HEADER TOXIN 11-OCT-17 6B9W TITLE NMR SOLUTION STRUCTURE OF DEFENSIN1 FROM CENTRUROIDES LIMPIDUS TITLE 2 LIMPIDUS COMPND MOL_ID: 1; COMPND 2 MOLECULE: DEFENSIN-1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: CLL-DLP; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: THE TWO FIRST RESIDUES (GS) ARE RESIDUAL AMINOACIDS COMPND 7 FROM PROTHEOLYSIS WITH TROMBIN SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CENTRUROIDES LIMPIDUS; SOURCE 3 ORGANISM_COMMON: MEXICAN SCORPION; SOURCE 4 ORGANISM_TAXID: 6876; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: ROSETTA KEYWDS DEFENSIN, SCORPION, CENTRUROIDES LIMPIDUS LIMPIDUS, TOXIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR F.C.ESCOBEDO-GONZALEZ,F.DEL RIO-PORTILLA,D.FRANCO-BODEK REVDAT 2 14-JUN-23 6B9W 1 REMARK REVDAT 1 26-SEP-18 6B9W 0 JRNL AUTH F.C.ESCOBEDO-GONZALEZ,F.DEL RIO-PORTILLA,D.FRANCO-BODEK, JRNL AUTH 2 R.RODRIGUEZ-DE LA VEGA,E.CARRILLO-FLORES, JRNL AUTH 3 L.A.RODRIGUEZ-SOLANO,D.FLORES-SOLIS,A.GARAZA-GARCIA, JRNL AUTH 4 G.A.TITAUX-DELGADO,E.LOPEZ-VERA,P.CANO-SANCHEZ JRNL TITL FROM GOOD DEFENCE INTO MORTAL RISK: NMR STUDYAND CONVERSION JRNL TITL 2 OF A DEFENSIN INTO A NEUROTOXIN JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : AMBER REMARK 3 AUTHORS : CASE, DARDEN, CHEATHAM III, SIMMERLING, WANG, REMARK 3 DUKE, LUO, ... AND KOLLMAN REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: 350 REMARK 4 REMARK 4 6B9W COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-OCT-17. REMARK 100 THE DEPOSITION ID IS D_1000230481. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 1 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 0.25 MM DEF1, 95% H2O/5% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D DQF-COSY; 2D 1H-1H NOESY; 2D REMARK 210 1H-1H TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 700 MHZ REMARK 210 SPECTROMETER MODEL : INOVA; AMX REMARK 210 SPECTROMETER MANUFACTURER : VARIAN; BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE, CARA 1.5, CYANA REMARK 210 METHOD USED : MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 500 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 19 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 2 ARG A 19 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 3 ARG A 16 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 3 ARG A 19 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 4 ARG A 16 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 4 ARG A 19 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 5 ARG A 16 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 7 ARG A 16 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 8 ARG A 19 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 9 ARG A 16 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 10 ARG A 16 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 10 ARG A 19 NE - CZ - NH1 ANGL. DEV. = 3.6 DEGREES REMARK 500 12 ARG A 19 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 16 ARG A 16 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 17 ARG A 16 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 19 ARG A 16 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 20 ARG A 16 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 TYR A 18 -165.42 -78.91 REMARK 500 1 ILE A 26 -60.45 -134.18 REMARK 500 2 ILE A 26 -17.69 -146.42 REMARK 500 2 TYR A 28 28.64 -68.60 REMARK 500 4 TYR A 18 -169.50 -78.55 REMARK 500 4 ILE A 26 -23.91 -141.53 REMARK 500 4 TYR A 28 0.63 -65.77 REMARK 500 5 TYR A 18 -165.69 -79.94 REMARK 500 5 TRP A 24 -164.62 -104.92 REMARK 500 5 ILE A 26 -13.81 -141.38 REMARK 500 6 TYR A 28 33.01 -68.44 REMARK 500 8 GLN A 27 76.99 50.26 REMARK 500 9 ALA A 3 34.76 -74.22 REMARK 500 9 CYS A 4 28.39 49.90 REMARK 500 9 TYR A 18 -163.23 -77.70 REMARK 500 9 GLN A 27 77.62 52.98 REMARK 500 10 TYR A 22 -168.90 -169.90 REMARK 500 10 ILE A 26 -43.17 -143.94 REMARK 500 11 TYR A 30 -169.37 -160.60 REMARK 500 11 CYS A 33 151.19 63.64 REMARK 500 12 CYS A 33 -166.42 -115.79 REMARK 500 13 TRP A 24 -139.84 -79.78 REMARK 500 14 TYR A 18 -167.32 -78.06 REMARK 500 14 GLN A 27 77.70 52.65 REMARK 500 15 TYR A 18 -169.11 -72.82 REMARK 500 15 ILE A 26 -30.53 -150.19 REMARK 500 16 ALA A 3 -24.86 -150.53 REMARK 500 16 ILE A 26 -47.31 -137.87 REMARK 500 18 CYS A 9 -34.12 -140.23 REMARK 500 18 GLN A 27 90.27 57.23 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 7 TYR A 28 0.12 SIDE CHAIN REMARK 500 12 TYR A 28 0.08 SIDE CHAIN REMARK 500 13 TYR A 28 0.07 SIDE CHAIN REMARK 500 16 TYR A 28 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 30351 RELATED DB: BMRB REMARK 900 NMR SOLUTION STRUCTURE OF DEFENSIN1 FROM CENTRUROIDES LIMPIDUS REMARK 900 LIMPIDUS DBREF 6B9W A 3 34 UNP Q6GU94 DEFL1_CENLI 25 56 SEQADV 6B9W GLY A 1 UNP Q6GU94 EXPRESSION TAG SEQADV 6B9W SER A 2 UNP Q6GU94 EXPRESSION TAG SEQRES 1 A 34 GLY SER ALA CYS GLN PHE TRP SER CYS ASN SER SER CYS SEQRES 2 A 34 ILE SER ARG GLY TYR ARG GLN GLY TYR CYS TRP GLY ILE SEQRES 3 A 34 GLN TYR LYS TYR CYS GLN CYS GLN HELIX 1 AA1 GLN A 5 SER A 15 1 11 SHEET 1 AA1 2 GLY A 21 TYR A 22 0 SHEET 2 AA1 2 GLN A 32 CYS A 33 -1 O GLN A 32 N TYR A 22 SSBOND 1 CYS A 4 CYS A 23 1555 1555 2.03 SSBOND 2 CYS A 9 CYS A 31 1555 1555 2.05 SSBOND 3 CYS A 13 CYS A 33 1555 1555 2.03 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