HEADER TOXIN 23-JUN-18 6A5I TITLE PSEUDOCERASTES PERSICUS TRYPSIN INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRYPSIN INHIBITOR; COMPND 3 CHAIN: A SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOCERASTES PERSICUS; SOURCE 3 ORGANISM_TAXID: 47769 KEYWDS KUNITZ-TYPE PROTEIN, DENDROTOXIN, SERINE PROTEASE INHIBITOR, TOXIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR M.AMININASAB REVDAT 3 30-OCT-24 6A5I 1 REMARK REVDAT 2 14-JUN-23 6A5I 1 REMARK SEQRES REVDAT 1 01-MAY-19 6A5I 0 JRNL AUTH S.E.BANIJAMALI,M.AMININASAB,D.ZAEIFI JRNL TITL STRUCTURAL CHARACTERIZATION OF PPTI, A KUNITZ-TYPE PROTEIN JRNL TITL 2 FROM THE VENOM OF PSEUDOCERASTES PERSICUS. JRNL REF PLOS ONE V. 14 14657 2019 JRNL REFN ESSN 1932-6203 JRNL PMID 30973886 JRNL DOI 10.1371/JOURNAL.PONE.0214657 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : ARIA REMARK 3 AUTHORS : LINGE, O'DONOGHUE AND NILGES REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6A5I COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 28-JUN-18. REMARK 100 THE DEPOSITION ID IS D_1300008146. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 293 REMARK 210 PH : 4.0 REMARK 210 IONIC STRENGTH : 0 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 2.0 MM PPTI, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-1H TOCSY; 2D DQF-COSY; 2D REMARK 210 1H-1H NOESY; 2D 1H-13C HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ REMARK 210 SPECTROMETER MODEL : DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : SPARKY REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 900 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 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 1 ARG A 22 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 6 ARG A 22 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 7 ARG A 22 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 12 ARG A 22 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES REMARK 500 17 ARG A 22 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 18 ARG A 22 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 20 ARG A 22 NE - CZ - NH1 ANGL. DEV. = 3.3 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 ASP A 2 3.45 -64.99 REMARK 500 1 ASP A 12 73.95 -117.25 REMARK 500 1 ALA A 18 -160.81 -113.15 REMARK 500 1 CYS A 40 -77.30 -105.88 REMARK 500 1 ALA A 44 0.17 -67.37 REMARK 500 1 ASN A 45 76.78 -106.59 REMARK 500 1 ASN A 46 75.27 -153.95 REMARK 500 2 PRO A 10 163.17 -48.41 REMARK 500 2 ASP A 12 73.17 -119.48 REMARK 500 2 ALA A 18 -156.62 -79.08 REMARK 500 2 CYS A 57 -69.82 -156.14 REMARK 500 2 SER A 60 21.76 -146.63 REMARK 500 2 ARG A 67 73.56 55.25 REMARK 500 3 PRO A 10 160.60 -47.47 REMARK 500 3 ALA A 18 -158.54 -99.72 REMARK 500 3 CYS A 40 -92.56 -106.98 REMARK 500 3 ASN A 45 51.49 -104.45 REMARK 500 3 CYS A 57 -75.56 -113.30 REMARK 500 3 SER A 60 85.29 -158.68 REMARK 500 4 PRO A 10 163.67 -48.61 REMARK 500 4 ASP A 12 75.07 -119.20 REMARK 500 4 ALA A 18 -160.47 -128.07 REMARK 500 4 SER A 29 11.44 -145.47 REMARK 500 4 CYS A 40 -60.52 -97.42 REMARK 500 4 ALA A 44 3.32 -69.51 REMARK 500 4 VAL A 58 48.65 -87.32 REMARK 500 4 ARG A 61 75.79 -111.35 REMARK 500 4 LYS A 62 -167.81 57.29 REMARK 500 4 ARG A 67 91.55 57.93 REMARK 500 5 PRO A 10 151.99 -43.33 REMARK 500 5 ASP A 12 76.49 -116.14 REMARK 500 5 ALA A 18 -138.99 32.62 REMARK 500 5 HIS A 19 100.29 -163.36 REMARK 500 5 CYS A 57 -66.46 -104.51 REMARK 500 5 ARG A 67 79.95 53.19 REMARK 500 6 LYS A 17 72.04 -105.79 REMARK 500 6 ALA A 18 -147.79 -121.49 REMARK 500 6 CYS A 57 -37.27 -154.39 REMARK 500 7 ASP A 2 39.98 -76.23 REMARK 500 7 ALA A 18 -144.50 -124.54 REMARK 500 7 CYS A 57 -59.59 -144.95 REMARK 500 7 ARG A 61 61.05 -110.81 REMARK 500 7 ARG A 66 -80.28 57.83 REMARK 500 7 ARG A 67 82.61 48.04 REMARK 500 8 PRO A 10 163.13 -48.62 REMARK 500 8 ALA A 18 -156.36 -80.17 REMARK 500 8 SER A 29 14.82 -145.56 REMARK 500 8 ALA A 44 0.46 -68.06 REMARK 500 8 ASN A 45 38.18 -95.47 REMARK 500 8 CYS A 57 -47.39 -130.08 REMARK 500 REMARK 500 THIS ENTRY HAS 131 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 1 ASP A 11 0.08 SIDE CHAIN REMARK 500 7 ARG A 22 0.09 SIDE CHAIN REMARK 500 12 ASP A 11 0.07 SIDE CHAIN REMARK 500 14 ARG A 3 0.12 SIDE CHAIN REMARK 500 15 ASP A 11 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 36197 RELATED DB: BMRB REMARK 900 PSEUDOCERASTES PERSICUS TRYPSIN INHIBITOR DBREF 6A5I A 1 68 PDB 6A5I 6A5I 1 68 SEQRES 1 A 68 PCA ASP ARG PRO LYS PHE CYS TYR LEU PRO ASP ASP PRO SEQRES 2 A 68 GLY VAL CYS LYS ALA HIS ILE PRO ARG PHE TYR TYR ASN SEQRES 3 A 68 PRO ALA SER ASN LYS CYS LYS GLU PHE ILE TYR GLY GLY SEQRES 4 A 68 CYS GLY GLY ASN ALA ASN ASN PHE GLU THR ARG ALA GLU SEQRES 5 A 68 CYS ARG HIS THR CYS VAL ALA SER ARG LYS GLY GLY PRO SEQRES 6 A 68 ARG ARG PRO HET PCA A 1 14 HETNAM PCA PYROGLUTAMIC ACID FORMUL 1 PCA C5 H7 N O3 HELIX 1 AA1 PRO A 4 LEU A 9 5 6 HELIX 2 AA2 PRO A 27 ASN A 30 5 4 HELIX 3 AA3 THR A 49 VAL A 58 1 10 SHEET 1 AA1 2 ILE A 20 ASN A 26 0 SHEET 2 AA1 2 LYS A 31 TYR A 37 -1 O TYR A 37 N ILE A 20 SSBOND 1 CYS A 7 CYS A 57 1555 1555 2.03 SSBOND 2 CYS A 16 CYS A 40 1555 1555 2.04 SSBOND 3 CYS A 32 CYS A 53 1555 1555 2.03 LINK C PCA A 1 N ASP A 2 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 HETATM 1 N PCA A 1 28.994 27.547 38.141 1.00 0.00 N HETATM 2 CA PCA A 1 28.618 28.854 38.675 1.00 0.00 C HETATM 3 CB PCA A 1 29.914 29.329 39.364 1.00 0.00 C HETATM 4 CG PCA A 1 31.015 28.594 38.584 1.00 0.00 C HETATM 5 CD PCA A 1 30.303 27.396 38.009 1.00 0.00 C HETATM 6 OE PCA A 1 30.862 26.406 37.559 1.00 0.00 O HETATM 7 C PCA A 1 28.170 29.856 37.598 1.00 0.00 C HETATM 8 O PCA A 1 28.721 29.878 36.503 1.00 0.00 O HETATM 9 H PCA A 1 28.333 26.893 37.744 1.00 0.00 H HETATM 10 HA PCA A 1 27.820 28.758 39.403 1.00 0.00 H HETATM 11 HB2 PCA A 1 30.046 30.415 39.309 1.00 0.00 H HETATM 12 HB3 PCA A 1 29.921 29.000 40.398 1.00 0.00 H HETATM 13 HG2 PCA A 1 31.381 29.220 37.757 1.00 0.00 H HETATM 14 HG3 PCA A 1 31.833 28.301 39.233 1.00 0.00 H