1Y8R	Ligase	date	Dec 13, 2004
title	Sumo E1 Activating Enzyme Sae1-Sae2-Sumo1-Mg-Atp Complex
authors	L.M.Lois, C.D.Lima
compound		source
Molecule: Ubiquitin-Like 1 Activating Enzyme E1a Chain: A, D Synonym: Sumo-1 Activating Enzyme Subunit 1 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Uble1a, Sae1 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21de3cp Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet11c
Molecule: Ubiquitin-Like 2 Activating Enzyme E1b Chain: B, E Synonym: Sumo-1 Activating Enzyme Subunit 2; Anthracycline- Resistance Arx; Hrihfb2115; Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Uble1b, Sae2 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21de3cp Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet28b
Molecule: Ubiquitin-Like Protein Smt3c Chain: C, F Synonym: Ubiquitin-Homology Domain Protein Pic1; Ubiquitin- Protein Ubl1; Ubiquitin-Related Protein Sumo-1; Gap Modifyi 1; Gmp1; Sentrin; Oksw-Cl.43; Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Ubl1, Sumo-1, Smt3c, Smt3h3 Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21de3 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet28b
symmetry	Space Group: P 21 21 2	R_factor 0.220 R_Free 0.276
crystal cell	length a length b length c angle alpha angle beta angle gamma 117.197 215.151 100.870 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.75 Å
ligand	ATP, MG, ZN	enzyme
related structures	by homologous chain: 1TGZ, 1Y8Q, 2BF8
Gene Ontology	Chain Function Process Component A, D ubiquitin activating enzyme ... enzyme activator activity E, B F, C
Primary reference	Structures of the SUMO E1 provide mechanistic insights into SUMO activation and E2 recruitment to E1., Lois LM, Lima CD, EMBO J 2005 Jan 20;. PMID:15660128

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (300 Kb) [Save to disk] Biological Unit Coordinates (1y8r.pdb1.gz) 148 Kb Biological Unit Coordinates (1y8r.pdb2.gz) 149 Kb LPC: Ligand-Protein Contacts for 1Y8R CSU: Contacts of Structural Units for 1Y8R Likely Quarternary Molecular Structure file(s) for 1Y8R Structure Factors (558 Kb) Retrieve 1Y8R in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1Y8R from S2C, [Save to disk] Re-refined 1y8r structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1Y8R 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 1Y8R

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 1Y8R, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1y8r] [1y8r_C] [1y8r_E] [1y8r_D] [1y8r_F] [1y8r_A] [1y8r_B] SWISS-PROT database: [Q9UBE0] [Q9UBT2] [P63165] Domain organization of [SAE1_HUMAN] [SAE2_HUMAN] [SUMO1_HUMAN] by SWISSPFAM Domain found in 1Y8R: [UBQ ] by SMART

Other resources with information on 1Y8R

Community annotation for 1Y8R at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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