1JMA	Viral Protein	date	Jul 17, 2001
title	Crystal Structure Of The Herpes Simplex Virus Glycoprotein D The Cellular Receptor Hveahvem
authors	A.Carfi, S.H.Willis, J.C.Whitbeck, C.Krummenacker, G.H.Cohen, R.J.Eisenberg, D.C.Wiley
compound		source
Molecule: Herpesvirus Entry Mediator Chain: B Fragment: Hvea-162 Engineered: Yes Mutation: Yes		Organism_scientific: Human Herpesvirus 1 Organism_common: Herpes Simplex Virus Type 1 Organism_taxid: 10298 Expression_system: Spodoptera Frugiperda Expression_system_common: Fall Armyworm Expression_system_taxid: 7108 Expression_system_vector_type: Baculovirus
Molecule: Glycoprotein D Chain: A Fragment: Gd-285 Engineered: Yes Mutation: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Spodoptera Frugiperda Expression_system_common: Fall Armyworm Expression_system_taxid: 7108 Expression_system_vector_type: Baculovirus
symmetry	Space Group: P 31 2 1	R_factor 0.236 R_Free 0.259
crystal cell	length a length b length c angle alpha angle beta angle gamma 129.154 129.154 80.940 90.00 90.00 120.00
method	X-Ray Diffraction	resolution	2.65 Å
ligand	NAG, SO4	enzyme
note	1JMA is a representative structure
related structures	by homologous chain: 1L2G
Gene Ontology	Chain Function Process Component A
Primary reference	Herpes simplex virus glycoprotein D bound to the human receptor HveA., Carfi A, Willis SH, Whitbeck JC, Krummenacher C, Cohen GH, Eisenberg RJ, Wiley DC, Mol Cell 2001 Jul;8(1):169-79. PMID:11511370

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (65 Kb) [Save to disk] Biological Unit Coordinates (1jma.pdb1.gz) 59 Kb LPC: Ligand-Protein Contacts for 1JMA CSU: Contacts of Structural Units for 1JMA Likely Quarternary Molecular Structure file(s) for 1JMA Structure Factors (178 Kb) Retrieve 1JMA in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1JMA from S2C, [Save to disk] Re-refined 1jma structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1JMA 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 1JMA

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 1JMA, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1jmaa_, region A [Jmol] [rasmolscript] [script source]     - Domain d1jmab1, region B:4-59 [Jmol] [rasmolscript] [script source]     - Domain d1jmab2, region B:60-105 [Jmol] [rasmolscript] [script source] Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH Summaries and structural analyses of PDB data files from PDBSum Identification of Protein Pockets & Cavities at CASTp

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1jma_A] [1jma] [1jma_B] SWISS-PROT database: [P57083] [Q92956] Domain organization of [GD_HHV1P] [TNR14_HUMAN] by SWISSPFAM Domain found in 1JMA: [TNFR ] by SMART

Other resources with information on 1JMA

Community annotation for 1JMA at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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