5CB5	Hydrolase	date	Jun 30, 2015
title	Structural Insights Into The Mechanism Of Escherichia Coli Y
authors	W.Zhang, C.Wang, Y.Song, C.Shao, X.Zhang, J.Zang
compound		source
Molecule: O-Acetyl-Adp-Ribose Deacetylase Chain: R, A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q Synonym: Regulator Of Rnase III Activity Ec: 3.5.1.- Engineered: Yes Mutation: Yes		Organism_scientific: Escherichia Coli K12 Organism_taxid: 83333 Strain: K12 Gene: Ymdb Expression_system: Escherichia Coli Expression_system_taxid: 562
symmetry	Space Group: P 31 2 1	R_factor 0.262 R_Free 0.290
crystal cell	length a length b length c angle alpha angle beta angle gamma 289.140 289.140 114.053 90.00 90.00 120.00
method	X-Ray Diffraction	resolution	2.80 Å
ligand	ACT, APR, SO4, ZOD	enzyme	Hydrolase E.C.3.5.1 BRENDA
Gene Ontology	Chain Function Process Component F, N, K, E, Q, M, C, L, A, J, O, P, B, H, D, R, I, G
Primary reference	Structural insights into the mechanism of Escherichia coli YmdB: A 2'-O-acetyl-ADP-ribose deacetylase., Zhang W, Wang C, Song Y, Shao C, Zhang X, Zang J, J Struct Biol. 2015 Dec;192(3):478-86. doi: 10.1016/j.jsb.2015.10.010. Epub 2015 , Oct 19. PMID:26481419

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (487 Kb) [Save to disk] Biological Unit Coordinates (5cb5.pdb1.gz) 33 Kb Biological Unit Coordinates (5cb5.pdb2.gz) 33 Kb Biological Unit Coordinates (5cb5.pdb3.gz) 33 Kb Biological Unit Coordinates (5cb5.pdb4.gz) 33 Kb Biological Unit Coordinates (5cb5.pdb5.gz) 32 Kb Biological Unit Coordinates (5cb5.pdb6.gz) 33 Kb Biological Unit Coordinates (5cb5.pdb7.gz) 33 Kb Biological Unit Coordinates (5cb5.pdb8.gz) 33 Kb Biological Unit Coordinates (5cb5.pdb9.gz) 33 Kb LPC: Ligand-Protein Contacts for 5CB5 CSU: Contacts of Structural Units for 5CB5 Structure Factors (2528 Kb) Retrieve 5CB5 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 5CB5 from S2C, [Save to disk] Re-refined 5cb5 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 5CB5 in 3D

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Visual 3D analysis of 5CB5

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

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [5cb5_E] [5cb5_H] [5cb5_C] [5cb5_L] [5cb5_D] [5cb5_J] [5cb5_N] [5cb5_G] [5cb5_F] [5cb5_K] [5cb5_O] [5cb5_B] [5cb5_M] [5cb5_Q] [5cb5_R] [5cb5_A] [5cb5_P] [5cb5_I] [5cb5] SWISS-PROT database: Domain organization of by SWISSPFAM Domain found in 5CB5: [A1pp ] by SMART

Other resources with information on 5CB5

Community annotation for 5CB5 at PDBWiki (http://pdbwiki.org)

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