1UKV	Protein Transport	date	Sep 01, 2003
title	Structure Of Rabgdp-Dissociation Inhibitor In Complex With P Ypt1 Gtpase
authors	A.Rak, O.Pylypenko, T.Durek, A.Watzke, S.Kushnir, L.Brunsveld, H.W R.S.Goody, K.Alexandrov
compound		source
Molecule: Secretory Pathway Gdp Dissociation Inhibitor Chain: G Synonym: Rab Gdp-Dissociation Inhibitor Engineered: Yes		Organism_scientific: Saccharomyces Cerevisiae Organism_common: Baker'S Yeast Organism_taxid: 4932 Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet19tev
Molecule: Gtp-Binding Protein Ypt1 Chain: Y Synonym: Ypt1 Gtpase Engineered: Yes		Organism_scientific: Saccharomyces Cerevisiae Organism_common: Baker'S Yeast Organism_taxid: 4932 Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Ptwin
symmetry	Space Group: P 1 21 1	R_factor 0.192 R_Free 0.216
crystal cell	length a length b length c angle alpha angle beta angle gamma 47.503 119.577 60.723 90.00 90.61 90.00
method	X-Ray Diffraction	resolution	1.50 Å
ligand	GDP, GER, MG	enzyme
Gene Ontology	Chain Function Process Component G GDP-dissociation inhibitor a... Rab GDP-dissociation inhibit... GTPase activator activity Y early endosome to Golgi tran...
Primary reference	Structure of Rab GDP-dissociation inhibitor in complex with prenylated YPT1 GTPase., Rak A, Pylypenko O, Durek T, Watzke A, Kushnir S, Brunsveld L, Waldmann H, Goody RS, Alexandrov K, Science 2003 Oct 24;302(5645):646-50. PMID:14576435

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (127 Kb) [Save to disk] Biological Unit Coordinates (1ukv.pdb1.gz) 122 Kb LPC: Ligand-Protein Contacts for 1UKV CSU: Contacts of Structural Units for 1UKV Likely Quarternary Molecular Structure file(s) for 1UKV Structure Factors (1076 Kb) Retrieve 1UKV in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1UKV from S2C, [Save to disk] Re-refined 1ukv structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1UKV 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 1UKV

Ramachandran plot from PDBSum

Structure-derived information

Conformational Epitope Prediction for 1UKV 1UKVG 1UKVY 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 1UKV, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1ukvg3, region G:302-399 [Jmol] [rasmolscript] [script source]     - Domain d1ukvg2, region G:400-446 [Jmol] [rasmolscript] [script source]     - Domain d1ukvg1, region G:5-301 [Jmol] [rasmolscript] [script source]     - Domain d1ukvy_, region Y [Jmol] [rasmolscript] [script source]

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1ukv] [1ukv_G] [1ukv_Y] SWISS-PROT database: [P39958] [P01123] Domain organization of [GDI1_YEAST] [YPT1_YEAST] by SWISSPFAM Domain found in 1UKV: [RAB ] by SMART

Other resources with information on 1UKV

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

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