HEADER ANTIBIOTIC 21-FEB-12 4DU0 TITLE CRYSTAL STRUCTURE OF HUMAN ALPHA-DEFENSIN 1, HNP1 (G17A MUTANT) COMPND MOL_ID: 1; COMPND 2 MOLECULE: NEUTROPHIL DEFENSIN 1; COMPND 3 CHAIN: A, B, C, D; COMPND 4 FRAGMENT: UNP RESIDUES 65-94; COMPND 5 SYNONYM: DEFENSIN, ALPHA 1, HNP-1, HP-1, HP1, HP 1-56, NEUTROPHIL COMPND 6 DEFENSIN 2, HNP-2, HP-2, HP2; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 4 ORGANISM_COMMON: HUMAN; SOURCE 5 ORGANISM_TAXID: 9606 KEYWDS CYSTEINE RICH ANTIMICROBIAL PEPTIDE, ALPHA-DEFENSIN, HNP1, HUMAN KEYWDS 2 ALPHA-DEFENSIN 1, G17A MUTANT, DEFENSIN FOLD, ANTIMICROBIAL PEPTIDE, KEYWDS 3 HUMAN NEUTROPHILS, ANTIBIOTIC EXPDTA X-RAY DIFFRACTION AUTHOR X.WU,W.LU,M.PAZGIER REVDAT 4 13-SEP-23 4DU0 1 REMARK REVDAT 3 19-JUN-13 4DU0 1 JRNL REVDAT 2 02-MAY-12 4DU0 1 JRNL REVDAT 1 11-APR-12 4DU0 0 JRNL AUTH L.ZHAO,B.ERICKSEN,X.WU,C.ZHAN,W.YUAN,X.LI,M.PAZGIER,W.LU JRNL TITL INVARIANT GLY RESIDUE IS IMPORTANT FOR ALPHA-DEFENSIN JRNL TITL 2 FOLDING, DIMERIZATION, AND FUNCTION: A CASE STUDY OF THE JRNL TITL 3 HUMAN NEUTROPHIL ALPHA-DEFENSIN HNP1 JRNL REF J.BIOL.CHEM. V. 287 18900 2012 JRNL REFN ISSN 0021-9258 JRNL PMID 22496447 JRNL DOI 10.1074/JBC.M112.355255 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.28 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 11946 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.177 REMARK 3 R VALUE (WORKING SET) : 0.175 REMARK 3 FREE R VALUE : 0.212 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 610 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.95 REMARK 3 REFLECTION IN BIN (WORKING SET) : 839 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.76 REMARK 3 BIN R VALUE (WORKING SET) : 0.2210 REMARK 3 BIN FREE R VALUE SET COUNT : 41 REMARK 3 BIN FREE R VALUE : 0.2400 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 956 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 26 REMARK 3 SOLVENT ATOMS : 105 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.80 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.29000 REMARK 3 B22 (A**2) : 0.31000 REMARK 3 B33 (A**2) : 0.98000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.128 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.124 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.080 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.885 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.960 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.949 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1021 ; 0.020 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1384 ; 1.787 ; 1.949 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 120 ; 7.923 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 44 ;15.891 ;18.182 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 146 ;11.593 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 16 ;12.271 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 134 ; 0.146 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 780 ; 0.009 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 602 ; 1.022 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 952 ; 1.647 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 419 ; 3.017 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 430 ; 4.682 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A -10 A 9999 REMARK 3 ORIGIN FOR THE GROUP (A): 0.4351 7.6227 14.8005 REMARK 3 T TENSOR REMARK 3 T11: 0.0827 T22: 0.0508 REMARK 3 T33: 0.0772 T12: 0.0137 REMARK 3 T13: -0.0253 T23: -0.0481 REMARK 3 L TENSOR REMARK 3 L11: 0.7355 L22: 3.3911 REMARK 3 L33: 1.2955 L12: 0.0778 REMARK 3 L13: 0.1446 L23: 1.7208 REMARK 3 S TENSOR REMARK 3 S11: -0.0744 S12: -0.0851 S13: 0.1317 REMARK 3 S21: -0.3113 S22: -0.0615 S23: 0.1968 REMARK 3 S31: -0.2165 S32: -0.1407 S33: 0.1359 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B -10 B 9999 REMARK 3 ORIGIN FOR THE GROUP (A): 2.5799 10.0500 30.4713 REMARK 3 T TENSOR REMARK 3 T11: 0.0203 T22: 0.0174 REMARK 3 T33: 0.0334 T12: -0.0052 REMARK 3 T13: 0.0083 T23: -0.0028 REMARK 3 L TENSOR REMARK 3 L11: 1.8926 L22: 5.2620 REMARK 3 L33: 2.1005 L12: 0.0993 REMARK 3 L13: 0.3922 L23: 0.4662 REMARK 3 S TENSOR REMARK 3 S11: 0.0158 S12: 0.0778 S13: -0.1444 REMARK 3 S21: 0.0044 S22: -0.1560 S23: -0.0714 REMARK 3 S31: 0.1418 S32: 0.0325 S33: 0.1403 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C -10 C 9999 REMARK 3 ORIGIN FOR THE GROUP (A): 14.9452 2.5829 16.9444 REMARK 3 T TENSOR REMARK 3 T11: 0.0120 T22: 0.1287 REMARK 3 T33: 0.1328 T12: -0.0014 REMARK 3 T13: -0.0045 T23: -0.0864 REMARK 3 L TENSOR REMARK 3 L11: 1.8537 L22: 3.4156 REMARK 3 L33: 12.7749 L12: -0.6525 REMARK 3 L13: -0.4319 L23: 4.5257 REMARK 3 S TENSOR REMARK 3 S11: -0.0962 S12: -0.2273 S13: 0.1901 REMARK 3 S21: 0.0158 S22: 0.3845 S23: -0.4892 REMARK 3 S31: -0.0909 S32: 0.8779 S33: -0.2882 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : D -10 D 9999 REMARK 3 ORIGIN FOR THE GROUP (A): 12.8704 13.3187 39.5337 REMARK 3 T TENSOR REMARK 3 T11: 0.0056 T22: 0.0488 REMARK 3 T33: 0.0429 T12: -0.0026 REMARK 3 T13: -0.0077 T23: 0.0303 REMARK 3 L TENSOR REMARK 3 L11: 2.6378 L22: 0.3002 REMARK 3 L33: 1.4791 L12: 0.0780 REMARK 3 L13: -0.2593 L23: -0.1439 REMARK 3 S TENSOR REMARK 3 S11: -0.0146 S12: 0.1620 S13: 0.2568 REMARK 3 S21: -0.0248 S22: 0.0420 S23: 0.0679 REMARK 3 S31: -0.0045 S32: -0.0636 S33: -0.0274 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4DU0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-FEB-12. REMARK 100 THE DEPOSITION ID IS D_1000070780. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-FEB-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL7-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.98 REMARK 200 MONOCHROMATOR : SIDE SCATTERING I-BEAM BEND REMARK 200 SINGLE CRYSTAL, ASYMMETRIC CUT REMARK 200 4.9650 DEG REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 12600 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 6.500 REMARK 200 R MERGE (I) : 0.14400 REMARK 200 R SYM (I) : 0.10700 REMARK 200 FOR THE DATA SET : 18.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.93 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.50 REMARK 200 R MERGE FOR SHELL (I) : 0.85900 REMARK 200 R SYM FOR SHELL (I) : 0.98100 REMARK 200 FOR SHELL : 2.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 1GNY REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.10 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.74 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 MAGNESIUM CHLORIDE, 0.1M HEPES, REMARK 280 PH7.5, 30% ISOPROPANOL, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 19.22650 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 39.44150 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 25.04150 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 39.44150 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 19.22650 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 25.04150 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3, 4, 5 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B 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 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: C 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 350 REMARK 350 BIOMOLECULE: 4 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: D 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 350 REMARK 350 BIOMOLECULE: 5 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 760 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 4310 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -8.0 KCAL/MOL 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 350 APPLY THE FOLLOWING TO CHAINS: D REMARK 350 BIOMT1 2 1.000000 0.000000 0.000000 -19.22650 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 25.04150 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 78.88300 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT 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 O HOH D 226 O HOH D 234 2.04 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH D 202 O HOH D 230 4456 2.06 REMARK 500 O HOH B 206 O HOH D 230 4456 2.13 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 ALA A 17 -161.76 -160.80 REMARK 500 ALA B 17 -167.73 -163.19 REMARK 500 ALA C 17 -166.33 -168.78 REMARK 500 ALA D 17 -157.02 -161.05 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 103 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL D 101 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3GNY RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN ALPHA-DEFENSIN 1 (HNP1) REMARK 900 RELATED ID: 3HJ2 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF COVALENT DIMER OF HNP1 REMARK 900 RELATED ID: 3HJD RELATED DB: PDB REMARK 900 X-RAY STRUCTURE OF MONOMERIC VARIANT OF HNP1 DBREF 4DU0 A 1 30 UNP P59665 DEF1_HUMAN 65 94 DBREF 4DU0 B 1 30 UNP P59665 DEF1_HUMAN 65 94 DBREF 4DU0 C 1 30 UNP P59665 DEF1_HUMAN 65 94 DBREF 4DU0 D 1 30 UNP P59665 DEF1_HUMAN 65 94 SEQADV 4DU0 ALA A 17 UNP P59665 GLY 81 ENGINEERED MUTATION SEQADV 4DU0 ALA B 17 UNP P59665 GLY 81 ENGINEERED MUTATION SEQADV 4DU0 ALA C 17 UNP P59665 GLY 81 ENGINEERED MUTATION SEQADV 4DU0 ALA D 17 UNP P59665 GLY 81 ENGINEERED MUTATION SEQRES 1 A 30 ALA CYS TYR CYS ARG ILE PRO ALA CYS ILE ALA GLY GLU SEQRES 2 A 30 ARG ARG TYR ALA THR CYS ILE TYR GLN GLY ARG LEU TRP SEQRES 3 A 30 ALA PHE CYS CYS SEQRES 1 B 30 ALA CYS TYR CYS ARG ILE PRO ALA CYS ILE ALA GLY GLU SEQRES 2 B 30 ARG ARG TYR ALA THR CYS ILE TYR GLN GLY ARG LEU TRP SEQRES 3 B 30 ALA PHE CYS CYS SEQRES 1 C 30 ALA CYS TYR CYS ARG ILE PRO ALA CYS ILE ALA GLY GLU SEQRES 2 C 30 ARG ARG TYR ALA THR CYS ILE TYR GLN GLY ARG LEU TRP SEQRES 3 C 30 ALA PHE CYS CYS SEQRES 1 D 30 ALA CYS TYR CYS ARG ILE PRO ALA CYS ILE ALA GLY GLU SEQRES 2 D 30 ARG ARG TYR ALA THR CYS ILE TYR GLN GLY ARG LEU TRP SEQRES 3 D 30 ALA PHE CYS CYS HET GOL A 101 6 HET CL A 102 1 HET CL A 103 1 HET GOL B 101 6 HET GOL B 102 6 HET GOL D 101 6 HETNAM GOL GLYCEROL HETNAM CL CHLORIDE ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 5 GOL 4(C3 H8 O3) FORMUL 6 CL 2(CL 1-) FORMUL 11 HOH *105(H2 O) SHEET 1 A 3 TYR A 3 ARG A 5 0 SHEET 2 A 3 ARG A 24 CYS A 30 -1 O CYS A 29 N TYR A 3 SHEET 3 A 3 ARG A 14 TYR A 21 -1 N ARG A 14 O CYS A 30 SHEET 1 B 3 TYR B 3 ARG B 5 0 SHEET 2 B 3 ARG B 24 CYS B 30 -1 O CYS B 29 N TYR B 3 SHEET 3 B 3 ARG B 14 TYR B 21 -1 N TYR B 16 O PHE B 28 SHEET 1 C 3 TYR C 3 ARG C 5 0 SHEET 2 C 3 ARG C 24 CYS C 30 -1 O ALA C 27 N ARG C 5 SHEET 3 C 3 ARG C 14 TYR C 21 -1 N CYS C 19 O TRP C 26 SHEET 1 D 3 TYR D 3 ARG D 5 0 SHEET 2 D 3 ARG D 24 CYS D 30 -1 O CYS D 29 N TYR D 3 SHEET 3 D 3 ARG D 14 TYR D 21 -1 N CYS D 19 O TRP D 26 SSBOND 1 CYS A 2 CYS A 30 1555 1555 2.07 SSBOND 2 CYS A 4 CYS A 19 1555 1555 2.03 SSBOND 3 CYS A 9 CYS A 29 1555 1555 2.06 SSBOND 4 CYS B 2 CYS B 30 1555 1555 2.05 SSBOND 5 CYS B 4 CYS B 19 1555 1555 2.07 SSBOND 6 CYS B 9 CYS B 29 1555 1555 1.99 SSBOND 7 CYS C 2 CYS C 30 1555 1555 2.02 SSBOND 8 CYS C 4 CYS C 19 1555 1555 2.06 SSBOND 9 CYS C 9 CYS C 29 1555 1555 2.06 SSBOND 10 CYS D 2 CYS D 30 1555 1555 2.04 SSBOND 11 CYS D 4 CYS D 19 1555 1555 2.05 SSBOND 12 CYS D 9 CYS D 29 1555 1555 2.00 CISPEP 1 ILE A 6 PRO A 7 0 5.15 CISPEP 2 ILE B 6 PRO B 7 0 4.23 CISPEP 3 ILE C 6 PRO C 7 0 3.10 CISPEP 4 ILE D 6 PRO D 7 0 -6.09 SITE 1 AC1 5 ALA A 1 HOH A 206 HOH A 214 PRO B 7 SITE 2 AC1 5 HOH B 205 SITE 1 AC2 3 PRO A 7 LEU A 25 HOH A 223 SITE 1 AC3 2 ALA A 1 ARG B 15 SITE 1 AC4 8 TYR A 3 CYS A 4 TYR A 21 ALA B 8 SITE 2 AC4 8 CYS B 9 ARG B 14 ARG B 15 GOL B 102 SITE 1 AC5 8 CYS A 4 CYS B 9 ALA B 11 GLY B 12 SITE 2 AC5 8 GLU B 13 ARG B 14 GOL B 101 TYR C 16 SITE 1 AC6 7 HOH B 221 GLY C 23 ARG D 24 LEU D 25 SITE 2 AC6 7 HOH D 206 HOH D 217 HOH D 218 CRYST1 38.453 50.083 78.883 90.00 90.00 90.00 P 21 21 21 16 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 0.026006 0.000000 0.000000 0.00000 SCALE2 0.000000 0.019967 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012677 0.00000