5YPK		date
authors
compound		source
symmetry		R_factor R_Free
crystal cell	length a length b length c angle alpha angle beta angle gamma
method	X-Ray Diffraction	resolution
ligand	CL, HIW, NA, SO4, ZN	enzyme
Gene Ontology	Chain Function Process Component F, H, G, C, B, A, D, E
Primary reference	The mechanism of NDM-1-catalyzed carbapenem hydrolysis is distinct from that of penicillin or cephalosporin hydrolysis., Feng H, Liu X, Wang S, Fleming J, Wang DC, Liu W, Nat Commun. 2017 Dec 21;8(1):2242. doi: 10.1038/s41467-017-02339-w. PMID:29269938

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (323 Kb) [Save to disk] Biological Unit Coordinates (5ypk.pdb1.gz) 44 Kb Biological Unit Coordinates (5ypk.pdb2.gz) 45 Kb Biological Unit Coordinates (5ypk.pdb3.gz) 45 Kb Biological Unit Coordinates (5ypk.pdb4.gz) 44 Kb Biological Unit Coordinates (5ypk.pdb5.gz) 45 Kb Biological Unit Coordinates (5ypk.pdb6.gz) 44 Kb Biological Unit Coordinates (5ypk.pdb7.gz) 44 Kb Biological Unit Coordinates (5ypk.pdb8.gz) 45 Kb LPC: Ligand-Protein Contacts for 5YPK CSU: Contacts of Structural Units for 5YPK Structure Factors (679 Kb) Retrieve 5YPK in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 5YPK from S2C, [Save to disk]

View 5YPK in 3D

Proteopedia, because life has more than 2D. On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure. On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [5ypk_A] [5ypk_B] [5ypk_C] [5ypk_D] [5ypk_E] [5ypk_F] [5ypk_G] [5ypk_H] SWISS-PROT database:

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