3EKA	Lyase	date	Sep 19, 2008
title	Crystal Structure Of The Complex Of Hyaluranidase Trimer Wit Acid At 3.1 A Resolution Reveals The Locations Of Three Bin
authors	P.Mishra, A.S.Ethayathulla, R.Prem Kumar, N.Singh, S.Sharma, P.Ka V.Bhakuni, T.P.Singh
compound		source
Molecule: Hyaluronidase, Phage Associated Chain: A Fragment: Residues 7-338 Ec: 4.2.2.1 Engineered: Yes		Organism_scientific: Streptococcus Pyogenes Organism_taxid: 1314 Gene: Hylp1, Hylp2, Spy_0701 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet 21d
symmetry	Space Group: H 3 2	R_factor 0.197 R_Free 0.234
crystal cell	length a length b length c angle alpha angle beta angle gamma 58.502 58.502 583.540 90.00 90.00 120.00
method	X-Ray Diffraction	resolution	3.10 Å
ligand	ASC	enzyme	Lyase E.C.4.2.2.1 BRENDA
note	3EKA supersedes 2PK1
Gene	SPY
Gene Ontology	Chain Function Process Component A
Primary reference	Polysaccharide binding sites in hyaluronate lyase--crystal structures of native phage-encoded hyaluronate lyase and its complexes with ascorbic acid and lactose., Mishra P, Prem Kumar R, Ethayathulla AS, Singh N, Sharma S, Perbandt M, Betzel C, Kaur P, Srinivasan A, Bhakuni V, Singh TP, FEBS J. 2009 Jun;276(12):3392-402. Epub 2009 May 8. PMID:19438710

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (58 Kb) [Save to disk] Biological Unit Coordinates (3eka.pdb1.gz) 155 Kb LPC: Ligand-Protein Contacts for 3EKA CSU: Contacts of Structural Units for 3EKA Structure Factors (99 Kb) Retrieve 3EKA in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3EKA from S2C, [Save to disk] Re-refined 3eka structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3EKA 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 3EKA

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 3EKA, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3eka] [3eka_A] SWISS-PROT database: [Q9A0M7] Domain organization of [Q9A0M7_STRP1] by SWISSPFAM

Other resources with information on 3EKA

Community annotation for 3EKA at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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