HEADER ANTIBIOTIC 28-JUN-24 9IKO TITLE VF16QK IN FREE SOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: VAL-PRO-ILE-ILE-TYR-CYS-ASN-ARG-ARG-THR-DLY-LYS-CYS-LYS- COMPND 3 ARG-PHE; COMPND 4 CHAIN: A SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PODISUS MACULIVENTRIS; SOURCE 3 ORGANISM_TAXID: 29025 KEYWDS STRUCTURE FROM CYANA 2.1, ANTIBIOTIC EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR A.SWALEEHA,S.BHATTACHARYYA REVDAT 1 07-MAY-25 9IKO 0 JRNL AUTH S.J.ABDULLAH,J.S.GUAN,Y.MU,S.BHATTACHARJYA JRNL TITL SINGLE DISULFIDE BOND IN HOST DEFENSE THANATIN ANALOG JRNL TITL 2 PEPTIDES: ANTIMICROBIAL ACTIVITY, ATOMIC-RESOLUTION JRNL TITL 3 STRUCTURES AND TARGET INTERACTIONS. JRNL REF INT J MOL SCI V. 26 2024 JRNL REFN ESSN 1422-0067 JRNL PMID 39795909 JRNL DOI 10.3390/IJMS26010051 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA REMARK 3 AUTHORS : GUNTERT, MUMENTHALER AND WUTHRICH REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 9IKO COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 01-JUL-24. REMARK 100 THE DEPOSITION ID IS D_1300049040. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 278 REMARK 210 PH : 5 REMARK 210 IONIC STRENGTH : 0 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 300 UM FREE VF16QK, 90% H2O/10% REMARK 210 D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D TOCSY; 2D NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : SPARKY, TOPSPIN, CYANA REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 2 ARG A 9 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 13 ARG A 9 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 15 ARG A 9 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 16 ARG A 9 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 20 ARG A 9 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 REMARK 500 REMARK: NULL 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 CYS A 6 54.92 -150.41 REMARK 500 1 ARG A 15 -52.18 -171.30 REMARK 500 2 ARG A 15 -50.85 -173.87 REMARK 500 3 CYS A 6 49.93 -145.60 REMARK 500 3 LYS A 14 100.32 -166.73 REMARK 500 3 ARG A 15 -50.67 -170.95 REMARK 500 4 CYS A 6 60.53 -151.39 REMARK 500 4 ARG A 15 -50.89 -171.20 REMARK 500 5 CYS A 6 56.01 -149.09 REMARK 500 5 ARG A 15 -54.58 -170.81 REMARK 500 6 CYS A 6 73.94 -153.60 REMARK 500 6 ARG A 15 -50.83 -156.75 REMARK 500 7 CYS A 6 56.76 -153.41 REMARK 500 7 LYS A 14 28.07 -148.35 REMARK 500 7 ARG A 15 -159.54 -109.80 REMARK 500 8 CYS A 6 53.22 -145.14 REMARK 500 8 ARG A 15 -66.69 -140.83 REMARK 500 9 CYS A 6 53.01 -141.43 REMARK 500 9 LYS A 14 -83.36 -151.22 REMARK 500 9 ARG A 15 -74.54 -159.01 REMARK 500 10 CYS A 6 66.54 -153.10 REMARK 500 10 ARG A 15 -52.63 -156.04 REMARK 500 11 CYS A 6 37.64 -150.56 REMARK 500 11 ARG A 15 -57.90 -167.55 REMARK 500 12 ARG A 15 -60.08 -160.45 REMARK 500 13 ARG A 15 -47.20 -157.17 REMARK 500 14 CYS A 6 58.06 -151.64 REMARK 500 14 LYS A 14 92.59 -164.13 REMARK 500 14 ARG A 15 -56.67 -167.36 REMARK 500 15 CYS A 6 70.84 -150.99 REMARK 500 15 ARG A 15 -54.46 -163.60 REMARK 500 16 CYS A 6 80.57 -150.71 REMARK 500 16 ARG A 15 -59.11 -144.90 REMARK 500 17 ARG A 15 -53.64 -152.62 REMARK 500 18 CYS A 6 53.60 -153.21 REMARK 500 18 LYS A 14 100.38 -160.96 REMARK 500 18 ARG A 15 -65.45 -158.37 REMARK 500 19 CYS A 6 68.02 -152.11 REMARK 500 19 ARG A 15 -48.47 -161.71 REMARK 500 20 CYS A 6 61.83 -151.72 REMARK 500 20 LYS A 14 105.06 -164.13 REMARK 500 20 ARG A 15 -53.06 -162.64 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ARG A 15 PHE A 16 1 142.44 REMARK 500 ARG A 15 PHE A 16 2 142.71 REMARK 500 ARG A 15 PHE A 16 3 142.91 REMARK 500 ARG A 15 PHE A 16 4 141.90 REMARK 500 ARG A 15 PHE A 16 5 142.35 REMARK 500 ARG A 15 PHE A 16 6 138.87 REMARK 500 ARG A 15 PHE A 16 9 147.29 REMARK 500 ARG A 15 PHE A 16 10 139.80 REMARK 500 ARG A 15 PHE A 16 11 142.26 REMARK 500 ARG A 15 PHE A 16 12 143.32 REMARK 500 ARG A 15 PHE A 16 13 139.99 REMARK 500 ARG A 15 PHE A 16 14 142.10 REMARK 500 ARG A 15 PHE A 16 15 141.80 REMARK 500 ARG A 15 PHE A 16 16 146.91 REMARK 500 ARG A 15 PHE A 16 17 138.94 REMARK 500 ARG A 15 PHE A 16 18 148.15 REMARK 500 ARG A 15 PHE A 16 19 139.38 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 36677 RELATED DB: BMRB REMARK 900 VF16QK IN FREE SOLUTION DBREF 9IKO A 1 16 PDB 9IKO 9IKO 1 16 SEQRES 1 A 16 VAL PRO ILE ILE TYR CYS ASN ARG ARG THR DLY LYS CYS SEQRES 2 A 16 LYS ARG PHE HET DLY A 11 21 HETNAM DLY D-LYSINE FORMUL 1 DLY C6 H14 N2 O2 SHEET 1 AA1 2 TYR A 5 CYS A 6 0 SHEET 2 AA1 2 CYS A 13 LYS A 14 -1 O LYS A 14 N TYR A 5 SSBOND 1 CYS A 6 CYS A 13 1555 1555 2.05 LINK C THR A 10 N DLY A 11 1555 1555 1.33 LINK C DLY A 11 N LYS A 12 1555 1555 1.34 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 ENDMDL MODEL 2 ENDMDL MODEL 3 ENDMDL MODEL 4 ENDMDL MODEL 5 ENDMDL MODEL 6 ENDMDL MODEL 7 ENDMDL MODEL 8 ENDMDL MODEL 9 ENDMDL MODEL 10 ENDMDL MODEL 11 ENDMDL MODEL 12 ENDMDL MODEL 13 ENDMDL MODEL 14 ENDMDL MODEL 15 ENDMDL MODEL 16 ENDMDL MODEL 17 ENDMDL MODEL 18 ENDMDL MODEL 19 ENDMDL MODEL 20 ENDMDL CONECT 97 226 CONECT 166 178 CONECT 178 166 179 187 CONECT 179 178 180 182 188 CONECT 180 179 181 199 CONECT 181 180 CONECT 182 179 183 189 190 CONECT 183 182 184 191 192 CONECT 184 183 185 193 194 CONECT 185 184 186 195 196 CONECT 186 185 197 198 CONECT 187 178 CONECT 188 179 CONECT 189 182 CONECT 190 182 CONECT 191 183 CONECT 192 183 CONECT 193 184 CONECT 194 184 CONECT 195 185 CONECT 196 185 CONECT 197 186 CONECT 198 186 CONECT 199 180 CONECT 226 97 MASTER 181 0 1 0 2 0 0 6 141 1 25 2 END