1N6D	Hydrolase	date	Nov 10, 2002
title	Tricorn Protease In Complex With Tetrapeptide Chloromethyl K Derivative
authors	J.S.Kim, M.Groll, R.Huber, H.Brandstetter
compound		source
Molecule: Tricorn Protease Chain: A, B, C, D, E, F Ec: 3.4.21.- Engineered: Yes		Organism_scientific: Thermoplasma Acidophilum Organism_taxid: 2303 Gene: Tri, Ta1490 Expression_system: Escherichia Coli Bl21 Expression_system_taxid: 511693 Expression_system_strain: Bl21 Expression_system_vector_type: Plasmid Expression_system_plasmid: Prset6c
Molecule: Rvrk Chain: G, H, I, J, K, L Engineered: Yes		Synthetic: Yes Organism_scientific: Synthetic Construct Organism_taxid: 32630 Other_details: This Sequence Occurs Naturally In Thermoplas Acidophilum
symmetry	Space Group: P 1 21 1	R_factor 0.285 R_Free 0.315
crystal cell	length a length b length c angle alpha angle beta angle gamma 95.440 245.430 159.400 90.00 104.79 90.00
method	X-Ray Diffraction	resolution	2.80 Å
ligand	0QE, CHM, D10	enzyme	Hydrolase E.C.3.4.21 BRENDA
related structures	by homologous chain: 1N6F
Gene Ontology	Chain Function Process Component F, A, D, C, E, B
Primary reference	Navigation inside a protease: substrate selection and product exit in the tricorn protease from Thermoplasma acidophilum., Kim JS, Groll M, Musiol HJ, Behrendt R, Kaiser M, Moroder L, Huber R, Brandstetter H, J Mol Biol 2002 Dec 13;324(5):1041-50. PMID:12470958

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (982 Kb) [Save to disk] Biological Unit Coordinates (1n6d.pdb1.gz) 974 Kb LPC: Ligand-Protein Contacts for 1N6D CSU: Contacts of Structural Units for 1N6D Likely Quarternary Molecular Structure file(s) for 1N6D Structure Factors (1409 Kb) Retrieve 1N6D in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1N6D from S2C, [Save to disk] Re-refined 1n6d structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1N6D 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 1N6D

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 1N6D, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1n6da3, region A:320-679 [Jmol] [rasmolscript] [script source]     - Domain d1n6da2, region A:39-319 [Jmol] [rasmolscript] [script source]     - Domain d1n6da4, region A:680-762,A:854-1061 [Jmol] [rasmolscript] [script source]     - Domain d1n6da1, region A:763-853 [Jmol] [rasmolscript] [script source]     - Domain d1n6db3, region B:320-679 [Jmol] [rasmolscript] [script source]     - Domain d1n6db2, region B:39-319 [Jmol] [rasmolscript] [script source]     - Domain d1n6db4, region B:680-762,B:854-1061 [Jmol] [rasmolscript] [script source]     - Domain d1n6db1, region B:763-853 [Jmol] [rasmolscript] [script source]     - Domain d1n6dc3, region C:320-679 [Jmol] [rasmolscript] [script source]     - Domain d1n6dc2, region C:39-319 [Jmol] [rasmolscript] [script source]     - Domain d1n6dc4, region C:680-762,C:854-1061 [Jmol] [rasmolscript] [script source]     - Domain d1n6dc1, region C:763-853 [Jmol] [rasmolscript] [script source]     - Domain d1n6dd3, region D:320-679 [Jmol] [rasmolscript] [script source]     - Domain d1n6dd2, region D:39-319 [Jmol] [rasmolscript] [script source]     - Domain d1n6dd4, region D:680-762,D:854-1061 [Jmol] [rasmolscript] [script source]     - Domain d1n6dd1, region D:763-853 [Jmol] [rasmolscript] [script source]     - Domain d1n6de3, region E:320-679 [Jmol] [rasmolscript] [script source]     - Domain d1n6de2, region E:39-319 [Jmol] [rasmolscript] [script source]     - Domain d1n6de4, region E:680-762,E:854-1061 [Jmol] [rasmolscript] [script source]     - Domain d1n6de1, region E:763-853 [Jmol] [rasmolscript] [script source]     - Domain d1n6df3, region F:320-679 [Jmol] [rasmolscript] [script source]     - Domain d1n6df2, region F:39-319 [Jmol] [rasmolscript] [script source]     - Domain d1n6df4, region F:680-762,F:854-1061 [Jmol] [rasmolscript] [script source]     - Domain d1n6df1, region F:763-853 [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: [1n6d_J] [1n6d_I] [1n6d_C] [1n6d_A] [1n6d_E] [1n6d_L] [1n6d_D] [1n6d_H] [1n6d_B] [1n6d] [1n6d_F] [1n6d_G] [1n6d_K] SWISS-PROT database: [P96086] Domain organization of [TRI_THEAC] by SWISSPFAM Domain found in 1N6D: [TSPc ] by SMART

Other resources with information on 1N6D

Community annotation for 1N6D at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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