5LXI	Signaling Protein	date	Sep 21, 2016
title	Gabarap-L1 Atg4b Lir Complex
authors	S.Mouilleron, M.Skytte Rasmussen, B.Kumar Shrestha, M.Wirth, K.B Larsen, Y.Abudu Princely, E.Sjottem, S.Tooze, T.Lamark, T.Johans
compound		source
Molecule: Gamma-Aminobutyric Acid Receptor-Associated Prote Chain: D, B Synonym: Early Estrogen-Regulated Protein,Gaba(A) Receptor- Protein-Like 1,Glandular Epithelial Cell Protein 1,Gec-1; Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Gabarapl1, Gec1 Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_variant: Rosetta Plyss
Molecule: Cysteine Protease Atg4b Chain: C, E Fragment: Unp Residues 384-393 Synonym: Aut-Like 1 Cysteine Endopeptidase,Autophagin-1,Aut Related Cysteine Endopeptidase 1,Autophagy-Related Protein B,Hapg4b; Ec: 3.4.22.- Engineered: Yes		Synthetic: Yes Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606
symmetry	Space Group: C 1 2 1	R_factor 0.197 R_Free 0.230
crystal cell	length a length b length c angle alpha angle beta angle gamma 124.888 72.377 30.620 90.00 99.21 90.00
method	X-Ray Diffraction	resolution	1.44 Å
ligand	EDO, MG, PEG, PER, PGE, SEP	enzyme	Hydrolase E.C.3.4.22 BRENDA
Gene Ontology	Chain Function Process Component D, B
Primary reference	ATG4B contains a C-terminal LIR motif important for binding and efficient cleavage of mammalian orthologs of yeast Atg8., Skytte Rasmussen M, Mouilleron S, Kumar Shrestha B, Wirth M, Lee R, Bowitz Larsen K, Abudu Princely Y, O'Reilly N, Sjottem E, Tooze SA, Lamark T, Johansen T, Autophagy. 2017 Feb 15:1-20. doi: 10.1080/15548627.2017.1287651. PMID:28287329

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (99 Kb) [Save to disk] Biological Unit Coordinates (5lxi.pdb1.gz) 94 Kb LPC: Ligand-Protein Contacts for 5LXI CSU: Contacts of Structural Units for 5LXI Structure Factors (969 Kb) Retrieve 5LXI in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 5LXI from S2C, [Save to disk] Re-refined 5lxi structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 5LXI 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 5LXI

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [5lxi] [5lxi_C] [5lxi_E] [5lxi_B] [5lxi_D] SWISS-PROT database: Domain organization of by SWISSPFAM

Other resources with information on 5LXI

Community annotation for 5LXI at PDBWiki (http://pdbwiki.org)

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