1YTI	Complex (Hydrolase Peptide)	date	Aug 01, 1996
title	Siv Protease Crystallized With Peptide Product
authors	R.B.Rose, C.S.Craik, N.L.Douglas, R.M.Stroud
compound		source
Molecule: Siv Protease Chain: A Synonym: Siv Proteinase Ec: 3.4.23.16 Engineered: Yes Mutation: Yes		Organism_scientific: Simian Immunodeficiency Virus Organism_taxid: 11723 Strain: X90 Gene: Siv(Mac)239 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_plasmid: Psod-Pr179 Expression_system_gene: Siv(Mac)239 Other_details: Ptac-Tac
Molecule: Peptide Product Chain: I Engineered: Yes
symmetry	Space Group: C 2 2 21	R_factor 0.211 R_Free 0.295
crystal cell	length a length b length c angle alpha angle beta angle gamma 63.700 32.500 97.700 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.20 Å
ligand		enzyme	Hydrolase E.C.3.4.23.16 BRENDA
related structures	by homologous chain: 1HII, 1IDB
Gene Ontology	Chain Function Process Component A
Primary reference	Three-dimensional structures of HIV-1 and SIV protease product complexes., Rose RB, Craik CS, Douglas NL, Stroud RM, Biochemistry 1996 Oct 1;35(39):12933-44. PMID:8841139

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (20 Kb) [Save to disk] Biological Unit Coordinates (1yti.pdb1.gz) 32 Kb CSU: Contacts of Structural Units for 1YTI Likely Quarternary Molecular Structure file(s) for 1YTI Structure Factors (64 Kb) Retrieve 1YTI in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1YTI from S2C, [Save to disk] Re-refined 1yti structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1YTI 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 1YTI

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 1YTI, from MSDmotif at EBI Genome occurence of 1YTI's fold from GeneCensus Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1ytia_, 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: [1yti_A] [1yti] [1yti_I] SWISS-PROT database: [P05896] Domain organization of [POL_SIVM1] by SWISSPFAM

Other resources with information on 1YTI

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

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