5J7Z	Hydrolase	date	Apr 07, 2016
title	Crystal Structure Of Endoglycoceramidase I From Rhodococ-Cus Complex With Gm1
authors	L.Chen
compound		source
Molecule: Putative Secreted Endoglycosylceramidase Chain: A, B Engineered: Yes Mutation: Yes		Organism_scientific: Rhodococcus Equi 103s Organism_taxid: 685727 Strain: 103s Gene: Req_38260 Expression_system: Escherichia Coli 'Bl21-Gold(De3)Plyss Ag Expression_system_taxid: 866768 Expression_system_strain: Bl21-Gold(De3)Plyss Ag Expression_system_vector_type: Plasmid
symmetry	Space Group: C 1 2 1	R_factor 0.167 R_Free 0.203
crystal cell	length a length b length c angle alpha angle beta angle gamma 192.283 48.921 120.227 90.00 113.95 90.00
method	X-Ray Diffraction	resolution	2.15 Å
ligand	18C, BGC, GAL, NA, NGA, SIA	enzyme
note	5J7Z supersedes 5DVG
Gene	REQ
Gene Ontology	Chain Function Process Component A, B
Primary reference	Structural Insights into the Broad Substrate Specificity of a Novel Endoglycoceramidase I Belonging to a New Subfamily of GH5 Glycosidases., Han YB, Chen LQ, Li Z, Tan YM, Feng Y, Yang GY, J Biol Chem. 2017 Mar 24;292(12):4789-4800. doi: 10.1074/jbc.M116.763821. Epub, 2017 Feb 8. PMID:28179425

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (149 Kb) [Save to disk] Biological Unit Coordinates (5j7z.pdb1.gz) 75 Kb Biological Unit Coordinates (5j7z.pdb2.gz) 71 Kb LPC: Ligand-Protein Contacts for 5J7Z CSU: Contacts of Structural Units for 5J7Z Structure Factors (1176 Kb) Retrieve 5J7Z in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 5J7Z from S2C, [Save to disk] Re-refined 5j7z structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 5J7Z 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 5J7Z

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: [5j7z] [5j7z_A] [5j7z_B] SWISS-PROT database: Domain organization of by SWISSPFAM

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