2AMD	Hydrolase	date	Aug 09, 2005
title	Crystal Structure Of Sars_cov Mpro In Complex With An Inhibitor N9
authors	H.Yang, X.Xue, K.Yang, Q.Zhao, M.Bartlam, Z.Rao
compound		source
Molecule: 3c-Like Proteinase Chain: A, B Synonym: Sars Main Protease, 3cl-Pro Ec: 3.4.22.- Engineered: Yes		Organism_scientific: Sars Coronavirus Organism_taxid: 227859 Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pgex-6p-1
symmetry	Space Group: P 1 21 1	R_factor 0.215 R_Free 0.245
crystal cell	length a length b length c angle alpha angle beta angle gamma 52.110 94.989 67.604 90.00 103.09 90.00
method	X-Ray Diffraction	resolution	1.85 Å
ligand	9IN	enzyme	Hydrolase E.C.3.4.22 BRENDA
Gene Ontology	Chain Function Process Component A, B
Primary reference	Design of Wide-Spectrum Inhibitors Targeting Coronavirus Main Proteases., Yang H, Xie W, Xue X, Yang K, Ma J, Liang W, Zhao Q, Zhou Z, Pei D, Ziebuhr J, Hilgenfeld R, Yuen KY, Wong L, Gao G, Chen S, Chen Z, Ma D, Bartlam M, Rao Z, PLoS Biol 2005 Sep 6;3(10):e324. PMID:16128623

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (110 Kb) [Save to disk] Biological Unit Coordinates (2amd.pdb1.gz) 106 Kb LPC: Ligand-Protein Contacts for 2AMD CSU: Contacts of Structural Units for 2AMD Likely Quarternary Molecular Structure file(s) for 2AMD Structure Factors (593 Kb) Retrieve 2AMD in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2AMD from S2C, [Save to disk] Re-refined 2amd structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2AMD 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.

Visual 3D analysis of 2AMD

Ramachandran plot from PDBSum

Structure-derived information

Electron Density related parameters from EDS Electron Density Server, at Upsala Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 2AMD, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2amd_B] [2amd_A] [2amd] SWISS-PROT database: [P0C6X7] [P0C6U8] Domain organization of [R1AB_CVHSA] [R1A_CVHSA] by SWISSPFAM

Other resources with information on 2AMD

Community annotation for 2AMD at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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Images from IMB Jena Image Library of Biological Macromolecules.

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