4MYW	Viral Protein Cell Adhesion	date	Sep 28, 2013
title	Structure Of Hsv-2 Gd Bound To Nectin-1
authors	G.Lu, N.Zhang, J.Qi, Y.Li, Z.Chen, C.Zheng, J.Yan, G.F.Gao
compound		source
Molecule: Envelope Glycoprotein D Chain: A, C Fragment: Unp Residues 26-310 Synonym: Gd Engineered: Yes		Organism_scientific: Human Herpesvirus 2 Organism_common: Hhv-2 Organism_taxid: 10313 Strain: 333 Gene: Gd, Us6 Expression_system: Trichoplusia Ni Expression_system_common: Cabbage Looper Expression_system_taxid: 7111 Expression_system_cell_line: Bti-Tn-5b1-4 Expression_system_cell: High5 Expression_system_vector_type: Baculovirus Expression_system_plasmid: Pfast-Bac1
Molecule: Poliovirus Receptor-Related Protein 1 Chain: B, D Fragment: Unp Residues 30-335 Synonym: Herpes Virus Entry Mediator C, Herpesvirus Entry M Hvec, Herpesvirus Ig-Like Receptor, Higr, Nectin-1; Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Hvec, Nectin-1, Prr1, Pvrl1 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet-21b
symmetry	Space Group: P 2 21 21	R_factor 0.196 R_Free 0.247
crystal cell	length a length b length c angle alpha angle beta angle gamma 53.337 170.857 192.251 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	3.19 Å
ligand	NAG	enzyme
Gene Ontology	Chain Function Process Component A, C D, B
Primary reference	Crystal structure of HSV-2 gD bound to nectin-1 reveals a conserved mode of receptor recognition., Lu G, Zhang N, Qi J, Li Y, Chen Z, Zheng C, Gao GF, Yan J, J Virol. 2014 Sep 17. pii: JVI.01906-14. PMID:25231300

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (359 Kb) [Save to disk] Biological Unit Coordinates (4myw.pdb1.gz) 178 Kb Biological Unit Coordinates (4myw.pdb2.gz) 177 Kb LPC: Ligand-Protein Contacts for 4MYW CSU: Contacts of Structural Units for 4MYW Structure Factors (371 Kb) Retrieve 4MYW in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 4MYW from S2C, [Save to disk] Re-refined 4myw structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 4MYW in 3D

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Visual 3D analysis of 4MYW

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 4MYW, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [4myw_D] [4myw_A] [4myw] [4myw_C] [4myw_B] SWISS-PROT database: Domain organization of by SWISSPFAM Domains found in 4MYW: [IG_like] [IGv ] by SMART

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