5UD7	Signaling Protein	date	Dec 23, 2016
title	Crystal Structure Of Wild-Type Ig-Like Domain
authors	A.Sudom, X.Min, Z.Wang
compound		source
Molecule: Triggering Receptor Expressed On Myeloid Cells 2 Chain: A, B, C, D, E, F Synonym: Trem-2,Triggering Receptor Expressed On Monocytes Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Trem2 Expression_system: Homo Sapiens Expression_system_taxid: 9606 Expression_system_cell_line: Hek 293 Expression_system_vector_type: Plasmid Expression_system_plasmid: Ptt5
symmetry	Space Group: P 41 21 2	R_factor 0.241 R_Free 0.277
crystal cell	length a length b length c angle alpha angle beta angle gamma 160.664 160.664 86.574 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.20 Å
ligand	IOD, NAG, SO4	enzyme
Primary reference	Molecular basis for the loss-of-function effects of the Alzheimer's disease-associated R47H variant of the immune receptor TREM2., Sudom A, Talreja S, Danao J, Bragg E, Kegel R, Min X, Sharkov N, Marcora E, Thibault S, Bradley J, Wood S, Lim AC, Chen H, Wang S, Foltz IN, Sambashivan S, Wang Z, J Biol Chem. 2018 May 24. pii: RA118.002352. doi: 10.1074/jbc.RA118.002352. PMID:29794134

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (113 Kb) [Save to disk] Biological Unit Coordinates (5ud7.pdb1.gz) 106 Kb LPC: Ligand-Protein Contacts for 5UD7 CSU: Contacts of Structural Units for 5UD7 Structure Factors (2422 Kb) Retrieve 5UD7 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 5UD7 from S2C, [Save to disk]

View 5UD7 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 5UD7

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: [5ud7_D] [5ud7_E] [5ud7_A] [5ud7_F] [5ud7_B] [5ud7_C] SWISS-PROT database: Domain organization of by SWISSPFAM

Other resources with information on 5UD7

Community annotation for 5UD7 at PDBWiki (http://pdbwiki.org)

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