HEADER HYDROLASE/DNA 08-OCT-15 5E5O TITLE I-SMAMI BOUND TO UNCLEAVED DNA TARGET IN THE PRESENCE OF CALCIUM IONS COMPND MOL_ID: 1; COMPND 2 MOLECULE: I-SMAMI LAGLIDADG ENDONUCLEASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 114-415; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: DNA (25-MER); COMPND 8 CHAIN: B; COMPND 9 ENGINEERED: YES; COMPND 10 MOL_ID: 3; COMPND 11 MOLECULE: TOP STRAND DNA (25-MER); COMPND 12 CHAIN: C; COMPND 13 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SORDARIA MACROSPORA (STRAIN ATCC MYA-333 / DSM SOURCE 3 997 / K(L3346) / K-HELL); SOURCE 4 ORGANISM_TAXID: 771870; SOURCE 5 STRAIN: ATCC MYA-333 / DSM 997 / K(L3346) / K-HELL; SOURCE 6 GENE: SMAC_12671; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)RIL+; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET21D(+); SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 14 ORGANISM_TAXID: 32630; SOURCE 15 MOL_ID: 3; SOURCE 16 SYNTHETIC: YES; SOURCE 17 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 18 ORGANISM_TAXID: 32630 KEYWDS LAGLIDADG, I-SMAMI, COMPLEX, UNCLEAVED, HYDROLASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR B.W.SHEN REVDAT 5 27-SEP-23 5E5O 1 LINK REVDAT 4 25-DEC-19 5E5O 1 REMARK REVDAT 3 13-SEP-17 5E5O 1 JRNL REMARK REVDAT 2 10-FEB-16 5E5O 1 JRNL REVDAT 1 13-JAN-16 5E5O 0 JRNL AUTH B.W.SHEN,A.LAMBERT,B.C.WALKER,B.L.STODDARD,B.K.KAISER JRNL TITL THE STRUCTURAL BASIS OF ASYMMETRY IN DNA BINDING AND JRNL TITL 2 CLEAVAGE AS EXHIBITED BY THE I-SMAMI LAGLIDADG MEGANUCLEASE. JRNL REF J.MOL.BIOL. V. 428 206 2016 JRNL REFN ESSN 1089-8638 JRNL PMID 26705195 JRNL DOI 10.1016/J.JMB.2015.12.005 REMARK 2 REMARK 2 RESOLUTION. 2.36 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) : 2.36 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 27.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 1.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 3 NUMBER OF REFLECTIONS : 16388 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) : 0.192 REMARK 3 R VALUE (WORKING SET) : 0.188 REMARK 3 FREE R VALUE : 0.274 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 827 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.36 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.42 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1054 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 89.24 REMARK 3 BIN R VALUE (WORKING SET) : 0.2940 REMARK 3 BIN FREE R VALUE SET COUNT : 57 REMARK 3 BIN FREE R VALUE : 0.3820 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2346 REMARK 3 NUCLEIC ACID ATOMS : 1019 REMARK 3 HETEROGEN ATOMS : 31 REMARK 3 SOLVENT ATOMS : 80 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 25.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 41.65 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.96000 REMARK 3 B22 (A**2) : -0.07000 REMARK 3 B33 (A**2) : 1.03000 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): 0.537 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.303 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.241 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 23.483 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.958 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.911 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3567 ; 0.017 ; 0.017 REMARK 3 BOND LENGTHS OTHERS (A): 2969 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5009 ; 2.086 ; 1.694 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6896 ; 1.323 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 295 ; 7.506 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 97 ;38.892 ;24.330 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 455 ;18.157 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 8 ;19.040 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 505 ; 0.127 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3242 ; 0.012 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 789 ; 0.002 ; 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): 1177 ; 1.503 ; 2.256 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1176 ; 1.496 ; 2.254 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1470 ; 2.500 ; 3.377 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1471 ; 2.500 ; 3.381 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2390 ; 1.514 ; 2.415 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2390 ; 1.514 ; 2.415 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3539 ; 2.444 ; 3.577 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 4311 ; 4.030 ;19.772 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 4312 ; 4.030 ;19.776 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 7 A 300 REMARK 3 ORIGIN FOR THE GROUP (A): -5.9704 0.9794 -0.9113 REMARK 3 T TENSOR REMARK 3 T11: 0.1394 T22: 0.0545 REMARK 3 T33: 0.0279 T12: 0.0295 REMARK 3 T13: 0.0010 T23: -0.0065 REMARK 3 L TENSOR REMARK 3 L11: 1.0057 L22: 2.7478 REMARK 3 L33: 2.2309 L12: 0.5860 REMARK 3 L13: -0.2551 L23: -1.9583 REMARK 3 S TENSOR REMARK 3 S11: -0.0091 S12: -0.0255 S13: -0.1411 REMARK 3 S21: -0.0337 S22: -0.0158 S23: -0.0364 REMARK 3 S31: 0.1370 S32: 0.1456 S33: 0.0249 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 25 REMARK 3 ORIGIN FOR THE GROUP (A): 4.1170 0.7107 -0.9076 REMARK 3 T TENSOR REMARK 3 T11: 0.2684 T22: 0.2319 REMARK 3 T33: 0.2224 T12: 0.0264 REMARK 3 T13: -0.0279 T23: 0.0744 REMARK 3 L TENSOR REMARK 3 L11: 0.1466 L22: 3.2720 REMARK 3 L33: 4.2828 L12: -0.0985 REMARK 3 L13: 0.3100 L23: -3.3812 REMARK 3 S TENSOR REMARK 3 S11: -0.0356 S12: -0.1048 S13: -0.0729 REMARK 3 S21: 0.1209 S22: -0.1408 S23: -0.1801 REMARK 3 S31: -0.0645 S32: 0.2214 S33: 0.1764 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 25 REMARK 3 ORIGIN FOR THE GROUP (A): 4.0010 -0.1984 -1.2606 REMARK 3 T TENSOR REMARK 3 T11: 0.2837 T22: 0.1706 REMARK 3 T33: 0.1654 T12: 0.0601 REMARK 3 T13: 0.0149 T23: 0.0508 REMARK 3 L TENSOR REMARK 3 L11: 0.4028 L22: 1.9759 REMARK 3 L33: 5.2478 L12: 0.1596 REMARK 3 L13: -0.1868 L23: -2.9149 REMARK 3 S TENSOR REMARK 3 S11: 0.0070 S12: -0.0393 S13: -0.0006 REMARK 3 S21: 0.0573 S22: -0.0817 S23: -0.1379 REMARK 3 S31: -0.1464 S32: 0.2685 S33: 0.0747 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 : A 401 A 403 REMARK 3 ORIGIN FOR THE GROUP (A): -2.6803 -2.3929 -2.0330 REMARK 3 T TENSOR REMARK 3 T11: 0.2286 T22: 0.2640 REMARK 3 T33: 0.2364 T12: 0.0097 REMARK 3 T13: 0.0572 T23: -0.0208 REMARK 3 L TENSOR REMARK 3 L11: 4.9390 L22: 17.2853 REMARK 3 L33: 8.1331 L12: -7.4954 REMARK 3 L13: 4.8498 L23: -11.8234 REMARK 3 S TENSOR REMARK 3 S11: 0.1015 S12: 0.0168 S13: -0.2527 REMARK 3 S21: -0.0491 S22: -0.2039 S23: -0.0713 REMARK 3 S31: 0.0238 S32: 0.1514 S33: 0.1024 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 3 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 501 A 545 REMARK 3 RESIDUE RANGE : B 201 B 220 REMARK 3 RESIDUE RANGE : C 201 C 215 REMARK 3 ORIGIN FOR THE GROUP (A): -4.5259 4.7081 -4.5516 REMARK 3 T TENSOR REMARK 3 T11: 0.2143 T22: 0.1292 REMARK 3 T33: 0.0160 T12: 0.0230 REMARK 3 T13: 0.0011 T23: -0.0001 REMARK 3 L TENSOR REMARK 3 L11: 0.3200 L22: 0.6985 REMARK 3 L33: 0.3975 L12: 0.0154 REMARK 3 L13: 0.0410 L23: -0.3226 REMARK 3 S TENSOR REMARK 3 S11: 0.0051 S12: 0.0149 S13: -0.0315 REMARK 3 S21: -0.1189 S22: 0.0065 S23: 0.0735 REMARK 3 S31: 0.0939 S32: -0.0037 S33: -0.0116 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 NUMBER OF COMPONENTS GROUP : 3 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 404 A 405 REMARK 3 RESIDUE RANGE : B 101 B 102 REMARK 3 RESIDUE RANGE : C 101 C 101 REMARK 3 ORIGIN FOR THE GROUP (A): 0.9975 10.4236 -16.6212 REMARK 3 T TENSOR REMARK 3 T11: 0.4900 T22: 0.5202 REMARK 3 T33: 0.1450 T12: 0.2241 REMARK 3 T13: 0.1496 T23: 0.0532 REMARK 3 L TENSOR REMARK 3 L11: 1.0991 L22: 2.3662 REMARK 3 L33: 0.0244 L12: 1.6108 REMARK 3 L13: 0.1474 L23: 0.2170 REMARK 3 S TENSOR REMARK 3 S11: -0.0569 S12: 0.0622 S13: -0.1223 REMARK 3 S21: -0.0488 S22: 0.0752 S23: -0.1750 REMARK 3 S31: -0.0307 S32: -0.0395 S33: -0.0182 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 5E5O COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-OCT-15. REMARK 100 THE DEPOSITION ID IS D_1000214398. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-SEP-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 HF REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RIGAKU SATURN 70 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17265 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.360 REMARK 200 RESOLUTION RANGE LOW (A) : 27.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 6.900 REMARK 200 R MERGE (I) : 0.12200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.36 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.44 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.3 REMARK 200 DATA REDUNDANCY IN SHELL : 5.60 REMARK 200 R MERGE FOR SHELL (I) : 0.80900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.000 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: 4LOX REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.23 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.06 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG MME550, HEPES, PH 7.5, VAPOR REMARK 280 DIFFUSION, HANGING DROP, 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 30.66350 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 48.87150 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 33.99650 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 48.87150 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 30.66350 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 33.99650 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 10020 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18310 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -65.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, 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 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 SER A 1 REMARK 465 LYS A 2 REMARK 465 GLY A 3 REMARK 465 GLU A 4 REMARK 465 ASN A 5 REMARK 465 SER A 6 REMARK 465 ARG A 301 REMARK 465 LEU A 302 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 O3' DG C 25 O HOH C 201 2.11 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 ASP A 95 CB - CG - OD1 ANGL. DEV. = 6.9 DEGREES REMARK 500 ASP A 244 CB - CG - OD1 ANGL. DEV. = 7.8 DEGREES REMARK 500 DC B 5 O5' - P - OP1 ANGL. DEV. = 11.0 DEGREES REMARK 500 DC B 5 O5' - P - OP2 ANGL. DEV. = -9.6 DEGREES REMARK 500 DA B 13 O5' - P - OP1 ANGL. DEV. = -5.6 DEGREES REMARK 500 DG B 16 O5' - P - OP1 ANGL. DEV. = -7.0 DEGREES REMARK 500 DG B 16 C1' - O4' - C4' ANGL. DEV. = -7.0 DEGREES REMARK 500 DT C 15 O5' - P - OP2 ANGL. DEV. = -11.5 DEGREES REMARK 500 DT C 15 P - O5' - C5' ANGL. DEV. = 12.4 DEGREES REMARK 500 DT C 22 O5' - P - OP2 ANGL. DEV. = -5.5 DEGREES REMARK 500 DC C 24 C1' - O4' - C4' ANGL. DEV. = -7.6 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 ASN A 30 114.33 -163.77 REMARK 500 PHE A 62 33.48 -89.86 REMARK 500 SER A 71 -65.70 -104.82 REMARK 500 SER A 74 28.27 -145.70 REMARK 500 LYS A 140 23.56 40.35 REMARK 500 ILE A 161 74.13 -119.53 REMARK 500 ASN A 163 68.62 39.17 REMARK 500 ASP A 210 32.25 -89.87 REMARK 500 LYS A 248 -50.44 -125.55 REMARK 500 LYS A 299 -98.80 -130.22 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 402 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ALA A 19 O REMARK 620 2 GLU A 20 OE2 76.0 REMARK 620 3 ASP A 179 OD1 103.6 59.7 REMARK 620 4 ASP A 179 OD2 83.5 95.6 48.1 REMARK 620 5 DT B 15 OP1 82.0 84.9 140.5 164.9 REMARK 620 6 HOH B 201 O 130.0 62.7 79.5 125.4 68.1 REMARK 620 7 DT C 15 OP1 137.3 146.3 98.8 85.2 102.8 89.4 REMARK 620 8 HOH C 203 O 69.2 145.0 131.8 83.9 87.1 142.7 68.7 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 401 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 20 OE2 REMARK 620 2 GLY A 178 O 80.5 REMARK 620 3 ASP A 179 OD1 70.2 78.3 REMARK 620 4 HOH B 201 O 68.9 147.4 80.9 REMARK 620 5 HOH B 203 O 100.8 68.7 146.9 126.8 REMARK 620 6 DC C 16 OP1 154.6 75.9 95.7 131.3 79.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 403 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 106 OD1 REMARK 620 2 ASP A 106 OD2 46.0 REMARK 620 3 ILE A 138 O 68.5 93.5 REMARK 620 4 HOH A 503 O 117.0 76.4 151.3 REMARK 620 5 HOH A 526 O 109.2 83.5 70.2 81.9 REMARK 620 6 HOH A 541 O 103.8 146.2 85.8 117.5 127.2 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 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 406 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO C 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO C 102 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4LOX RELATED DB: PDB REMARK 900 4LOX IS THE SAME PROTEIN WITH MAGNESIUM. REMARK 900 RELATED ID: 5E5P RELATED DB: PDB REMARK 900 RELATED ID: 5E5S RELATED DB: PDB REMARK 900 RELATED ID: 5E63 RELATED DB: PDB REMARK 900 RELATED ID: 5E67 RELATED DB: PDB DBREF 5E5O A 1 302 UNP F7WD42 F7WD42_SORMK 114 415 DBREF 5E5O B 1 25 PDB 5E5O 5E5O 1 25 DBREF 5E5O C 1 25 PDB 5E5O 5E5O 1 25 SEQADV 5E5O ASN A 165 UNP F7WD42 LEU 278 CONFLICT SEQRES 1 A 302 SER LYS GLY GLU ASN SER LYS LEU ASN PRO TRP ALA VAL SEQRES 2 A 302 VAL GLY PHE ILE ASP ALA GLU GLY SER PHE MET VAL ARG SEQRES 3 A 302 VAL ARG LYS ASN SER LYS TYR LYS THR GLY TRP LEU VAL SEQRES 4 A 302 VAL ALA ILE PHE SER VAL THR VAL ASP LYS LYS ASP LEU SEQRES 5 A 302 PHE LEU LEU GLU SER LEU LYS THR PHE PHE GLY GLY LEU SEQRES 6 A 302 GLY SER ILE LYS LYS SER GLY ASN SER THR PHE SER TYR SEQRES 7 A 302 ARG ILE GLU SER SER GLU GLN LEU THR LYS ILE ILE LEU SEQRES 8 A 302 PRO PHE PHE ASP LYS TYR SER LEU ILE THR GLU LYS LEU SEQRES 9 A 302 GLY ASP TYR LEU LEU PHE LYS LYS VAL LEU GLU LEU MET SEQRES 10 A 302 GLY THR LYS GLU HIS LEU THR GLN ARG GLY LEU GLU LYS SEQRES 11 A 302 ILE VAL SER LEU LYS ALA SER ILE ASN LYS GLY LEU SER SEQRES 12 A 302 GLU GLU LEU GLN ALA ALA PHE PRO GLN CYS VAL PRO THR SEQRES 13 A 302 PRO ARG PRO GLU ILE ASN ASN LYS ASN ILE PRO ASP PRO SEQRES 14 A 302 PHE TRP LEU ALA GLY PHE VAL SER GLY ASP GLY SER PHE SEQRES 15 A 302 LYS SER ILE LEU LYS LYS SER GLU SER ILE LYS VAL GLY SEQRES 16 A 302 PHE GLN SER ILE LEU VAL PHE GLN ILE THR GLN HIS ALA SEQRES 17 A 302 ARG ASP VAL LYS LEU MET GLU SER LEU ILE SER TYR LEU SEQRES 18 A 302 GLY CYS GLY PHE ILE GLU LYS ASP SER ARG GLY PRO TRP SEQRES 19 A 302 LEU TYR TYR THR VAL THR ASN PHE SER ASP ILE GLN GLY SEQRES 20 A 302 LYS ILE ILE PRO PHE PHE HIS GLN TYR LYS ILE ILE GLY SEQRES 21 A 302 SER LYS TYR GLY ASP TYR MET ASP TRP CYS LYS ILE ALA SEQRES 22 A 302 LEU ILE MET GLN ASN LYS ASN HIS LEU THR PRO GLU GLY SEQRES 23 A 302 LEU ASN GLU ILE ARG ALA LEU LYS GLY GLY MET ASN LYS SEQRES 24 A 302 GLY ARG LEU SEQRES 1 B 25 DC DG DT DA DC DA DC DC DT DG DA DT DA SEQRES 2 B 25 DA DT DG DG DA DG DG DA DT DA DC DC SEQRES 1 C 25 DG DG DT DA DT DC DC DT DC DC DA DT DT SEQRES 2 C 25 DA DT DC DA DG DG DT DG DT DA DC DG HET CA A 401 1 HET CA A 402 1 HET CA A 403 1 HET EDO A 404 4 HET EDO A 405 4 HET EDO A 406 4 HET EDO B 101 4 HET EDO B 102 4 HET EDO C 101 4 HET EDO C 102 4 HETNAM CA CALCIUM ION HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 4 CA 3(CA 2+) FORMUL 7 EDO 7(C2 H6 O2) FORMUL 14 HOH *80(H2 O) HELIX 1 AA1 ASN A 9 GLY A 21 1 13 HELIX 2 AA2 ASP A 51 PHE A 62 1 12 HELIX 3 AA3 SER A 82 TYR A 97 1 16 HELIX 4 AA4 GLU A 102 THR A 119 1 18 HELIX 5 AA5 LYS A 120 LEU A 123 5 4 HELIX 6 AA6 THR A 124 SER A 137 1 14 HELIX 7 AA7 SER A 143 PHE A 150 1 8 HELIX 8 AA8 ASP A 168 ASP A 179 1 12 HELIX 9 AA9 ASP A 210 GLY A 222 1 13 HELIX 10 AB1 ASN A 241 LYS A 248 1 8 HELIX 11 AB2 LYS A 248 TYR A 256 1 9 HELIX 12 AB3 SER A 261 ASN A 278 1 18 HELIX 13 AB4 LYS A 279 LEU A 282 5 4 HELIX 14 AB5 THR A 283 GLY A 296 1 14 SHEET 1 AA1 4 SER A 22 LYS A 29 0 SHEET 2 AA1 4 TRP A 37 ASP A 48 -1 O ILE A 42 N MET A 24 SHEET 3 AA1 4 THR A 75 ILE A 80 -1 O TYR A 78 N VAL A 45 SHEET 4 AA1 4 SER A 67 LYS A 70 -1 N LYS A 69 O SER A 77 SHEET 1 AA2 4 SER A 181 LYS A 188 0 SHEET 2 AA2 4 PHE A 196 HIS A 207 -1 O ILE A 199 N ILE A 185 SHEET 3 AA2 4 TRP A 234 VAL A 239 -1 O LEU A 235 N GLN A 206 SHEET 4 AA2 4 PHE A 225 LYS A 228 -1 N GLU A 227 O TYR A 236 LINK O ALA A 19 CA CA A 402 1555 1555 2.29 LINK OE2 GLU A 20 CA CA A 401 1555 1555 2.36 LINK OE2 GLU A 20 CA CA A 402 1555 1555 2.91 LINK OD1 ASP A 106 CA CA A 403 1555 1555 2.94 LINK OD2 ASP A 106 CA CA A 403 1555 1555 2.67 LINK O ILE A 138 CA CA A 403 1555 1555 2.49 LINK O GLY A 178 CA CA A 401 1555 1555 2.38 LINK OD1 ASP A 179 CA CA A 401 1555 1555 2.48 LINK OD1 ASP A 179 CA CA A 402 1555 1555 2.66 LINK OD2 ASP A 179 CA CA A 402 1555 1555 2.56 LINK CA CA A 401 O HOH B 201 1555 1555 2.74 LINK CA CA A 401 O HOH B 203 1555 1555 2.21 LINK CA CA A 401 OP1 DC C 16 1555 1555 2.26 LINK CA CA A 402 OP1 DT B 15 1555 1555 2.34 LINK CA CA A 402 O HOH B 201 1555 1555 2.64 LINK CA CA A 402 OP1 DT C 15 1555 1555 2.23 LINK CA CA A 402 O HOH C 203 1555 1555 2.25 LINK CA CA A 403 O HOH A 503 1555 1555 2.25 LINK CA CA A 403 O HOH A 526 1555 1555 2.55 LINK CA CA A 403 O HOH A 541 1555 1555 2.76 SITE 1 AC1 7 GLU A 20 GLY A 178 ASP A 179 HOH B 201 SITE 2 AC1 7 HOH B 203 DT C 15 DC C 16 SITE 1 AC2 7 ALA A 19 GLU A 20 ASP A 179 DT B 15 SITE 2 AC2 7 HOH B 201 DT C 15 HOH C 203 SITE 1 AC3 6 ASP A 106 ILE A 138 ARG A 209 HOH A 503 SITE 2 AC3 6 HOH A 526 HOH A 541 SITE 1 AC4 3 ARG A 231 DA B 11 DT C 15 SITE 1 AC5 3 GLN A 246 CYS A 270 GLN A 277 SITE 1 AC6 5 PRO A 92 PHE A 93 TYR A 97 ASN A 288 SITE 2 AC6 5 HOH A 502 SITE 1 AC7 6 DA B 13 DA B 14 DT B 15 DT C 13 SITE 2 AC7 6 DA C 14 DT C 15 SITE 1 AC8 3 DA B 4 DA C 23 DC C 24 SITE 1 AC9 4 DA B 6 DC B 7 DG C 21 DT C 22 SITE 1 AD1 4 HIS A 207 ARG A 209 DC C 24 DG C 25 CRYST1 61.327 67.993 97.743 90.00 90.00 90.00 P 21 21 21 4 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 0.016306 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014707 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010231 0.00000