OCA Atlas for 3H6R

3H6R

Hydrolase Hydrolase Inhibitor

date

Apr 23, 2009

title

Clitocypin, A Beta-Trefoil Cysteine Protease Inhibitor

authors

M.Renko, J.Sabotic, J.Brzin, D.Turk

compound

source

Molecule: Clitocypin Analog
Chain: A

Organism_scientific: Clitocybe Nebularis
Organism_common: Clouded Agaric
Organism_taxid: 117024
Other_details: Isolated From Fruit Bodies

Molecule: Clitocypin Analog
Chain: B

Organism_scientific: Clitocybe Nebularis
Organism_common: Clouded Agaric
Organism_taxid: 117024

symmetry

Space Group: P 1 21 1

R_factor

0.186

R_Free

0.241

crystal
cell

length a	length b	length c	angle alpha	angle beta	angle gamma
46.540	58.000	58.260	90.00	111.20	90.00

method

X-Ray Diffraction

resolution

1.95 Å

Gene
Ontology

Chain	Function	Process	Component
A, B	cysteine-type endopeptidase ...

Primary reference

Versatile loops in mycocypins inhibit three protease families., Renko M, Sabotic J, Mihelic M, Brzin J, Kos J, Turk D, J Biol Chem. 2010 Jan 1;285(1):308-16. Epub 2009 Oct 21. PMID:19846555

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (58 Kb) [Save to disk]

Biological Unit Coordinates (3h6r.pdb1.gz) 27 Kb

Biological Unit Coordinates (3h6r.pdb2.gz) 27 Kb

Biological Unit Coordinates (3h6r.pdb3.gz) 53 Kb

CSU: Contacts of Structural Units for 3H6R

Structure Factors (137 Kb)

Retrieve 3H6R in mmCIF format [Save to disk]

SEQRES to COORDINATES correlation for 3H6R from S2C, [Save to disk]

Re-refined 3h6r structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3H6R 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 3H6R

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 3H6R, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3h6r_B] [3h6r_A] [3h6r]

SWISS-PROT database: [Q3Y9I4]

Domain organization of [Q3Y9I4_CLINE] by SWISSPFAM

Other resources with information on 3H6R

Community annotation for 3H6R at PDBWiki (http://pdbwiki.org)

MMDB (Entrez's Structure Database)

Movements, Movies and Images

Images from IMB Jena Image Library of Biological Macromolecules.

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