolase From Stenotrophomonas Maltophilia
    Other atoms: Cl (2);
  20. 7l8o (Na: 4) - Oxa-48 Bound By Compound 4.3
    Other atoms: Cl (5);
  21. 7la9 (Na: 1) - Crystal Structure of the First Bromodomain (BD1) of Human BRD4 (BRD4- 1) in Complex with Bivalent Inhibitor Nc-III-49-1
    Other atoms: Cl (8);
  22. 7lcz (Na: 5) - Crystal Structure of the Arm Domain From Drosophila SARM1 in Complex with Nmn
  23. 7ld8 (Na: 1) - Crystal Structure of Putative Non-Heme Bromoperoxidase Bpoc From Mycobacterium Tuberculosis H37RV
  24. 7ld9 (Na: 1) - Structure of Human GGT1 in Complex with Abba
    Other atoms: Cl (2);
  25. 7lfi (Na: 2) - Model of Mhc Class Ib H2-M3 with Mouse ND1 N-Terminal Heptapeptide Refined at 1.70 Angstroms Resolution
  26. 7lfj (Na: 1) - Model of Mhc Class Ib H2-M3 with Mouse ND1 N-Terminal Heptapeptide, Ala Mutant, Refined at 1.70 Angstroms Resolution
  27. 7lfk (Na: 6) - Model of Mhc Class Ib H2-M3 with Mouse ND1 N-Terminal Heptapeptide, Thr Mutant, Refined at 1.60 Angstroms Resolution
  28. 7lfm (Na: 1) - Model of Mhc Class Ib H2-M3 with Mouse ND1 N-Terminal Heptapeptide, Val Mutant, Triclinic Cell, Refined at 1.60 Angstroms Resolution
  29. 7lfy (Na: 3) - Cryo-Em Structure of Human Cgmp-Bound Open CNGA1 Channel in Na+
  30. 7lgd (Na: 1) - Hla-B*07:02 in Complex with Sars-Cov-2 Nucleocapsid Peptide N105-113
    Other atoms: Cl (5);
  31. 7lgp (Na: 3) - Dape Enzyme From Shigella Flexneri
    Other atoms: Cl (15); Zn (2);
  32. 7lgt (Na: 4) - Hla-B*07:02 in Complex with 229E-Derived Coronavirus Nucleocapsid Peptide N75-83
    Other atoms: K (12); Cl (9); Zn (11); Br (1);
  33. 7lh8 (Na: 1) - Crystal Structure of the First Bromodomain of Human BRD4 in Complex with Inhibitor Jj-II-131
  34. 7lhx (Na: 1) - Human U1A Protein with F37M and F77M Mutations For Improved Phasing
  35. 7li0 (Na: 4) - Crystal Structure of Apo Moraxella Catarrhalis Ferric Binding Protein A in An Open Conformation
  36. 7lia (Na: 2) - 5-Ht Bound Serotonin Transporter Reconstituted in Lipid Nanodisc in Presence of Nacl in Outward Facing Conformation
    Other atoms: Cl (1);
  37. 7lj2 (Na: 2) - Structure of Exo-L-Galactose-6-Sulfatase BUS1_11 From Bacteroides Uniformis in Complex with Neoporphyrabiose
    Other atoms: Ca (2);
  38. 7lk8 (Na: 3) - Crystal Structure of Kpc-2 T215P Mutant
  39. 7llp (Na: 2) - X-Ray Radiation Damage Series on Lysozyme at 277K, Crystal Structure, Dataset 1
    Other atoms: Cl (1);
  40. 7lm5 (Na: 1) - Crystal Structure of the Zn(II)-Bound Adcaii H65A Mutant Variant of Streptococcus Pneumoniae
    Other atoms: Zn (11); Cl (2);
Page generated: Tue Feb 25 11:40:46 2025

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