3EBB	Chaperone	date	Aug 27, 2008
title	Plapp97 Complex
authors	J.R.Walker, L.Qiu, M.Akutsu, Y.Slessarev, M.F.Amaya, Y.Li, C.Bount J.Weigelt, C.H.Arrowsmith, A.M.Edwards, A.Bochkarev, S.Dhe-Paga Structural Genomics Consortium (Sgc)
compound		source
Molecule: Phospholipase A2-Activating Protein Chain: A, B, C, D Fragment: Pul Domain, Residues 511-795 Synonym: Plap, Pla2p,Doa1 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Plaa, Plap, Flj11281, Flj12699 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21 (De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet28-Lic
Molecule: Transitional Endoplasmic Reticulum Atpase (Ter At Chain: E, F, G, H Fragment: C-Terminal Peptide, Residues 797-806 Synonym: 15s Mg(2+)-Atpase P97 Subunit, Valosin-Containing Vcp; Engineered: Yes		Synthetic: Yes Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Other_details: Occurs Naturally In Humans
symmetry	Space Group: C 1 2 1	R_factor 0.188 R_Free 0.248
crystal cell	length a length b length c angle alpha angle beta angle gamma 103.384 68.651 143.975 90.00 103.45 90.00
method	X-Ray Diffraction	resolution	1.90 Å
ligand	MG, MSE	enzyme
Gene Ontology	Chain Function Process Component A, D, C, B
Primary reference	Structure and function of the PLAA/Ufd3-p97/Cdc48 complex., Qiu L, Pashkova N, Walker JR, Winistorfer S, Allali-Hassani A, Akutsu M, Piper R, Dhe-Paganon S, J Biol Chem. 2010 Jan 1;285(1):365-72. Epub 2009 Nov 2. PMID:19887378

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (364 Kb) [Save to disk] Biological Unit Coordinates (3ebb.pdb1.gz) 177 Kb Biological Unit Coordinates (3ebb.pdb2.gz) 175 Kb LPC: Ligand-Protein Contacts for 3EBB CSU: Contacts of Structural Units for 3EBB Likely Quarternary Molecular Structure file(s) for 3EBB Structure Factors (1247 Kb) Retrieve 3EBB in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3EBB from S2C, [Save to disk] Re-refined 3ebb structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3EBB 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 3EBB

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 3EBB, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3ebb_A] [3ebb_H] [3ebb_D] [3ebb] [3ebb_E] [3ebb_F] [3ebb_B] [3ebb_C] [3ebb_G] SWISS-PROT database: [Q9Y263] [P55072] Belongs to the endoplasmic reticular retrotranslocon (er-rt) family according to TCDB. Domain organization of [PLAP_HUMAN] [TERA_HUMAN] by SWISSPFAM

Other resources with information on 3EBB

Community annotation for 3EBB at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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