HEADER PLANT PROTEIN 16-JUL-20 7CKD TITLE SOLUTION STRUCTURE OF NCR169 OXIDIZED FORM 1 FROM MEDICAGO TRUNCATULA COMPND MOL_ID: 1; COMPND 2 MOLECULE: NODULE CYSTEINE-RICH (NCR) SECRETED PEPTIDE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: NODULE-SPECIFIC CYSTEINE-RICH PEPTIDE 169; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MEDICAGO TRUNCATULA; SOURCE 3 ORGANISM_COMMON: BARREL MEDIC; SOURCE 4 ORGANISM_TAXID: 3880; SOURCE 5 GENE: MTR_7G029760; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS MEDICAGO TRUNCATULA, NODULE-SPECIFIC CYSTEINE-RICH PEPTIDE, KEYWDS 2 ANTIMICROBIAL PEPTIDE, DISULFIDE BOND, PLANT PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR N.ISOZUMI,Y.MASUBUCHI,S.OHKI REVDAT 2 14-JUN-23 7CKD 1 REMARK REVDAT 1 26-MAY-21 7CKD 0 JRNL AUTH N.ISOZUMI,Y.MASUBUCHI,T.IMAMURA,M.MORI,H.KOGA,S.OHKI JRNL TITL STRUCTURE AND ANTIMICROBIAL ACTIVITY OF NCR169, A JRNL TITL 2 NODULE-SPECIFIC CYSTEINE-RICH PEPTIDE OF MEDICAGO JRNL TITL 3 TRUNCATULA. JRNL REF SCI REP V. 11 9923 2021 JRNL REFN ESSN 2045-2322 JRNL PMID 33972675 JRNL DOI 10.1038/S41598-021-89485-W REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA REMARK 3 AUTHORS : GUNTERT P. REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 7CKD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 17-JUL-20. REMARK 100 THE DEPOSITION ID IS D_1300017759. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 2.2 REMARK 210 IONIC STRENGTH : 0 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 0.7 MM PEPTIDE, 90% H2O/10% D2O; REMARK 210 0.4 MM [U-99% 15N] PEPTIDE, 90% REMARK 210 H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-1H TOCSY; 2D 1H-1H NOESY; REMARK 210 2D 1H-15N HSQC; 3D 1H-15N TOCSY; REMARK 210 3D 1H-15N NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : NA REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 1 GLU A 2 166.84 62.19 REMARK 500 1 LYS A 8 59.47 -92.48 REMARK 500 1 VAL A 13 88.75 52.40 REMARK 500 1 SER A 19 -178.65 -58.32 REMARK 500 1 LYS A 21 73.60 62.08 REMARK 500 1 PHE A 24 -74.37 -109.69 REMARK 500 1 ILE A 26 104.17 64.66 REMARK 500 1 TRP A 37 -42.21 -146.37 REMARK 500 2 TYR A 9 90.00 53.07 REMARK 500 2 ASP A 14 29.10 -167.55 REMARK 500 2 ASP A 15 88.51 52.02 REMARK 500 2 CYS A 16 40.63 -104.56 REMARK 500 2 LYS A 20 22.23 -150.18 REMARK 500 2 LYS A 21 71.29 61.69 REMARK 500 2 PRO A 22 73.18 -69.77 REMARK 500 2 PHE A 24 46.58 -152.71 REMARK 500 2 LYS A 25 -47.92 -136.23 REMARK 500 2 ILE A 26 108.11 64.16 REMARK 500 3 ILE A 4 151.70 65.31 REMARK 500 3 LYS A 8 38.63 -141.12 REMARK 500 3 ILE A 12 -72.26 -80.89 REMARK 500 3 ASP A 15 68.06 60.18 REMARK 500 3 LYS A 18 27.23 -149.01 REMARK 500 3 SER A 19 176.01 -55.54 REMARK 500 3 LYS A 21 78.07 -112.00 REMARK 500 3 LEU A 23 -52.51 -147.94 REMARK 500 3 PHE A 24 -55.48 178.39 REMARK 500 3 LYS A 25 -42.29 -147.77 REMARK 500 3 ILE A 26 104.95 63.92 REMARK 500 3 TRP A 37 -40.97 -134.81 REMARK 500 3 TYR A 38 -73.53 -51.91 REMARK 500 4 CYS A 10 -175.08 -179.01 REMARK 500 4 VAL A 13 -69.49 71.58 REMARK 500 4 SER A 19 97.86 59.70 REMARK 500 4 LYS A 21 78.10 -112.03 REMARK 500 4 PHE A 24 -70.57 -118.98 REMARK 500 4 ILE A 26 108.03 64.12 REMARK 500 4 TRP A 37 -41.45 -156.15 REMARK 500 4 TYR A 38 -73.57 -51.93 REMARK 500 5 ILE A 12 101.04 64.26 REMARK 500 5 LYS A 21 78.09 -112.03 REMARK 500 5 PHE A 24 32.87 -171.88 REMARK 500 5 ILE A 26 110.13 64.63 REMARK 500 5 TRP A 37 -41.98 -146.97 REMARK 500 5 TYR A 38 -75.94 -51.43 REMARK 500 6 CYS A 10 159.14 63.74 REMARK 500 6 LYS A 25 -74.58 69.11 REMARK 500 6 ILE A 26 115.21 65.84 REMARK 500 6 TRP A 27 -69.00 -122.66 REMARK 500 7 LYS A 8 56.60 -171.39 REMARK 500 REMARK 500 THIS ENTRY HAS 188 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 36362 RELATED DB: BMRB REMARK 900 SOLUTION STRUCTURE OF NCR169 OXIDIZED FORM 1 FROM MEDICAGO REMARK 900 TRUNCATULA DBREF 7CKD A 2 39 UNP A7KHA7 A7KHA7_MEDTR 24 61 SEQADV 7CKD GLY A 1 UNP A7KHA7 EXPRESSION TAG SEQRES 1 A 39 GLY GLU ASP ILE GLY HIS ILE LYS TYR CYS GLY ILE VAL SEQRES 2 A 39 ASP ASP CYS TYR LYS SER LYS LYS PRO LEU PHE LYS ILE SEQRES 3 A 39 TRP LYS CYS VAL GLU ASN VAL CYS VAL LEU TRP TYR LYS SHEET 1 AA1 2 LYS A 28 CYS A 29 0 SHEET 2 AA1 2 CYS A 34 VAL A 35 -1 O VAL A 35 N LYS A 28 SSBOND 1 CYS A 10 CYS A 16 1555 1555 2.04 SSBOND 2 CYS A 29 CYS A 34 1555 1555 2.10 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000 MODEL 1