data_26 ####################### # Entry information # ####################### save_entry_information _Saveframe_category entry_information _Entry_title ; 1H-NMR assignment and secondary structure of a Herpes simplex virus glycoprotein D-1 antigenic domain ; _BMRB_accession_number 26 _BMRB_flat_file_name bmr26.str _Entry_type update _Submission_date 1995-07-31 _Accession_date 1996-03-25 _Entry_origination BMRB _NMR_STAR_version 2.1.1 _Experimental_method NMR _Details . loop_ _Author_ordinal _Author_family_name _Author_given_name _Author_middle_initials _Author_family_title 1 Williamson Michael P. . 2 Hall Michael J. . 3 Handa Balraj K. . stop_ loop_ _Saveframe_category_type _Saveframe_category_type_count assigned_chemical_shifts 1 stop_ loop_ _Data_type _Data_type_count "1H chemical shifts" 129 stop_ loop_ _Revision_date _Revision_keyword _Revision_author _Revision_detail 2010-06-09 revision BMRB 'Complete natural source information' 1999-06-14 revision BMRB 'Converted to BMRB NMR-STAR V 2.1 format' 1996-03-25 reformat BMRB 'Converted to the BMRB 1996-03-01 STAR flat-file format' 1995-07-31 original BMRB 'Last release in original BMRB flat-file format' stop_ save_ ############################# # Citation for this entry # ############################# save_entry_citation _Saveframe_category entry_citation _Citation_full ; Williamson, Michael P., Hall, Michael J., Handa, Balraj K., "1H-NMR assignment and secondary structure of a Herpes simplex virus glycoprotein D-1 antigenic domain," Eur. J. Biochem. 158, 527-536 (1986). ; _Citation_title ; 1H-NMR assignment and secondary structure of a Herpes simplex virus glycoprotein D-1 antigenic domain ; _Citation_status published _Citation_type journal _CAS_abstract_code . _MEDLINE_UI_code . _PubMed_ID ? loop_ _Author_ordinal _Author_family_name _Author_given_name _Author_middle_initials _Author_family_title 1 Williamson Michael P. . 2 Hall Michael J. . 3 Handa Balraj K. . stop_ _Journal_abbreviation 'Eur. J. Biochem.' _Journal_volume 158 _Journal_issue . _Journal_CSD . _Book_chapter_title . _Book_volume . _Book_series . _Book_ISBN . _Conference_state_province . _Conference_abstract_number . _Page_first 527 _Page_last 536 _Year 1986 _Details . save_ ################################## # Molecular system description # ################################## save_system_glycoprotein_D-1 _Saveframe_category molecular_system _Mol_system_name 'glycoprotein D-1' _Enzyme_commission_number . loop_ _Mol_system_component_name _Mol_label 'glycoprotein D-1' $glycoprotein_D-1 stop_ _System_molecular_weight . _System_oligomer_state ? _System_paramagnetic ? _System_thiol_state . _Database_query_date . _Details . save_ ######################## # Monomeric polymers # ######################## save_glycoprotein_D-1 _Saveframe_category monomeric_polymer _Mol_type polymer _Mol_polymer_class protein _Name_common 'glycoprotein D-1' _Name_variant 'antigenic domain' _Molecular_mass . _Mol_thiol_state . _Details . ############################## # Polymer residue sequence # ############################## _Residue_count 22 _Mol_residue_sequence ; MADPNRFRGKDLPVLDQLTD PP ; loop_ _Residue_seq_code _Residue_label 1 MET 2 ALA 3 ASP 4 PRO 5 ASN 6 ARG 7 PHE 8 ARG 9 GLY 10 LYS 11 ASP 12 LEU 13 PRO 14 VAL 15 LEU 16 ASP 17 GLN 18 LEU 19 THR 20 ASP 21 PRO 22 PRO stop_ _Sequence_homology_query_date . _Sequence_homology_query_revised_last_date 2015-10-14 loop_ _Database_name _Database_accession_code _Database_entry_mol_name _Sequence_query_to_submitted_percentage _Sequence_subject_length _Sequence_identity _Sequence_positive _Sequence_homology_expectation_value PDB 1JMA "Crystal Structure Of The Herpes Simplex Virus Glycoprotein D Bound To The Cellular Receptor HveaHVEM" 100.00 290 100.00 100.00 2.87e-04 PDB 1L2G "Structure Of A C-Terminally Truncated Form Of Glycoprotein D From Hsv- 1" 100.00 287 100.00 100.00 3.56e-05 PDB 3SKU "Herpes Simplex Virus Glycoprotein D Bound To The Human Receptor Nectin-1" 100.00 285 100.00 100.00 3.22e-05 PDB 3U82 "Binding Of Herpes Simplex Virus Glycoprotein D To Nectin-1 Exploits Host Cell Adhesion" 100.00 291 100.00 100.00 2.80e-04 EMBL CAA26060 "glycoprotein gD (Us6) [Human herpesvirus 1]" 100.00 394 100.00 100.00 3.65e-04 EMBL CAA32283 "virion glycoprotein D [Human herpesvirus 1]" 100.00 394 100.00 100.00 3.65e-04 GB AAA19629 "glycoprotein D [Human herpesvirus 1]" 100.00 394 100.00 100.00 3.83e-04 GB AAA45785 "glycoprotein D [Human herpesvirus 1]" 100.00 394 100.00 100.00 3.83e-04 GB AAA45786 "glycoprotein-D [Human herpesvirus 1]" 100.00 393 100.00 100.00 5.44e-05 GB AAA96682 "gD protein [human herpesvirus 1]" 100.00 394 100.00 100.00 3.65e-04 GB AAB59754 "glycoprotein D [Human herpesvirus 1]" 100.00 394 100.00 100.00 4.94e-05 PIR VGBEDZ "glycoprotein D precursor - human herpesvirus 1 (strain Hzt)" 100.00 393 100.00 100.00 5.38e-05 REF YP_009137141 "envelope glycoprotein D [Human herpesvirus 1]" 100.00 394 100.00 100.00 3.61e-04 SP A1Z0Q5 "RecName: Full=Envelope glycoprotein D; Short=gD; Flags: Precursor" 100.00 394 100.00 100.00 3.83e-04 SP P06476 "RecName: Full=Envelope glycoprotein D; Short=gD; Flags: Precursor" 100.00 393 100.00 100.00 5.44e-05 SP P57083 "RecName: Full=Envelope glycoprotein D; Short=gD; Flags: Precursor" 100.00 394 100.00 100.00 3.83e-04 SP Q05059 "RecName: Full=Envelope glycoprotein D; Short=gD; Flags: Precursor" 100.00 394 100.00 100.00 4.94e-05 SP Q69091 "RecName: Full=Envelope glycoprotein D; Short=gD; Flags: Precursor" 100.00 394 100.00 100.00 3.65e-04 stop_ save_ #################### # Natural source # #################### save_natural_source _Saveframe_category natural_source loop_ _Mol_label _Organism_name_common _NCBI_taxonomy_ID _Superkingdom _Kingdom _Genus _Species _Strain $glycoprotein_D-1 . 10298 Virus . Herpes simplex HSV-1 stop_ save_ ######################### # Experimental source # ######################### save_experimental_source _Saveframe_category experimental_source loop_ _Mol_label _Production_method _Host_organism_name_common _Genus _Species _Strain _Vector_name $glycoprotein_D-1 'not available' . . . . . stop_ save_ ##################################### # Sample contents and methodology # ##################################### ######################## # Sample description # ######################## save_sample_one _Saveframe_category sample _Sample_type solution _Details . save_ ######################### # Experimental detail # ######################### ################################## # NMR Spectrometer definitions # ################################## save_spectrometer_list _Saveframe_category NMR_spectrometer _Manufacturer unknown _Model unknown _Field_strength 0 _Details 'spectrometer information not available' save_ ############################# # NMR applied experiments # ############################# save__1 _Saveframe_category NMR_applied_experiment _Sample_label $sample_one save_ ####################### # Sample conditions # ####################### save_sample_condition_set_one _Saveframe_category sample_conditions _Details . loop_ _Variable_type _Variable_value _Variable_value_error _Variable_value_units pH 4.7 . pH temperature 293 . K stop_ save_ #################### # NMR parameters # #################### ############################## # Assigned chemical shifts # ############################## ################################ # Chemical shift referencing # ################################ save_chem_shift_reference_par_set_one _Saveframe_category chemical_shift_reference _Details . loop_ _Mol_common_name _Atom_type _Atom_isotope_number _Atom_group _Chem_shift_units _Chem_shift_value _Reference_method _Reference_type _External_reference_sample_geometry _External_reference_location _External_reference_axis _Indirect_shift_ratio_citation_label _Correction_value_citation_label TSP H . . ppm 0 . . . . . $entry_citation $entry_citation stop_ save_ ################################### # Assigned chemical shift lists # ################################### ################################################################### # Chemical Shift Ambiguity Index Value Definitions # # # # The values other than 1 are used for those atoms with different # # chemical shifts that cannot be assigned to stereospecific atoms # # or to specific residues or chains. # # # # Index Value Definition # # # # 1 Unique (including isolated methyl protons, # # geminal atoms, and geminal methyl # # groups with identical chemical shifts) # # (e.g. ILE HD11, HD12, HD13 protons) # # 2 Ambiguity of geminal atoms or geminal methyl # # proton groups (e.g. ASP HB2 and HB3 # # protons, LEU CD1 and CD2 carbons, or # # LEU HD11, HD12, HD13 and HD21, HD22, # # HD23 methyl protons) # # 3 Aromatic atoms on opposite sides of # # symmetrical rings (e.g. TYR HE1 and HE2 # # protons) # # 4 Intraresidue ambiguities (e.g. LYS HG and # # HD protons or TRP HZ2 and HZ3 protons) # # 5 Interresidue ambiguities (LYS 12 vs. LYS 27) # # 6 Intermolecular ambiguities (e.g. ASP 31 CA # # in monomer 1 and ASP 31 CA in monomer 2 # # of an asymmetrical homodimer, duplex # # DNA assignments, or other assignments # # that may apply to atoms in one or more # # molecule in the molecular assembly) # # 9 Ambiguous, specific ambiguity not defined # # # ################################################################### save_chemical_shift_assignment_data_set_one _Saveframe_category assigned_chemical_shifts _Details . loop_ _Sample_label $sample_one stop_ _Sample_conditions_label $sample_condition_set_one _Chem_shift_reference_set_label $chem_shift_reference_par_set_one _Mol_system_component_name 'glycoprotein D-1' _Text_data_format . _Text_data . loop_ _Atom_shift_assign_ID _Residue_author_seq_code _Residue_seq_code _Residue_label _Atom_name _Atom_type _Chem_shift_value _Chem_shift_value_error _Chem_shift_ambiguity_code 1 . 1 MET H H 8.37 0.01 1 2 . 1 MET HA H 4.44 0.01 1 3 . 1 MET HB2 H 2.08 0.01 2 4 . 1 MET HB3 H 2.02 0.01 2 5 . 1 MET HG2 H 2.61 0.01 1 6 . 1 MET HG3 H 2.61 0.01 1 7 . 1 MET HE H 2.14 0.01 1 8 . 2 ALA H H 8.46 0.01 1 9 . 2 ALA HA H 4.33 0.01 1 10 . 2 ALA HB H 1.38 0.01 1 11 . 3 ASP H H 8.4 0.01 1 12 . 3 ASP HA H 4.89 0.01 1 13 . 3 ASP HB2 H 2.64 0.01 2 14 . 3 ASP HB3 H 2.83 0.01 2 15 . 4 PRO HA H 4.43 0.01 1 16 . 4 PRO HB2 H 2.36 0.01 2 17 . 4 PRO HB3 H 1.99 0.01 2 18 . 4 PRO HG2 H 2.01 0.01 2 19 . 4 PRO HG3 H 2.08 0.01 2 20 . 4 PRO HD2 H 3.92 0.01 1 21 . 4 PRO HD3 H 3.92 0.01 1 22 . 5 ASN H H 8.57 0.01 1 23 . 5 ASN HA H 4.73 0.01 1 24 . 5 ASN HB2 H 2.79 0.01 2 25 . 5 ASN HB3 H 2.86 0.01 2 26 . 5 ASN HD21 H 7.06 0.01 2 27 . 5 ASN HD22 H 7.87 0.01 2 28 . 6 ARG H H 7.83 0.01 1 29 . 6 ARG HA H 4.2 0.01 1 30 . 6 ARG HB2 H 1.7 0.01 1 31 . 6 ARG HB3 H 1.7 0.01 1 32 . 6 ARG HG2 H 1.36 0.01 1 33 . 6 ARG HG3 H 1.36 0.01 1 34 . 6 ARG HD2 H 3.14 0.01 1 35 . 6 ARG HD3 H 3.14 0.01 1 36 . 6 ARG HE H 7.26 0.01 1 37 . 7 PHE H H 8.24 0.01 1 38 . 7 PHE HA H 4.67 0.01 1 39 . 7 PHE HB2 H 3.05 0.01 2 40 . 7 PHE HB3 H 3.23 0.01 2 41 . 8 ARG H H 8.16 0.01 1 42 . 8 ARG HA H 4.44 0.01 1 43 . 8 ARG HB2 H 1.78 0.01 2 44 . 8 ARG HB3 H 1.9 0.01 2 45 . 8 ARG HG2 H 1.65 0.01 2 46 . 8 ARG HG3 H 1.59 0.01 2 47 . 8 ARG HD2 H 3.22 0.01 1 48 . 8 ARG HD3 H 3.22 0.01 1 49 . 8 ARG HE H 7.29 0.01 1 50 . 9 GLY H H 8.1 0.01 1 51 . 9 GLY HA2 H 3.95 0.01 1 52 . 9 GLY HA3 H 3.95 0.01 1 53 . 10 LYS H H 8.27 0.01 1 54 . 10 LYS HA H 4.36 0.01 1 55 . 10 LYS HB2 H 1.82 0.01 2 56 . 10 LYS HB3 H 1.9 0.01 2 57 . 10 LYS HG2 H 1.41 0.01 1 58 . 10 LYS HG3 H 1.41 0.01 1 59 . 10 LYS HD2 H 1.7 0.01 1 60 . 10 LYS HD3 H 1.7 0.01 1 61 . 10 LYS HE2 H 3.01 0.01 1 62 . 10 LYS HE3 H 3.01 0.01 1 63 . 11 ASP H H 8.47 0.01 1 64 . 11 ASP HA H 4.64 0.01 1 65 . 11 ASP HB2 H 2.65 0.01 2 66 . 11 ASP HB3 H 2.75 0.01 2 67 . 12 LEU H H 8.09 0.01 1 68 . 12 LEU HA H 4.64 0.01 1 69 . 12 LEU HB2 H 1.56 0.01 2 70 . 12 LEU HB3 H 1.63 0.01 2 71 . 12 LEU HG H 1.68 0.01 1 72 . 12 LEU HD1 H .91 0.01 1 73 . 12 LEU HD2 H .91 0.01 1 74 . 13 PRO HA H 4.46 0.01 1 75 . 13 PRO HB2 H 1.89 0.01 2 76 . 13 PRO HB3 H 2.28 0.01 2 77 . 13 PRO HG2 H 2.11 0.01 1 78 . 13 PRO HG3 H 2.11 0.01 1 79 . 13 PRO HD2 H 3.45 0.01 2 80 . 13 PRO HD3 H 3.76 0.01 2 81 . 14 VAL H H 8.28 0.01 1 82 . 14 VAL HA H 4.06 0.01 1 83 . 14 VAL HB H 2.07 0.01 1 84 . 14 VAL HG1 H .96 0.01 2 85 . 14 VAL HG2 H .99 0.01 2 86 . 15 LEU H H 8.39 0.01 1 87 . 15 LEU HA H 4.38 0.01 1 88 . 15 LEU HB2 H 1.63 0.01 2 89 . 15 LEU HB3 H 1.68 0.01 2 90 . 15 LEU HG H 1.68 0.01 1 91 . 15 LEU HD1 H .91 0.01 1 92 . 15 LEU HD2 H .91 0.01 1 93 . 16 ASP H H 8.36 0.01 1 94 . 16 ASP HA H 4.65 0.01 1 95 . 16 ASP HB2 H 2.68 0.01 2 96 . 16 ASP HB3 H 2.82 0.01 2 97 . 17 GLN H H 8.34 0.01 1 98 . 17 GLN HA H 4.35 0.01 1 99 . 17 GLN HB2 H 2.02 0.01 2 100 . 17 GLN HB3 H 2.08 0.01 2 101 . 17 GLN HG2 H 2.36 0.01 1 102 . 17 GLN HG3 H 2.36 0.01 1 103 . 17 GLN HE21 H 6.91 0.01 2 104 . 17 GLN HE22 H 7.61 0.01 2 105 . 18 LEU H H 8.16 0.01 1 106 . 18 LEU HA H 4.34 0.01 1 107 . 18 LEU HB2 H 1.8 0.01 1 108 . 18 LEU HB3 H 1.8 0.01 1 109 . 18 LEU HG H 1.68 0.01 1 110 . 18 LEU HD1 H .91 0.01 1 111 . 18 LEU HD2 H .91 0.01 1 112 . 19 THR H H 8.09 0.01 1 113 . 19 THR HA H 4.34 0.01 1 114 . 19 THR HB H 4.22 0.01 1 115 . 19 THR HG2 H 1.23 0.01 1 116 . 20 ASP H H 8.37 0.01 1 117 . 20 ASP HA H 4.96 0.01 1 118 . 20 ASP HB2 H 2.59 0.01 2 119 . 20 ASP HB3 H 2.8 0.01 2 120 . 21 PRO HA H 4.72 0.01 1 121 . 21 PRO HG2 H 2.01 0.01 2 122 . 21 PRO HG3 H 2.08 0.01 2 123 . 21 PRO HD2 H 3.69 0.01 2 124 . 21 PRO HD3 H 3.82 0.01 2 125 . 22 PRO HA H 4.35 0.01 1 126 . 22 PRO HG2 H 2.06 0.01 1 127 . 22 PRO HG3 H 2.06 0.01 1 128 . 22 PRO HD2 H 3.65 0.01 2 129 . 22 PRO HD3 H 3.76 0.01 2 stop_ save_