data_19677 ####################### # Entry information # ####################### save_entry_information _Saveframe_category entry_information _Entry_title ; Solution structure of the CLAVATA-like encoded peptide of Meloidogyne hapla - MhCLE4 ; _BMRB_accession_number 19677 _BMRB_flat_file_name bmr19677.str _Entry_type original _Submission_date 2013-12-13 _Accession_date 2013-12-13 _Entry_origination author _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 Bobay Benjamin G. . 2 DiGennaro Peter M. . 3 Bird David Mck . stop_ loop_ _Saveframe_category_type _Saveframe_category_type_count assigned_chemical_shifts 1 stop_ loop_ _Data_type _Data_type_count "1H chemical shifts" 53 "13C chemical shifts" 23 "15N chemical shifts" 11 stop_ loop_ _Revision_date _Revision_keyword _Revision_author _Revision_detail 2014-12-22 original author . stop_ loop_ _Related_BMRB_accession_number _Relationship 19674 'CLAVATA encoded peptide of Arabidopsis thaliana - AtCLE10' 19675 'CLAVATA encoded peptide of Arabidopsis thaliana - AtCLE44' 19678 'CLAVATA-like encoded peptide of Meloidogyne hapla - MhCLE5' 19679 'CLAVATA-like encoded peptide of Meloidogyne hapla - MhCLE6/7' stop_ _Original_release_date 2014-12-22 save_ ############################# # Citation for this entry # ############################# save_entry_citation _Saveframe_category entry_citation _Citation_full . _Citation_title 'Inferring function of CLE peptides from high resolution tertiary structures' _Citation_status 'in preparation' _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 DiGennaro Peter M. . 2 Bobay Benjamin G. . 3 Bird David Mck . stop_ _Journal_abbreviation 'Proc. Natl. Acad. Sci. U.S.A.' _Journal_volume . _Journal_issue . _Journal_CSD . _Book_chapter_title . _Book_volume . _Book_series . _Book_ISBN . _Conference_state_province . _Conference_abstract_number . _Page_first . _Page_last . _Year . _Details . save_ ################################## # Molecular system description # ################################## save_assembly _Saveframe_category molecular_system _Mol_system_name 'CLAVATA-like encoded peptide of Meloidogyne hapla - MhCLE4' _Enzyme_commission_number . loop_ _Mol_system_component_name _Mol_label 'CLAVATA-like encoded peptide of Meloidogyne hapla - MhCLE4' $entity stop_ _System_molecular_weight . _System_physical_state native _System_oligomer_state ? _System_paramagnetic no _System_thiol_state . _Database_query_date . _Details . save_ ######################## # Monomeric polymers # ######################## save_entity _Saveframe_category monomeric_polymer _Mol_type polymer _Mol_polymer_class protein _Name_common entity _Molecular_mass 1222.254 _Mol_thiol_state 'not present' _Details . ############################## # Polymer residue sequence # ############################## _Residue_count 12 _Mol_residue_sequence HEVPSGPNPSSN loop_ _Residue_seq_code _Residue_author_seq_code _Residue_label 1 1 HIS 2 2 GLU 3 3 VAL 4 4 PRO 5 5 SER 6 6 GLY 7 7 PRO 8 8 ASN 9 9 PRO 10 10 SER 11 11 SER 12 12 ASN stop_ _Sequence_homology_query_date . _Sequence_homology_query_revised_last_date . save_ #################### # Natural source # #################### save_natural_source _Saveframe_category natural_source loop_ _Mol_label _Organism_name_common _NCBI_taxonomy_ID _Superkingdom _Kingdom _Genus _Species $entity nematode 6305 Eukaryota Metazoa Meloidogyne hapla 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 _Details $entity 'chemical synthesis' . . . . . 'Synthetically made peptide' stop_ save_ ##################################### # Sample contents and methodology # ##################################### ######################## # Sample description # ######################## save_sample_1 _Saveframe_category sample _Sample_type solution _Details . loop_ _Mol_label _Concentration_value _Concentration_value_units _Isotopic_labeling $entity 4 mg/mL 'natural abundance' 'sodium chloride' 137 mM 'natural abundance' 'potassium chloride' 2.7 mM 'natural abundance' 'sodium phosphate' 10 mM 'natural abundance' 'potassium phosphate' 1.8 mM 'natural abundance' H2O 90 % 'natural abundance' D2O 10 % 'natural abundance' stop_ save_ ############################ # Computer software used # ############################ save_ARIA _Saveframe_category software _Name ARIA _Version . loop_ _Vendor _Address _Electronic_address 'Linge, O'Donoghue and Nilges' . . stop_ loop_ _Task refinement 'structure solution' stop_ _Details . save_ save_NMRPipe _Saveframe_category software _Name NMRPipe _Version . loop_ _Vendor _Address _Electronic_address 'Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax' . . stop_ loop_ _Task processing stop_ _Details . save_ save_NMRView _Saveframe_category software _Name NMRView _Version . loop_ _Vendor _Address _Electronic_address 'Johnson, One Moon Scientific' . . stop_ loop_ _Task 'chemical shift assignment' 'data analysis' 'peak picking' stop_ _Details . save_ ######################### # Experimental detail # ######################### ################################## # NMR Spectrometer definitions # ################################## save_spectrometer_1 _Saveframe_category NMR_spectrometer _Manufacturer Bruker _Model Avance _Field_strength 700 _Details . save_ ############################# # NMR applied experiments # ############################# save_2D_1H-15N_HSQC_1 _Saveframe_category NMR_applied_experiment _Experiment_name '2D 1H-15N HSQC' _Sample_label $sample_1 save_ save_2D_1H-13C_HSQC_2 _Saveframe_category NMR_applied_experiment _Experiment_name '2D 1H-13C HSQC' _Sample_label $sample_1 save_ save_2D_1H-1H_TOCSY_3 _Saveframe_category NMR_applied_experiment _Experiment_name '2D 1H-1H TOCSY' _Sample_label $sample_1 save_ save_2D_1H-1H_NOESY_4 _Saveframe_category NMR_applied_experiment _Experiment_name '2D 1H-1H NOESY' _Sample_label $sample_1 save_ ####################### # Sample conditions # ####################### save_sample_conditions_1 _Saveframe_category sample_conditions _Details . loop_ _Variable_type _Variable_value _Variable_value_error _Variable_value_units 'ionic strength' 140 0.1 mM pH 7.0 0.1 pH pressure 1 . atm temperature 273 . K stop_ save_ #################### # NMR parameters # #################### ############################## # Assigned chemical shifts # ############################## ################################ # Chemical shift referencing # ################################ save_chemical_shift_reference_1 _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 DSS C 13 'methyl protons' ppm 0.00 na indirect . . . 0.251449530 DSS H 1 'methyl protons' ppm 0.00 internal direct . . . 1.000000000 DSS N 15 'methyl protons' ppm 0.00 na indirect . . . 0.101329118 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_assigned_chem_shift_list_1 _Saveframe_category assigned_chemical_shifts _Details . loop_ _Experiment_label '2D 1H-15N HSQC' '2D 1H-13C HSQC' '2D 1H-1H TOCSY' '2D 1H-1H NOESY' stop_ loop_ _Sample_label $sample_1 stop_ _Sample_conditions_label $sample_conditions_1 _Chem_shift_reference_set_label $chemical_shift_reference_1 _Mol_system_component_name 'CLAVATA-like encoded peptide of Meloidogyne hapla - MhCLE4' _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 1 HIS HA H 5.0310 0.03 1 2 1 1 HIS HB2 H 2.6850 0.03 2 3 1 1 HIS HB3 H 2.8370 0.03 2 4 1 1 HIS H H 8.7700 0.03 1 5 1 1 HIS CA C 51.6140 0.10 1 6 1 1 HIS N N 120.9210 0.10 1 7 2 2 GLU H H 8.8300 0.03 1 8 2 2 GLU HA H 4.4420 0.03 1 9 2 2 GLU HB2 H 1.9430 0.03 2 10 2 2 GLU HB3 H 2.0230 0.03 2 11 2 2 GLU HG2 H 2.4040 0.03 2 12 2 2 GLU CA C 55.7280 0.10 1 13 2 2 GLU CB C 29.2700 0.10 1 14 2 2 GLU CG C 32.8950 0.10 1 15 2 2 GLU N N 124.3840 0.10 1 16 3 3 VAL H H 8.4810 0.03 1 17 3 3 VAL HA H 4.4380 0.03 1 18 3 3 VAL HB H 2.0890 0.03 1 19 3 3 VAL HG1 H 0.9300 0.03 2 20 3 3 VAL HG2 H 0.9780 0.03 2 21 3 3 VAL CA C 59.9780 0.10 1 22 3 3 VAL CB C 32.6620 0.10 1 23 3 3 VAL CG1 C 20.1530 0.10 2 24 3 3 VAL CG2 C 21.0020 0.10 2 25 3 3 VAL N N 123.9120 0.10 1 26 4 4 PRO HA H 4.4030 0.03 1 27 4 4 PRO HB2 H 1.9770 0.03 2 28 4 4 PRO HB3 H 1.8890 0.03 2 29 4 4 PRO HG2 H 2.2280 0.03 2 30 4 4 PRO HD2 H 3.5910 0.03 2 31 4 4 PRO CA C 63.0690 0.10 1 32 4 4 PRO CD C 49.7020 0.10 1 33 5 5 SER H H 8.4120 0.03 1 34 5 5 SER HA H 4.4550 0.03 1 35 5 5 SER HB2 H 3.8720 0.03 2 36 5 5 SER CA C 58.3700 0.10 1 37 5 5 SER CB C 63.9750 0.10 1 38 5 5 SER N N 116.5000 0.10 1 39 6 6 GLY H H 8.2190 0.03 1 40 6 6 GLY HA2 H 4.1270 0.03 2 41 6 6 GLY HA3 H 4.0770 0.03 2 42 6 6 GLY CA C 44.6050 0.10 1 43 6 6 GLY N N 110.7320 0.10 1 44 7 7 PRO HA H 4.4440 0.03 1 45 7 7 PRO HB2 H 1.9530 0.03 2 46 7 7 PRO HB3 H 2.0500 0.03 2 47 7 7 PRO HG2 H 2.2950 0.03 2 48 7 7 PRO HG3 H 2.4030 0.03 2 49 7 7 PRO HD2 H 3.8600 0.03 2 50 7 7 PRO CA C 63.4590 0.10 1 51 7 7 PRO CD C 51.0960 0.10 1 52 8 8 ASN H H 8.5470 0.03 1 53 8 8 ASN HA H 4.9410 0.03 1 54 8 8 ASN HB2 H 2.6760 0.03 2 55 8 8 ASN HB3 H 2.8280 0.03 2 56 8 8 ASN HD21 H 6.8510 0.03 2 57 8 8 ASN HD22 H 7.5360 0.03 2 58 8 8 ASN CA C 51.4310 0.10 1 59 8 8 ASN CB C 38.7730 0.10 1 60 8 8 ASN N N 119.9960 0.10 1 61 8 8 ASN ND2 N 112.6840 0.10 1 62 9 9 PRO HA H 4.4330 0.03 1 63 9 9 PRO HB2 H 2.3000 0.03 2 64 9 9 PRO HG2 H 2.2810 0.03 2 65 9 9 PRO HD2 H 3.7910 0.03 2 66 9 9 PRO CB C 32.2000 0.10 1 67 9 9 PRO CD C 50.7340 0.10 1 68 10 10 SER H H 8.2290 0.03 1 69 10 10 SER HA H 4.4690 0.03 1 70 10 10 SER HB2 H 3.8650 0.03 2 71 10 10 SER N N 117.4820 0.10 1 72 11 11 SER H H 8.3690 0.03 1 73 11 11 SER HA H 4.4590 0.03 1 74 11 11 SER HB2 H 3.8700 0.03 2 75 11 11 SER CA C 58.3700 0.10 1 76 11 11 SER CB C 63.9750 0.10 1 77 11 11 SER N N 115.5860 0.10 1 78 12 12 ASN H H 8.2240 0.03 1 79 12 12 ASN HA H 4.6370 0.03 1 80 12 12 ASN HB2 H 2.8210 0.03 2 81 12 12 ASN HB3 H 2.7500 0.03 2 82 12 12 ASN HD21 H 6.9400 0.03 2 83 12 12 ASN HD22 H 7.6200 0.03 2 84 12 12 ASN CA C 53.2220 0.10 1 85 12 12 ASN CB C 39.5620 0.10 1 86 12 12 ASN N N 122.7780 0.10 1 87 12 12 ASN ND2 N 113.2610 0.10 1 stop_ save_