HEADER ANTIMICROBIAL PROTEIN 24-JUL-15 5CUJ TITLE CRYSTAL STRUCTURE OF HUMAN DEFENSIN-5 Y27A MUTANT CRYSTAL FORM 2. COMPND MOL_ID: 1; COMPND 2 MOLECULE: DEFENSIN-5; COMPND 3 CHAIN: A, B, C, D, E, F; COMPND 4 SYNONYM: DEFENSIN,ALPHA 5,HD5(20-94); COMPND 5 ENGINEERED: YES; COMPND 6 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 PANETH CELLS DEFENSIN, HUMAN ALPHA-DEFENSIN, INTESTINAL DEFENSIN, KEYWDS 2 ANTIMICROBIAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR W.D.TOLBERT,N.GOHAIN,M.PAZGIER REVDAT 3 27-SEP-23 5CUJ 1 LINK REVDAT 2 13-JUN-18 5CUJ 1 JRNL REMARK REVDAT 1 27-JUL-16 5CUJ 0 JRNL AUTH D.XU,C.LIAO,B.ZHANG,W.D.TOLBERT,W.HE,Z.DAI,W.ZHANG,W.YUAN, JRNL AUTH 2 M.PAZGIER,J.LIU,J.YU,P.J.SANSONETTI,C.L.BEVINS,Y.SHAO,W.LU JRNL TITL HUMAN ENTERIC ALPHA-DEFENSIN 5 PROMOTES SHIGELLA INFECTION JRNL TITL 2 BY ENHANCING BACTERIAL ADHESION AND INVASION. JRNL REF IMMUNITY 2018 JRNL REFN ISSN 1097-4180 JRNL PMID 29858013 JRNL DOI 10.1016/J.IMMUNI.2018.04.014 REMARK 2 REMARK 2 RESOLUTION. 2.08 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0124 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) : 2.08 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.74 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.1 REMARK 3 NUMBER OF REFLECTIONS : 10420 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) : 0.237 REMARK 3 R VALUE (WORKING SET) : 0.235 REMARK 3 FREE R VALUE : 0.292 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 582 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) : 2.09 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.14 REMARK 3 REFLECTION IN BIN (WORKING SET) : 745 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 89.58 REMARK 3 BIN R VALUE (WORKING SET) : 0.3320 REMARK 3 BIN FREE R VALUE SET COUNT : 46 REMARK 3 BIN FREE R VALUE : 0.3840 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1428 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 38 REMARK 3 SOLVENT ATOMS : 67 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 54.20 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.29000 REMARK 3 B22 (A**2) : -0.54000 REMARK 3 B33 (A**2) : 0.57000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 2.11000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.282 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.234 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.229 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 16.135 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.948 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.905 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1467 ; 0.005 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 1425 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1968 ; 1.109 ; 2.004 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3237 ; 0.806 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 186 ; 5.972 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 54 ; 9.914 ;15.556 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 264 ;12.395 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 36 ;10.827 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 228 ; 0.054 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1602 ; 0.002 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 354 ; 0.001 ; 0.020 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): 762 ; 0.352 ; 3.540 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 761 ; 0.352 ; 3.539 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 942 ; 0.610 ; 5.305 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 943 ; 0.610 ; 5.306 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 705 ; 0.346 ; 3.752 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 706 ; 0.346 ; 3.760 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1027 ; 0.586 ; 5.611 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 5267 ; 2.901 ;33.394 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 5237 ; 2.670 ;33.327 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 : 6 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): 15.7336 6.3340 18.0953 REMARK 3 T TENSOR REMARK 3 T11: 0.1223 T22: 0.1406 REMARK 3 T33: 0.1027 T12: 0.0333 REMARK 3 T13: 0.0593 T23: -0.0180 REMARK 3 L TENSOR REMARK 3 L11: 8.2810 L22: 6.9712 REMARK 3 L33: 6.5047 L12: -1.1052 REMARK 3 L13: -0.2390 L23: -1.1814 REMARK 3 S TENSOR REMARK 3 S11: 0.1307 S12: -0.4134 S13: 0.1351 REMARK 3 S21: -0.4699 S22: -0.1893 S23: 0.1283 REMARK 3 S31: -0.3530 S32: 0.0146 S33: 0.0586 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): 24.2372 -5.2631 22.5568 REMARK 3 T TENSOR REMARK 3 T11: 0.0138 T22: 0.3035 REMARK 3 T33: 0.0854 T12: -0.0078 REMARK 3 T13: 0.0173 T23: 0.0076 REMARK 3 L TENSOR REMARK 3 L11: 2.8489 L22: 6.4137 REMARK 3 L33: 5.4077 L12: -0.2931 REMARK 3 L13: 0.5864 L23: 0.0333 REMARK 3 S TENSOR REMARK 3 S11: 0.0095 S12: -0.5117 S13: -0.1031 REMARK 3 S21: 0.1268 S22: 0.2262 S23: 0.0537 REMARK 3 S31: 0.1400 S32: 0.0929 S33: -0.2357 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): 14.0487 5.7984 3.3330 REMARK 3 T TENSOR REMARK 3 T11: 0.0708 T22: 0.0636 REMARK 3 T33: 0.1406 T12: 0.0505 REMARK 3 T13: 0.0827 T23: 0.0861 REMARK 3 L TENSOR REMARK 3 L11: 7.7026 L22: 6.5248 REMARK 3 L33: 5.6970 L12: -1.2488 REMARK 3 L13: 1.5160 L23: 0.9638 REMARK 3 S TENSOR REMARK 3 S11: -0.0257 S12: 0.3185 S13: 0.3508 REMARK 3 S21: 0.1742 S22: 0.0730 S23: 0.2123 REMARK 3 S31: -0.3516 S32: -0.0644 S33: -0.0473 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 1 D 32 REMARK 3 ORIGIN FOR THE GROUP (A): 14.7254 -18.5934 4.5779 REMARK 3 T TENSOR REMARK 3 T11: 0.0326 T22: 0.0588 REMARK 3 T33: 0.2120 T12: -0.0248 REMARK 3 T13: 0.0655 T23: -0.0882 REMARK 3 L TENSOR REMARK 3 L11: 4.1710 L22: 5.0180 REMARK 3 L33: 6.8517 L12: 1.8373 REMARK 3 L13: 1.0803 L23: -0.8178 REMARK 3 S TENSOR REMARK 3 S11: -0.1312 S12: 0.1003 S13: -0.1893 REMARK 3 S21: -0.1569 S22: -0.1436 S23: 0.2307 REMARK 3 S31: 0.2102 S32: -0.3179 S33: 0.2748 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : E 1 E 32 REMARK 3 ORIGIN FOR THE GROUP (A): 16.5684 -17.6860 19.5871 REMARK 3 T TENSOR REMARK 3 T11: 0.1214 T22: 0.1898 REMARK 3 T33: 0.1572 T12: -0.0338 REMARK 3 T13: 0.0526 T23: 0.0395 REMARK 3 L TENSOR REMARK 3 L11: 5.5550 L22: 5.1182 REMARK 3 L33: 6.7659 L12: 1.3266 REMARK 3 L13: -1.0195 L23: 1.5641 REMARK 3 S TENSOR REMARK 3 S11: -0.1130 S12: -0.3460 S13: -0.1423 REMARK 3 S21: 0.6020 S22: -0.1387 S23: -0.0141 REMARK 3 S31: 0.0302 S32: 0.2920 S33: 0.2516 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : F 1 F 32 REMARK 3 ORIGIN FOR THE GROUP (A): 6.3378 -6.8364 0.2984 REMARK 3 T TENSOR REMARK 3 T11: 0.0230 T22: 0.1991 REMARK 3 T33: 0.2428 T12: 0.0043 REMARK 3 T13: 0.0052 T23: -0.0147 REMARK 3 L TENSOR REMARK 3 L11: 5.1548 L22: 8.0210 REMARK 3 L33: 3.6677 L12: -0.2221 REMARK 3 L13: -0.0775 L23: -1.9774 REMARK 3 S TENSOR REMARK 3 S11: 0.2304 S12: 0.3634 S13: -0.2335 REMARK 3 S21: -0.1745 S22: 0.1440 S23: 0.1665 REMARK 3 S31: 0.1509 S32: -0.3256 S33: -0.3744 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 5CUJ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-JUL-15. REMARK 100 THE DEPOSITION ID IS D_1000212209. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-JUL-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL12-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : RH COATED MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : PSI PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 11584 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.080 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.4 REMARK 200 DATA REDUNDANCY : 3.300 REMARK 200 R MERGE (I) : 0.10900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.08 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.13 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.3 REMARK 200 DATA REDUNDANCY IN SHELL : 2.60 REMARK 200 R MERGE FOR SHELL (I) : 0.53800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.100 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: 1ZMP REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.70 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.40 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 3 M SODIUM CHLORIDE, 5% MPD, 0.1 M REMARK 280 CALCIUM CHLORIDE, AND 0.1 M IMIDAZOLE PH 6.5, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 294K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 36.87900 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 29.87900 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 36.87900 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 29.87900 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL 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: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7960 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 10630 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -154.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E, F 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 CL CL B 102 LIES ON A SPECIAL POSITION. REMARK 375 CL CL F 101 LIES ON A SPECIAL POSITION. REMARK 375 HOH C 215 LIES ON A SPECIAL POSITION. 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 C 214 O HOH C 214 2555 1.74 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 CYS F 20 -166.52 -125.94 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 101 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 21 OE2 REMARK 620 2 GLY A 24 O 94.0 REMARK 620 3 GLU E 21 OE2 105.5 157.0 REMARK 620 4 GLY E 24 O 85.0 78.6 91.0 REMARK 620 5 GLU F 21 OE2 107.8 80.4 104.3 156.1 REMARK 620 6 GLY F 24 O 162.0 73.2 85.0 80.1 83.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 101 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 21 OE2 REMARK 620 2 GLY B 24 O 90.5 REMARK 620 3 GLU C 21 OE2 95.9 163.2 REMARK 620 4 GLY C 24 O 88.5 74.1 90.5 REMARK 620 5 GLU D 21 OE2 102.5 89.1 104.6 160.1 REMARK 620 6 GLY D 24 O 158.8 73.0 96.8 74.4 90.7 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA 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 CA B 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL B 102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL B 103 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL C 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MPD C 103 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL D 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL D 102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MPD D 103 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL E 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL E 102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL F 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MPD F 103 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1ZMP RELATED DB: PDB REMARK 900 1ZMP IS THE NATIVE STRUCTURE WITHOUT THE MUTATION. REMARK 900 RELATED ID: 5CUI RELATED DB: PDB REMARK 900 RELATED ID: 5CUM RELATED DB: PDB DBREF 5CUJ A 1 32 UNP Q01523 DEF5_HUMAN 63 94 DBREF 5CUJ B 1 32 UNP Q01523 DEF5_HUMAN 63 94 DBREF 5CUJ C 1 32 UNP Q01523 DEF5_HUMAN 63 94 DBREF 5CUJ D 1 32 UNP Q01523 DEF5_HUMAN 63 94 DBREF 5CUJ E 1 32 UNP Q01523 DEF5_HUMAN 63 94 DBREF 5CUJ F 1 32 UNP Q01523 DEF5_HUMAN 63 94 SEQADV 5CUJ ALA A 27 UNP Q01523 TYR 89 ENGINEERED MUTATION SEQADV 5CUJ ALA B 27 UNP Q01523 TYR 89 ENGINEERED MUTATION SEQADV 5CUJ ALA C 27 UNP Q01523 TYR 89 ENGINEERED MUTATION SEQADV 5CUJ ALA D 27 UNP Q01523 TYR 89 ENGINEERED MUTATION SEQADV 5CUJ ALA E 27 UNP Q01523 TYR 89 ENGINEERED MUTATION SEQADV 5CUJ ALA F 27 UNP Q01523 TYR 89 ENGINEERED MUTATION 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 ALA 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 ALA 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 ALA 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 ALA ARG LEU CYS CYS ARG SEQRES 1 E 32 ALA THR CYS TYR CYS ARG THR GLY ARG CYS ALA THR ARG SEQRES 2 E 32 GLU SER LEU SER GLY VAL CYS GLU ILE SER GLY ARG LEU SEQRES 3 E 32 ALA ARG LEU CYS CYS ARG SEQRES 1 F 32 ALA THR CYS TYR CYS ARG THR GLY ARG CYS ALA THR ARG SEQRES 2 F 32 GLU SER LEU SER GLY VAL CYS GLU ILE SER GLY ARG LEU SEQRES 3 F 32 ALA ARG LEU CYS CYS ARG HET CA A 101 1 HET CL A 102 1 HET CL A 103 1 HET CA B 101 1 HET CL B 102 1 HET CL B 103 1 HET CL C 101 1 HET CL C 102 1 HET MPD C 103 8 HET CL D 101 1 HET CL D 102 1 HET MPD D 103 8 HET CL E 101 1 HET CL E 102 1 HET CL F 101 1 HET CL F 102 1 HET MPD F 103 8 HETNAM CA CALCIUM ION HETNAM CL CHLORIDE ION HETNAM MPD (4S)-2-METHYL-2,4-PENTANEDIOL FORMUL 7 CA 2(CA 2+) FORMUL 8 CL 12(CL 1-) FORMUL 15 MPD 3(C6 H14 O2) FORMUL 24 HOH *67(H2 O) SHEET 1 AA1 6 THR A 2 ARG A 6 0 SHEET 2 AA1 6 ARG A 25 ARG A 32 -1 O ARG A 28 N ARG A 6 SHEET 3 AA1 6 SER A 15 ILE A 22 -1 N SER A 17 O LEU A 29 SHEET 4 AA1 6 SER B 15 ILE B 22 -1 O VAL B 19 N VAL A 19 SHEET 5 AA1 6 ARG B 25 CYS B 31 -1 O LEU B 29 N SER B 17 SHEET 6 AA1 6 THR B 2 ARG B 6 -1 N ARG B 6 O ARG B 28 SHEET 1 AA2 3 CYS C 3 ARG C 6 0 SHEET 2 AA2 3 ARG C 25 CYS C 31 -1 O CYS C 30 N TYR C 4 SHEET 3 AA2 3 SER C 15 ILE C 22 -1 N SER C 17 O LEU C 29 SHEET 1 AA3 6 THR D 2 ARG D 6 0 SHEET 2 AA3 6 ARG D 25 ARG D 32 -1 O CYS D 30 N TYR D 4 SHEET 3 AA3 6 SER D 15 ILE D 22 -1 N SER D 17 O LEU D 29 SHEET 4 AA3 6 SER E 15 ILE E 22 -1 O VAL E 19 N VAL D 19 SHEET 5 AA3 6 ARG E 25 CYS E 31 -1 O LEU E 29 N SER E 17 SHEET 6 AA3 6 THR E 2 ARG E 6 -1 N ARG E 6 O ARG E 28 SHEET 1 AA4 3 CYS F 3 ARG F 6 0 SHEET 2 AA4 3 ARG F 25 CYS F 31 -1 O ARG F 28 N ARG F 6 SHEET 3 AA4 3 SER F 15 ILE F 22 -1 N SER F 17 O LEU F 29 SSBOND 1 CYS A 3 CYS A 31 1555 1555 2.03 SSBOND 2 CYS A 5 CYS A 20 1555 1555 2.04 SSBOND 3 CYS A 10 CYS A 30 1555 1555 2.04 SSBOND 4 CYS B 3 CYS B 31 1555 1555 2.02 SSBOND 5 CYS B 5 CYS B 20 1555 1555 2.04 SSBOND 6 CYS B 10 CYS B 30 1555 1555 2.04 SSBOND 7 CYS C 3 CYS C 31 1555 1555 2.03 SSBOND 8 CYS C 5 CYS C 20 1555 1555 2.03 SSBOND 9 CYS C 10 CYS C 30 1555 1555 2.03 SSBOND 10 CYS D 3 CYS D 31 1555 1555 2.03 SSBOND 11 CYS D 5 CYS D 20 1555 1555 2.04 SSBOND 12 CYS D 10 CYS D 30 1555 1555 2.04 SSBOND 13 CYS E 3 CYS E 31 1555 1555 2.03 SSBOND 14 CYS E 5 CYS E 20 1555 1555 2.04 SSBOND 15 CYS E 10 CYS E 30 1555 1555 2.03 SSBOND 16 CYS F 3 CYS F 31 1555 1555 2.03 SSBOND 17 CYS F 5 CYS F 20 1555 1555 2.03 SSBOND 18 CYS F 10 CYS F 30 1555 1555 2.04 LINK OE2 GLU A 21 CA CA A 101 1555 1555 2.40 LINK O GLY A 24 CA CA A 101 1555 1555 2.53 LINK CA CA A 101 OE2 GLU E 21 1555 1555 2.37 LINK CA CA A 101 O GLY E 24 1555 1555 2.48 LINK CA CA A 101 OE2 GLU F 21 1555 1555 2.37 LINK CA CA A 101 O GLY F 24 1555 1555 2.50 LINK OE2 GLU B 21 CA CA B 101 1555 1555 2.37 LINK O GLY B 24 CA CA B 101 1555 1555 2.49 LINK CA CA B 101 OE2 GLU C 21 1555 1555 2.35 LINK CA CA B 101 O GLY C 24 1555 1555 2.54 LINK CA CA B 101 OE2 GLU D 21 1555 1555 2.35 LINK CA CA B 101 O GLY D 24 1555 1555 2.44 SITE 1 AC1 6 GLU A 21 GLY A 24 GLU E 21 GLY E 24 SITE 2 AC1 6 GLU F 21 GLY F 24 SITE 1 AC2 4 ARG A 6 THR A 7 ARG E 6 THR E 7 SITE 1 AC3 6 GLU B 21 GLY B 24 GLU C 21 GLY C 24 SITE 2 AC3 6 GLU D 21 GLY D 24 SITE 1 AC4 3 ARG B 6 THR B 7 GLY B 8 SITE 1 AC5 1 CL E 102 SITE 1 AC6 6 ARG C 6 THR C 7 GLY C 8 ARG D 6 SITE 2 AC6 6 THR D 7 GLY D 8 SITE 1 AC7 2 ALA C 1 SER C 17 SITE 1 AC8 4 ARG C 6 THR C 7 ARG D 6 THR D 7 SITE 1 AC9 2 ARG D 28 LEU F 16 SITE 1 AD1 2 ARG B 32 ARG D 32 SITE 1 AD2 4 ARG A 6 THR A 7 ARG E 6 THR E 7 SITE 1 AD3 1 CL B 103 SITE 1 AD4 2 ARG F 6 THR F 7 SITE 1 AD5 4 ALA E 1 ARG E 32 ALA F 1 ARG F 32 CRYST1 73.758 59.758 47.284 90.00 105.54 90.00 C 1 2 1 24 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 0.013558 0.000000 0.003769 0.00000 SCALE2 0.000000 0.016734 0.000000 0.00000 SCALE3 0.000000 0.000000 0.021951 0.00000