1KCD	Hydrolase	date	Nov 08, 2001
title	Endopolygalacturonase I From Stereum Purpureum Complexed Wit Galacturonate At 1.15 A Resolution.
authors	T.Shimizu, T.Nakatsu, K.Miyairi, T.Okuno, H.Kato
compound		source
Molecule: Endopolygalacturonase Chain: A Fragment: Residues 1-335 Ec: 3.2.1.15		Organism_scientific: Chondrostereum Purpureum Organism_taxid: 58369 Strain: Asp-4b
symmetry	Space Group: P 1	R_factor R_Free
crystal cell	length a length b length c angle alpha angle beta angle gamma 46.500 52.070 37.230 72.39 69.50 70.54
method	X-Ray Diffraction	resolution	1.15 Å
ligand	CL, GTK, GTR, NAG	enzyme	Hydrolase E.C.3.2.1.15 BRENDA
related structures	by homologous chain: 1KCC
Gene Ontology	Chain Function Process Component A
Primary reference	Active-site architecture of endopolygalacturonase I from Stereum purpureum revealed by crystal structures in native and ligand-bound forms at atomic resolution., Shimizu T, Nakatsu T, Miyairi K, Okuno T, Kato H, Biochemistry. 2002 May 28;41(21):6651-9. PMID:12022868

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (124 Kb) [Save to disk] Biological Unit Coordinates (1kcd.pdb1.gz) 119 Kb LPC: Ligand-Protein Contacts for 1KCD CSU: Contacts of Structural Units for 1KCD Likely Quarternary Molecular Structure file(s) for 1KCD Structure Factors (1059 Kb) Retrieve 1KCD in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1KCD from S2C, [Save to disk] Re-refined 1kcd structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1KCD 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 1KCD

Ramachandran plot from PDBSum

Structure-derived information

Conformational Epitope Prediction for 1KCD from the CEP Server. Electron Density related parameters from EDS Electron Density Server, at Upsala Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 1KCD, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1kcda_, region A [Jmol] [rasmolscript] [script source] Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH Summaries and structural analyses of PDB data files from PDBSum Identification of Protein Pockets & Cavities at CASTp

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1kcd_A] [1kcd] SWISS-PROT database: [P79074] Domain organization of [P79074_9AGAR] by SWISSPFAM Domain found in 1KCD: [PbH1 ] by SMART

Other resources with information on 1KCD

Community annotation for 1KCD at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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