PDB Short entry for 1HVZ HEADER ANTIMICROBIAL PROTEIN 09-JAN-01 1HVZ TITLE RTD-1, A CYCLIC ANTIMICROBIAL DEFENSIN FROM RHESUS MACAQUE LEUKOCYTES COMPND MOL_ID: 1; COMPND 2 MOLECULE: THETA DEFENSIN 1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: RTD-1; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: THE PEPTIDE WAS CHEMICALLY SYNTHESIZED. THIS SEQUENCE SOURCE 4 OCCURS NATURALLY IN RHESUS MACAQUES (MUCACA MULATTA) KEYWDS CYCLIC, BETA-SHEET, DISULFIDE-RICH, ANTIMICROBIAL PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR D.J.CRAIK,M.TRABI,H.J.SCHIRRA REVDAT 3 23-FEB-22 1HVZ 1 REMARK LINK REVDAT 2 24-FEB-09 1HVZ 1 VERSN REVDAT 1 30-MAY-01 1HVZ 0 JRNL AUTH M.TRABI,H.J.SCHIRRA,D.J.CRAIK JRNL TITL THREE-DIMENSIONAL STRUCTURE OF RTD-1, A CYCLIC ANTIMICROBIAL JRNL TITL 2 DEFENSIN FROM RHESUS MACAQUE LEUKOCYTES. JRNL REF BIOCHEMISTRY V. 40 4211 2001 JRNL REFN ISSN 0006-2960 JRNL PMID 11284676 JRNL DOI 10.1021/BI002028T REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XWINNMR 2.6, CNS 1.0 REMARK 3 AUTHORS : BRUKER (XWINNMR), BRUNGER (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURES ARE BASED ON A TOTAL OF REMARK 3 94 RESTRAINTS, 87 ARE NOE-DERIVED DISTANCE CONSTRAINTS, 7 REMARK 3 DIHEDRAL ANGLE RESTRAINTS REMARK 4 REMARK 4 1HVZ COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-JAN-01. REMARK 100 THE DEPOSITION ID IS D_1000012617. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 310; 300; 280 REMARK 210 PH : 4.5; 4.5; 4.5 REMARK 210 IONIC STRENGTH : 20MM SODIUM PHOSPHATE; 20MM REMARK 210 SODIUM PHOSPHATE; 20MM SODIUM REMARK 210 PHOSPHATE REMARK 210 PRESSURE : AMBIENT; AMBIENT; AMBIENT REMARK 210 SAMPLE CONTENTS : 1MM RTD-1, 20MM SODIUM PHOSPHATE REMARK 210 PH 4.5, 80% H2O, 10% D2O, 10% REMARK 210 ACETONITRILE-D3; 1MM RTD-1, 20MM REMARK 210 SODIUM PHOSPHATE PH 4.5, 90% H2O, REMARK 210 10% D2O; 1MM RTD-1, 20MM SODIUM REMARK 210 PHOSPHATE PH 4.5, 99% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY; DQF-COSY REMARK 210 SPECTROMETER FIELD STRENGTH : 750 MHZ; 500 MHZ REMARK 210 SPECTROMETER MODEL : DMX; ARX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XWINNMR 2.6, CCNMR, X-PLOR REMARK 210 3.851, CNS 1.0 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS, REMARK 210 SIMULATED ANNEALING, EXPLICIT REMARK 210 INCLUSION OF WATER MOLECULES REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS,STRUCTURES REMARK 210 WITH THE LOWEST ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL REMARK 210 REMARK 210 REMARK: THIS STRUCTURE WAS DETERMINED USING STANDARD 2D REMARK 210 HOMONUCLEAR TECHNIQUES. 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: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE 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 ARG A 9 79.33 -62.53 REMARK 500 2 LEU A 6 69.01 -106.65 REMARK 500 2 ARG A 9 79.60 -60.82 REMARK 500 2 CYS A 14 58.55 -110.16 REMARK 500 3 ARG A 9 78.36 -61.77 REMARK 500 4 CYS A 5 66.83 -118.43 REMARK 500 4 CYS A 7 146.59 69.83 REMARK 500 4 ARG A 9 80.62 -63.76 REMARK 500 4 CYS A 12 55.37 -96.82 REMARK 500 4 CYS A 14 174.42 65.52 REMARK 500 5 PHE A 2 135.51 -178.26 REMARK 500 5 ARG A 9 79.09 -61.78 REMARK 500 6 ARG A 4 -64.57 -122.44 REMARK 500 6 ARG A 9 80.93 -67.61 REMARK 500 6 ARG A 13 79.33 -103.79 REMARK 500 7 ARG A 9 78.77 -65.13 REMARK 500 7 CYS A 16 74.48 58.05 REMARK 500 8 PHE A 2 146.01 -178.24 REMARK 500 8 ARG A 9 79.98 -60.01 REMARK 500 9 ARG A 4 -24.89 -161.10 REMARK 500 9 ARG A 9 78.51 -63.42 REMARK 500 9 ARG A 13 26.70 -161.11 REMARK 500 9 CYS A 14 81.49 58.61 REMARK 500 10 LEU A 6 55.33 -113.27 REMARK 500 10 ARG A 9 78.21 -61.36 REMARK 500 11 ARG A 9 77.69 -63.62 REMARK 500 11 CYS A 12 52.32 -109.98 REMARK 500 11 ARG A 13 61.97 -158.97 REMARK 500 11 CYS A 14 82.83 56.55 REMARK 500 12 ARG A 9 77.95 -65.87 REMARK 500 13 PHE A 2 146.61 -177.43 REMARK 500 13 CYS A 7 107.80 -51.71 REMARK 500 13 ARG A 9 81.10 -66.04 REMARK 500 13 ARG A 13 -16.21 179.67 REMARK 500 13 CYS A 16 146.68 72.13 REMARK 500 14 ARG A 9 79.76 -63.18 REMARK 500 14 CYS A 14 94.41 -64.82 REMARK 500 14 CYS A 16 143.96 76.92 REMARK 500 15 ARG A 9 80.07 -67.41 REMARK 500 16 PHE A 2 142.65 -171.08 REMARK 500 16 CYS A 5 44.79 -107.56 REMARK 500 16 CYS A 7 152.78 68.93 REMARK 500 16 ARG A 9 78.94 -62.44 REMARK 500 17 ARG A 9 79.72 -66.23 REMARK 500 17 CYS A 16 100.81 63.93 REMARK 500 18 ARG A 9 79.40 -64.32 REMARK 500 19 PHE A 2 139.64 -172.95 REMARK 500 19 CYS A 7 149.18 71.65 REMARK 500 19 ARG A 9 82.34 -65.26 REMARK 500 19 CYS A 14 131.11 68.02 REMARK 500 REMARK 500 THIS ENTRY HAS 52 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 999 REMARK 999 SEQUENCE RESIDUES NUMBERED ACCORDING TO TANG ET AL., SCIENCE 286 REMARK 999 (1999), PP. 498-502 DBREF 1HVZ A 1 12 GB 7512249 C59089 7 18 DBREF 1HVZ A 13 18 GB 7512249 C59089 1 6 SEQRES 1 A 18 GLY PHE CYS ARG CYS LEU CYS ARG ARG GLY VAL CYS ARG SEQRES 2 A 18 CYS ILE CYS THR ARG SHEET 1 A 2 CYS A 5 ARG A 8 0 SHEET 2 A 2 VAL A 11 CYS A 14 -1 O VAL A 11 N ARG A 8 SSBOND 1 CYS A 3 CYS A 16 1555 1555 2.03 SSBOND 2 CYS A 5 CYS A 14 1555 1555 2.03 SSBOND 3 CYS A 7 CYS A 12 1555 1555 2.03 LINK N GLY A 1 C ARG A 18 1555 1555 1.33 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