5DI8	Immune System	date	Aug 31, 2015
title	Fc Knob-Hole Heterodimer T366w + T366sl368ay407v
authors	S.Atwell, A.Leaver-Fay, K.J.Froning, H.Aldaz, A.Pustilnik, F.Lu, F R.Yuan, S.H.Dhanani, A.K.Chamberlain, J.R.Fitchett, B.Gutierrez J.Hendle, E.Secrist, S.J.Demarest, B.Kuhlman
compound		source
Molecule: Ig Gamma-1 Chain C Region Chain: A Fragment: Unp Residues 104-330 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Ighg1 Expression_system: Homo Sapiens Expression_system_taxid: 9606 Expression_system_cell_line: Hek293 Expression_system_vector_type: Plasmid
Molecule: Ig Gamma-1 Chain C Region Chain: B Fragment: Unp Residues 104-330 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Ighg1 Expression_system: Homo Sapiens Expression_system_taxid: 9606 Expression_system_cell_line: Hek293 Expression_system_vector_type: Plasmid
Molecule: Fc-III Peptide Chain: C Engineered: Yes		Synthetic: Yes Organism_scientific: Synthetic Construct Organism_taxid: 32630 Other_details: Cpc Scientific Inc., Sunnyvale Ca
symmetry	Space Group: P 1 21 1	R_factor 0.224 R_Free 0.275
crystal cell	length a length b length c angle alpha angle beta angle gamma 60.297 66.835 79.214 90.00 104.97 90.00
method	X-Ray Diffraction	resolution	1.90 Å
ligand	BMA, FUC, GAL, MAN, NAG	enzyme
Primary reference	Computationally Designed Bispecific Antibodies using Negative State Repertoires., Leaver-Fay A, Froning KJ, Atwell S, Aldaz H, Pustilnik A, Lu F, Huang F, Yuan R, Hassanali S, Chamberlain AK, Fitchett JR, Demarest SJ, Kuhlman B, Structure. 2016 Apr 5;24(4):641-51. doi: 10.1016/j.str.2016.02.013. Epub 2016 Mar, 17. PMID:26996964

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (83 Kb) [Save to disk] Biological Unit Coordinates (5di8.pdb1.gz) 76 Kb LPC: Ligand-Protein Contacts for 5DI8 CSU: Contacts of Structural Units for 5DI8 Structure Factors (836 Kb) Retrieve 5DI8 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 5DI8 from S2C, [Save to disk] Re-refined 5di8 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 5DI8 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 5DI8

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

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [5di8_A] [5di8] [5di8_B] [5di8_C] SWISS-PROT database: Domain organization of by SWISSPFAM Domains found in 5DI8: [IG_like] [IGc1 ] by SMART

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Community annotation for 5DI8 at PDBWiki (http://pdbwiki.org)

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