PDB Short entry for 1ZMP HEADER ANTIMICROBIAL PROTEIN 10-MAY-05 1ZMP TITLE CRYSTAL STRUCTURE OF HUMAN DEFENSIN-5 COMPND MOL_ID: 1; COMPND 2 MOLECULE: DEFENSIN 5; COMPND 3 CHAIN: A, C, B, D; COMPND 4 SYNONYM: DEFENSIN, ALPHA 5; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: DEFA5, DEF5; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS PANETH CELLS DEFENSIN, HUMAN ALPHA-DEFENSIN, INTESTINAL DEFENSIN, KEYWDS 2 ANTIMICROBIAL, ANTIMICROBIAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR J.LUBKOWSKI,A.SZYK,W.LU REVDAT 6 03-APR-24 1ZMP 1 REMARK REVDAT 5 11-OCT-17 1ZMP 1 REMARK REVDAT 4 13-JUL-11 1ZMP 1 VERSN REVDAT 3 24-FEB-09 1ZMP 1 VERSN REVDAT 2 12-DEC-06 1ZMP 1 JRNL REVDAT 1 30-MAY-06 1ZMP 0 JRNL AUTH A.SZYK,Z.WU,K.TUCKER,D.YANG,W.LU,J.LUBKOWSKI JRNL TITL CRYSTAL STRUCTURES OF HUMAN {ALPHA}-DEFENSINS HNP4, HD5, AND JRNL TITL 2 HD6. JRNL REF PROTEIN SCI. V. 15 2749 2006 JRNL REFN ISSN 0961-8368 JRNL PMID 17088326 JRNL DOI 10.1110/PS.062336606 REMARK 2 REMARK 2 RESOLUTION. 1.65 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.24 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) : 1.65 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.73 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.4 REMARK 3 NUMBER OF REFLECTIONS : 20981 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) : 0.200 REMARK 3 R VALUE (WORKING SET) : 0.198 REMARK 3 FREE R VALUE : 0.240 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1123 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 10 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.65 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.74 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2175 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2380 REMARK 3 BIN FREE R VALUE SET COUNT : 102 REMARK 3 BIN FREE R VALUE : 0.2750 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 924 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 55 REMARK 3 SOLVENT ATOMS : 166 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.21 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.03000 REMARK 3 B22 (A**2) : 0.03000 REMARK 3 B33 (A**2) : -0.05000 REMARK 3 B12 (A**2) : 0.02000 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): 0.094 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.099 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.058 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.719 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.948 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.916 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1060 ; 0.013 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 112 ; 0.003 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1408 ; 1.643 ; 2.042 REMARK 3 BOND ANGLES OTHERS (DEGREES): 225 ; 0.702 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 123 ; 6.509 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 149 ; 0.116 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1085 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 113 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 387 ; 0.230 ; 0.300 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 232 ; 0.433 ; 0.300 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 247 ; 0.258 ; 0.500 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 194 ; 0.291 ; 0.500 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): 61 ; 0.313 ; 0.300 REMARK 3 SYMMETRY VDW OTHERS (A): 16 ; 0.537 ; 0.300 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 70 ; 0.317 ; 0.500 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): 629 ; 1.423 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 997 ; 2.397 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 431 ; 1.842 ; 2.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 411 ; 2.764 ; 3.000 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): 9 ; 2.187 ; 2.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 1 ;11.736 ; 2.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 34 ; 3.367 ; 2.000 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 1 A 32 REMARK 3 ORIGIN FOR THE GROUP (A): -6.2270 22.7342 22.2450 REMARK 3 T TENSOR REMARK 3 T11: 0.0957 T22: 0.0600 REMARK 3 T33: 0.0768 T12: -0.0410 REMARK 3 T13: -0.0004 T23: 0.0049 REMARK 3 L TENSOR REMARK 3 L11: 0.8353 L22: 0.7551 REMARK 3 L33: 5.1581 L12: -0.1283 REMARK 3 L13: 0.7129 L23: -1.9010 REMARK 3 S TENSOR REMARK 3 S11: 0.0305 S12: -0.0308 S13: -0.0314 REMARK 3 S21: -0.1285 S22: -0.0078 S23: 0.0673 REMARK 3 S31: 0.2647 S32: -0.1491 S33: -0.0228 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 1 B 32 REMARK 3 ORIGIN FOR THE GROUP (A): -6.6728 19.6781 9.7655 REMARK 3 T TENSOR REMARK 3 T11: 0.1690 T22: 0.0428 REMARK 3 T33: 0.0512 T12: -0.0622 REMARK 3 T13: -0.0046 T23: -0.0059 REMARK 3 L TENSOR REMARK 3 L11: 6.0053 L22: 3.6454 REMARK 3 L33: 1.8226 L12: 3.7805 REMARK 3 L13: 2.4149 L23: 0.5193 REMARK 3 S TENSOR REMARK 3 S11: 0.0571 S12: -0.0025 S13: -0.1456 REMARK 3 S21: -0.2161 S22: 0.0136 S23: -0.0978 REMARK 3 S31: 0.3585 S32: -0.0949 S33: -0.0706 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 1 C 32 REMARK 3 ORIGIN FOR THE GROUP (A): 1.0240 34.8205 0.8929 REMARK 3 T TENSOR REMARK 3 T11: 0.1140 T22: 0.0415 REMARK 3 T33: 0.0733 T12: -0.0002 REMARK 3 T13: 0.0169 T23: -0.0057 REMARK 3 L TENSOR REMARK 3 L11: 0.5145 L22: 0.9944 REMARK 3 L33: 3.3685 L12: 0.2389 REMARK 3 L13: 0.6573 L23: -0.9482 REMARK 3 S TENSOR REMARK 3 S11: -0.0522 S12: 0.0238 S13: -0.0411 REMARK 3 S21: -0.0351 S22: -0.0371 S23: 0.0169 REMARK 3 S31: 0.1314 S32: 0.0039 S33: 0.0893 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 19 D 28 REMARK 3 ORIGIN FOR THE GROUP (A): 4.8307 39.5226 -10.9563 REMARK 3 T TENSOR REMARK 3 T11: 0.1130 T22: 0.0446 REMARK 3 T33: 0.0681 T12: 0.0352 REMARK 3 T13: 0.0192 T23: 0.0156 REMARK 3 L TENSOR REMARK 3 L11: 4.8300 L22: 4.3073 REMARK 3 L33: 4.9802 L12: 4.7464 REMARK 3 L13: 0.1434 L23: -0.0956 REMARK 3 S TENSOR REMARK 3 S11: -0.1650 S12: 0.1732 S13: -0.0266 REMARK 3 S21: -0.1558 S22: -0.0806 S23: -0.1314 REMARK 3 S31: 0.3261 S32: 0.0930 S33: 0.2456 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH 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: IN ONE OF 4 CHAINS (CHAIN D) OF HUMAN REMARK 3 ALPHA-DEFENSIN-5, 6 RESIDUES IN THE MIDDLE OF THE CHAIN ARE REMARK 3 DISORDERED, AND THEIR STRUCTURE COULD NOT BE DEFINED. REMARK 4 REMARK 4 1ZMP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-MAY-05. REMARK 100 THE DEPOSITION ID IS D_1000032900. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-JAN-04 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 : APS REMARK 200 BEAMLINE : 22-BM REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9200 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MAR REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23239 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 90.2 REMARK 200 DATA REDUNDANCY : 8.700 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.08600 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 22.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.66 REMARK 200 COMPLETENESS FOR SHELL (%) : 50.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.60 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.38800 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELXD, SHARP REMARK 200 STARTING MODEL: EXPERMIENTAL PHASES REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.61 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.12 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: HEPES, LITHIUM SULFATE MONOHYDRATE, REMARK 280 DIOXANE, PH 7.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+1/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+5/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 170.12333 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 85.06167 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 127.59250 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 42.53083 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 212.65417 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 170.12333 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 85.06167 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 42.53083 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 127.59250 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 212.65417 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3, 4 REMARK 300 THIS ENTRY CONTAINS THE CRYSTALLOGRAPHIC ASYMMETRIC UNIT REMARK 300 WHICH CONSISTS OF 4 CHAIN(S). SEE REMARK 350 FOR REMARK 300 INFORMATION ON GENERATING THE BIOLOGICAL MOLECULE(S). REMARK 300 THE AUTHOR STATES THE BIOLOGICAL UNIT IS A PROBABLE REMARK 300 MONOMER. 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: 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: 3 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: 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: OCTAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 9980 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14880 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -230.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 -24.68750 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 -42.76000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 0.500000 -0.866025 0.000000 24.68750 REMARK 350 BIOMT2 2 -0.866025 -0.500000 0.000000 42.76000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 42.53083 REMARK 350 APPLY THE FOLLOWING TO CHAINS: D REMARK 350 BIOMT1 3 0.500000 0.866025 0.000000 -49.37500 REMARK 350 BIOMT2 3 -0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 42.53083 REMARK 350 BIOMT1 4 1.000000 0.000000 0.000000 -24.68750 REMARK 350 BIOMT2 4 0.000000 -1.000000 0.000000 42.76000 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C REMARK 350 BIOMT1 5 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 5 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 5 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 6 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 6 0.000000 0.000000 -1.000000 42.53083 REMARK 350 REMARK 350 BIOMOLECULE: 6 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: OCTAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 10210 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14400 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -215.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 BIOMT1 2 0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 42.53083 REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, D REMARK 350 BIOMT1 3 0.500000 0.866025 0.000000 -49.37500 REMARK 350 BIOMT2 3 -0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 42.53083 REMARK 350 BIOMT1 4 1.000000 0.000000 0.000000 -24.68750 REMARK 350 BIOMT2 4 0.000000 -1.000000 0.000000 42.76000 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 7 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: OCTAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 9550 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15060 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -207.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: D REMARK 350 BIOMT1 1 0.500000 0.866025 0.000000 -49.37500 REMARK 350 BIOMT2 1 -0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 42.53083 REMARK 350 BIOMT1 2 1.000000 0.000000 0.000000 -24.68750 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 42.76000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C, B REMARK 350 BIOMT1 3 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 3 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 4 0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 4 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 42.53083 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 CYS D 10 REMARK 465 ALA D 11 REMARK 465 THR D 12 REMARK 465 ARG D 13 REMARK 465 GLU D 14 REMARK 465 SER D 15 REMARK 465 ARG D 32 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 655 O HOH D 656 1.74 REMARK 500 O HOH D 655 O HOH D 657 1.86 REMARK 500 O HOH A 512 O HOH A 513 1.87 REMARK 500 O HOH B 588 O HOH B 611 1.88 REMARK 500 NH1 ARG C 13 O HOH C 643 1.89 REMARK 500 NH1 ARG A 13 O HOH A 632 1.95 REMARK 500 NH1 ARG A 32 O HOH A 624 1.98 REMARK 500 O HOH D 574 O HOH D 575 1.98 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 NH2 ARG D 9 O HOH C 553 6664 1.80 REMARK 500 CD2 TYR D 4 O HOH C 590 8665 2.14 REMARK 500 CD2 LEU B 26 O HOH B 566 8675 2.17 REMARK 500 REMARK 500 REMARK: NULL 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 CYS D 20 CA - CB - SG ANGL. DEV. = 8.7 DEGREES REMARK 500 CYS D 30 CA - CB - SG ANGL. DEV. = 7.3 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 TYR D 4 -112.43 -90.37 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 SO4 B 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 D 103 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 C 104 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 C 105 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 106 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 151 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL C 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL C 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL C 204 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1DFN RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF RELATED HUMAN ALPHA-DEFENSIN REMARK 900 RELATED ID: 1ZMH RELATED DB: PDB REMARK 900 RELATED ID: 1ZMI RELATED DB: PDB REMARK 900 RELATED ID: 1ZMK RELATED DB: PDB REMARK 900 RELATED ID: 1ZMM RELATED DB: PDB REMARK 900 RELATED ID: 1ZMQ RELATED DB: PDB DBREF 1ZMP A 1 32 UNP Q01523 DEF5_HUMAN 63 94 DBREF 1ZMP B 1 32 UNP Q01523 DEF5_HUMAN 63 94 DBREF 1ZMP C 1 32 UNP Q01523 DEF5_HUMAN 63 94 DBREF 1ZMP D 1 32 UNP Q01523 DEF5_HUMAN 63 94 SEQRES 1 A 32 ALA THR CYS TYR CYS ARG THR GLY ARG CYS ALA THR ARG SEQRES 2 A 32 GLU SER LEU SER GLY VAL CYS GLU ILE SER GLY ARG LEU SEQRES 3 A 32 TYR ARG LEU CYS CYS ARG SEQRES 1 C 32 ALA THR CYS TYR CYS ARG THR GLY ARG CYS ALA THR ARG SEQRES 2 C 32 GLU SER LEU SER GLY VAL CYS GLU ILE SER GLY ARG LEU SEQRES 3 C 32 TYR ARG LEU CYS CYS ARG SEQRES 1 B 32 ALA THR CYS TYR CYS ARG THR GLY ARG CYS ALA THR ARG SEQRES 2 B 32 GLU SER LEU SER GLY VAL CYS GLU ILE SER GLY ARG LEU SEQRES 3 B 32 TYR ARG LEU CYS CYS ARG SEQRES 1 D 32 ALA THR CYS TYR CYS ARG THR GLY ARG CYS ALA THR ARG SEQRES 2 D 32 GLU SER LEU SER GLY VAL CYS GLU ILE SER GLY ARG LEU SEQRES 3 D 32 TYR ARG LEU CYS CYS ARG HET SO4 A 102 5 HET GOL A 202 6 HET SO4 C 104 5 HET SO4 C 105 5 HET GOL C 201 6 HET GOL C 203 6 HET GOL C 204 6 HET SO4 B 101 5 HET SO4 B 106 5 HET CL B 151 1 HET SO4 D 103 5 HETNAM SO4 SULFATE ION HETNAM GOL GLYCEROL HETNAM CL CHLORIDE ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 5 SO4 6(O4 S 2-) FORMUL 6 GOL 4(C3 H8 O3) FORMUL 14 CL CL 1- FORMUL 16 HOH *166(H2 O) SHEET 1 A 6 CYS A 3 ARG A 6 0 SHEET 2 A 6 ARG A 25 CYS A 31 -1 O ARG A 28 N ARG A 6 SHEET 3 A 6 SER A 15 ILE A 22 -1 N GLU A 21 O VAL C 19 SHEET 4 A 6 SER C 15 ILE C 22 -1 N CYS C 20 O TYR C 27 SHEET 5 A 6 ARG C 25 CYS C 31 -1 O ARG C 28 N ARG C 6 SHEET 6 A 6 CYS C 3 ARG C 6 -1 N ARG C 6 O ARG C 28 SHEET 1 B 6 CYS B 3 ARG B 6 0 SHEET 2 B 6 ARG B 25 CYS B 31 -1 O ARG B 28 N ARG B 6 SHEET 3 B 6 SER B 15 ILE B 22 -1 N ILE B 22 O ARG B 25 SHEET 4 B 6 GLY D 18 ILE D 22 -1 O VAL D 19 N GLU B 21 SHEET 5 B 6 ARG D 25 CYS D 30 -1 O TYR D 27 N CYS D 20 SHEET 6 B 6 TYR D 4 ARG D 6 -1 N ARG D 6 O ARG D 28 SSBOND 1 CYS A 3 CYS A 31 1555 1555 2.05 SSBOND 2 CYS A 5 CYS A 20 1555 1555 2.07 SSBOND 3 CYS A 10 CYS A 30 1555 1555 2.06 SSBOND 4 CYS C 3 CYS C 31 1555 1555 2.06 SSBOND 5 CYS C 5 CYS C 20 1555 1555 2.03 SSBOND 6 CYS C 10 CYS C 30 1555 1555 2.04 SSBOND 7 CYS B 3 CYS B 31 1555 1555 2.06 SSBOND 8 CYS B 5 CYS B 20 1555 1555 2.05 SSBOND 9 CYS B 10 CYS B 30 1555 1555 2.06 SSBOND 10 CYS D 3 CYS D 31 1555 1555 2.27 SSBOND 11 CYS D 5 CYS D 20 1555 1555 2.64 SITE 1 AC1 7 ARG A 6 THR A 7 GLY A 8 HOH A 503 SITE 2 AC1 7 HOH A 555 ARG B 9 HOH D 658 SITE 1 AC2 8 ARG A 9 HOH A 535 HOH A 546 ARG B 6 SITE 2 AC2 8 THR B 7 GLY B 8 HOH B 601 HOH C 540 SITE 1 AC3 8 ARG C 13 ARG C 32 HOH C 591 HOH C 594 SITE 2 AC3 8 ARG D 6 THR D 7 GLY D 8 HOH D 593 SITE 1 AC4 7 ALA B 1 HOH B 528 HOH B 598 ARG C 9 SITE 2 AC4 7 CYS C 10 ARG C 28 HOH C 529 SITE 1 AC5 4 ARG C 6 THR C 7 GLY C 8 GOL C 204 SITE 1 AC6 2 ARG B 13 ARG B 32 SITE 1 AC7 4 ARG A 9 HOH A 558 ARG B 9 HOH B 635 SITE 1 AC8 7 TYR B 4 ARG B 6 LEU C 26 TYR C 27 SITE 2 AC8 7 ARG C 28 HOH C 540 HOH C 627 SITE 1 AC9 6 SER A 15 HOH A 538 ARG B 13 HOH B 519 SITE 2 AC9 6 HOH B 539 SER C 23 SITE 1 BC1 8 CYS A 3 CYS A 31 TYR C 4 CYS C 5 SITE 2 BC1 8 ILE C 22 GOL C 204 HOH C 580 HOH C 661 SITE 1 BC2 3 CYS C 5 SO4 C 105 GOL C 203 CRYST1 49.375 49.375 255.185 90.00 90.00 120.00 P 65 2 2 48 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 0.020253 0.011693 0.000000 0.00000 SCALE2 0.000000 0.023386 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003919 0.00000