5CAY	Viral Protein Immune System	date	Jun 30, 2015
title	Envelope Glycoprotein Gp120 Core From Hiv Type 2 Bound To Th Two Domains Of Human Soluble Cd4 Receptor
authors	Y.W.Davenport, P.J.Bjorkman
compound		source
Molecule: Envelope Glycoprotein Gp120 Core From St Strain O Chain: G Engineered: Yes Mutation: Yes		Organism_scientific: Human Immunodeficiency Virus Type 2 (I St); Organism_taxid: 11721 Expression_system: Homo Sapiens Expression_system_common: Human Expression_system_taxid: 9606
Molecule: T-Cell Surface Glycoprotein Cd4 Chain: B Fragment: Domains 1 And 2 (Unp Residues 26-208) Synonym: T-Cell Surface Antigen T4leu-3 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Cd4 Expression_system: Spodoptera Frugiperda Expression_system_common: Fall Armyworm Expression_system_taxid: 7108 Expression_system_vector_type: Baculovirus
symmetry	Space Group: C 2 2 21	R_factor 0.231 R_Free 0.287
crystal cell	length a length b length c angle alpha angle beta angle gamma 94.276 100.223 199.139 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	3.00 Å
ligand	BMA, NAG	enzyme
Gene Ontology	Chain Function Process Component B G
Primary reference	Structure of an HIV-2 gp120 in complex with CD4., Davenport YW, West AP Jr, Bjorkman PJ, J Virol. 2015 Nov 25. pii: JVI.02678-15. PMID:26608312

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (167 Kb) [Save to disk] Biological Unit Coordinates (5cay.pdb1.gz) 160 Kb LPC: Ligand-Protein Contacts for 5CAY CSU: Contacts of Structural Units for 5CAY Structure Factors (192 Kb) Retrieve 5CAY in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 5CAY from S2C, [Save to disk] Re-refined 5cay structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 5CAY 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 5CAY

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: [5cay_G] [5cay] [5cay_B] SWISS-PROT database: Domain organization of by SWISSPFAM Domains found in 5CAY: [IG_like] [IGv ] by SMART

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