HEADER OXYGEN BINDING 12-NOV-20 7DGM TITLE THE DIMERIC STRUCTURE OF K79H/G80A/H81A MYOGLOBIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: MYOGLOBIN; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: EQUUS CABALLUS; SOURCE 3 ORGANISM_COMMON: HORSE; SOURCE 4 ORGANISM_TAXID: 9796; SOURCE 5 GENE: MB; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS OXYGEN STORAGE, OXYGEN BINDING EXPDTA X-RAY DIFFRACTION AUTHOR S.NAGAO,A.IDOMOTO,N.SHIBATA,Y.HIGUCHI,S.HIROTA REVDAT 3 29-NOV-23 7DGM 1 REMARK REVDAT 2 03-MAR-21 7DGM 1 JRNL REVDAT 1 17-FEB-21 7DGM 0 JRNL AUTH S.NAGAO,A.IDOMOTO,N.SHIBATA,Y.HIGUCHI,S.HIROTA JRNL TITL RATIONAL DESIGN OF METAL-BINDING SITES IN DOMAIN-SWAPPED JRNL TITL 2 MYOGLOBIN DIMERS. JRNL REF J.INORG.BIOCHEM. V. 217 11374 2021 JRNL REFN ISSN 0162-0134 JRNL PMID 33578251 JRNL DOI 10.1016/J.JINORGBIO.2021.111374 REMARK 2 REMARK 2 RESOLUTION. 1.62 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0267 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) : 1.62 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.15 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 3 NUMBER OF REFLECTIONS : 36078 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) : 0.203 REMARK 3 R VALUE (WORKING SET) : 0.202 REMARK 3 FREE R VALUE : 0.223 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1891 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) : 1.62 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.67 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2475 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 93.01 REMARK 3 BIN R VALUE (WORKING SET) : 0.2420 REMARK 3 BIN FREE R VALUE SET COUNT : 132 REMARK 3 BIN FREE R VALUE : 0.2750 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2392 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 88 REMARK 3 SOLVENT ATOMS : 175 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.41 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.22000 REMARK 3 B22 (A**2) : -1.11000 REMARK 3 B33 (A**2) : -0.11000 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): 0.108 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.100 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.068 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.430 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.960 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.952 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2550 ; 0.011 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 2424 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3454 ; 1.558 ; 1.695 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5604 ; 1.495 ; 1.620 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 304 ; 5.102 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 110 ;38.885 ;24.545 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 450 ;14.387 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 4 ; 4.909 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 310 ; 0.078 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2866 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 544 ; 0.005 ; 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): 1222 ; 0.699 ; 1.309 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1220 ; 0.686 ; 1.307 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1524 ; 1.107 ; 1.961 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1524 ; 1.101 ; 1.961 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1328 ; 1.108 ; 1.487 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1326 ; 1.108 ; 1.485 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1930 ; 1.675 ; 2.182 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 2989 ; 3.613 ;16.370 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 2942 ; 3.576 ;15.927 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 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 1 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 1 153 B 1 153 4634 0.11 0.05 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 12 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 16 REMARK 3 ORIGIN FOR THE GROUP (A): 1.0750 -10.0829 6.2729 REMARK 3 T TENSOR REMARK 3 T11: 0.1564 T22: 0.1784 REMARK 3 T33: 0.1535 T12: -0.1422 REMARK 3 T13: 0.1019 T23: -0.1194 REMARK 3 L TENSOR REMARK 3 L11: 5.7920 L22: 13.9680 REMARK 3 L33: 10.8662 L12: -5.5286 REMARK 3 L13: 4.1975 L23: -8.8691 REMARK 3 S TENSOR REMARK 3 S11: 0.3927 S12: -0.7327 S13: 0.3310 REMARK 3 S21: 0.6432 S22: -0.0603 S23: 0.5478 REMARK 3 S31: -0.1741 S32: -0.4098 S33: -0.3324 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 : A 17 A 46 REMARK 3 ORIGIN FOR THE GROUP (A): 7.3902 -0.5074 -13.3462 REMARK 3 T TENSOR REMARK 3 T11: 0.1157 T22: 0.0778 REMARK 3 T33: 0.1060 T12: -0.0096 REMARK 3 T13: -0.0747 T23: 0.0267 REMARK 3 L TENSOR REMARK 3 L11: 2.8441 L22: 3.4250 REMARK 3 L33: 3.5501 L12: 1.3313 REMARK 3 L13: -0.8268 L23: -0.5641 REMARK 3 S TENSOR REMARK 3 S11: -0.3442 S12: 0.2911 S13: 0.2731 REMARK 3 S21: -0.2109 S22: 0.2977 S23: 0.4413 REMARK 3 S31: -0.1683 S32: -0.3593 S33: 0.0464 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 : A 47 A 82 REMARK 3 ORIGIN FOR THE GROUP (A): 2.4253 -3.7792 -12.9439 REMARK 3 T TENSOR REMARK 3 T11: 0.1418 T22: 0.1229 REMARK 3 T33: 0.1457 T12: -0.0310 REMARK 3 T13: -0.0746 T23: 0.0175 REMARK 3 L TENSOR REMARK 3 L11: 0.4457 L22: 7.4609 REMARK 3 L33: 6.6636 L12: 1.3597 REMARK 3 L13: -0.4502 L23: -4.8927 REMARK 3 S TENSOR REMARK 3 S11: -0.1455 S12: 0.1222 S13: 0.0850 REMARK 3 S21: -0.2155 S22: -0.0936 S23: 0.0440 REMARK 3 S31: -0.4868 S32: 0.1827 S33: 0.2392 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 83 A 91 REMARK 3 ORIGIN FOR THE GROUP (A): 1.6933 -25.8408 9.9456 REMARK 3 T TENSOR REMARK 3 T11: 0.1757 T22: 0.0766 REMARK 3 T33: 0.1037 T12: -0.0256 REMARK 3 T13: -0.0056 T23: -0.0398 REMARK 3 L TENSOR REMARK 3 L11: 3.6946 L22: 8.4279 REMARK 3 L33: 6.3890 L12: -4.3980 REMARK 3 L13: 1.6358 L23: -5.5348 REMARK 3 S TENSOR REMARK 3 S11: -0.2134 S12: -0.1855 S13: 0.2642 REMARK 3 S21: 0.3991 S22: 0.0742 S23: -0.3927 REMARK 3 S31: -0.3922 S32: 0.2206 S33: 0.1392 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 : A 92 A 121 REMARK 3 ORIGIN FOR THE GROUP (A): 2.7963 -42.1503 5.7801 REMARK 3 T TENSOR REMARK 3 T11: 0.1586 T22: 0.0931 REMARK 3 T33: 0.0919 T12: 0.0534 REMARK 3 T13: 0.0002 T23: 0.0105 REMARK 3 L TENSOR REMARK 3 L11: 2.7703 L22: 2.6476 REMARK 3 L33: 2.9432 L12: 0.7202 REMARK 3 L13: 1.1863 L23: 1.1245 REMARK 3 S TENSOR REMARK 3 S11: -0.0451 S12: 0.0542 S13: -0.1422 REMARK 3 S21: 0.1045 S22: 0.0823 S23: -0.1068 REMARK 3 S31: 0.1570 S32: 0.1633 S33: -0.0372 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 : A 122 A 153 REMARK 3 ORIGIN FOR THE GROUP (A): 6.7918 -34.6418 1.3458 REMARK 3 T TENSOR REMARK 3 T11: 0.1227 T22: 0.1392 REMARK 3 T33: 0.1538 T12: 0.0365 REMARK 3 T13: 0.0309 T23: 0.0101 REMARK 3 L TENSOR REMARK 3 L11: 2.5651 L22: 2.9942 REMARK 3 L33: 6.9447 L12: 0.5285 REMARK 3 L13: 2.0844 L23: 1.8211 REMARK 3 S TENSOR REMARK 3 S11: -0.0058 S12: -0.0528 S13: 0.0755 REMARK 3 S21: -0.0046 S22: 0.0411 S23: -0.2709 REMARK 3 S31: -0.1107 S32: 0.2694 S33: -0.0353 REMARK 3 REMARK 3 TLS GROUP : 7 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 1 B 39 REMARK 3 ORIGIN FOR THE GROUP (A): -3.6936 -41.5946 0.4147 REMARK 3 T TENSOR REMARK 3 T11: 0.1735 T22: 0.0823 REMARK 3 T33: 0.0972 T12: 0.0287 REMARK 3 T13: 0.0012 T23: -0.0211 REMARK 3 L TENSOR REMARK 3 L11: 0.9620 L22: 1.8173 REMARK 3 L33: 1.2765 L12: -0.4637 REMARK 3 L13: 0.0476 L23: -0.2485 REMARK 3 S TENSOR REMARK 3 S11: -0.0538 S12: 0.0437 S13: -0.0910 REMARK 3 S21: 0.0645 S22: 0.0285 S23: 0.0654 REMARK 3 S31: 0.0180 S32: -0.0173 S33: 0.0254 REMARK 3 REMARK 3 TLS GROUP : 8 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 40 B 49 REMARK 3 ORIGIN FOR THE GROUP (A): -0.1358 -47.0529 20.0832 REMARK 3 T TENSOR REMARK 3 T11: 0.3679 T22: 0.0954 REMARK 3 T33: 0.0107 T12: 0.1370 REMARK 3 T13: -0.0001 T23: 0.0125 REMARK 3 L TENSOR REMARK 3 L11: 10.8853 L22: 11.9810 REMARK 3 L33: 9.9608 L12: 7.7002 REMARK 3 L13: -4.8017 L23: -8.3464 REMARK 3 S TENSOR REMARK 3 S11: -0.4851 S12: -0.4793 S13: -0.2821 REMARK 3 S21: 0.7534 S22: 0.3487 S23: -0.1807 REMARK 3 S31: -0.1573 S32: -0.3831 S33: 0.1364 REMARK 3 REMARK 3 TLS GROUP : 9 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 50 B 63 REMARK 3 ORIGIN FOR THE GROUP (A): -8.5754 -50.9601 14.8475 REMARK 3 T TENSOR REMARK 3 T11: 0.2100 T22: 0.0922 REMARK 3 T33: 0.1157 T12: 0.0061 REMARK 3 T13: 0.0747 T23: 0.0285 REMARK 3 L TENSOR REMARK 3 L11: 6.3567 L22: 15.1815 REMARK 3 L33: 6.5673 L12: -2.4778 REMARK 3 L13: -2.2941 L23: 1.7520 REMARK 3 S TENSOR REMARK 3 S11: -0.1877 S12: -0.3082 S13: -0.3925 REMARK 3 S21: 0.4086 S22: -0.0078 S23: 0.3614 REMARK 3 S31: 0.5430 S32: 0.0269 S33: 0.1955 REMARK 3 REMARK 3 TLS GROUP : 10 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 64 B 92 REMARK 3 ORIGIN FOR THE GROUP (A): -1.2802 -27.8877 -2.3291 REMARK 3 T TENSOR REMARK 3 T11: 0.1158 T22: 0.0774 REMARK 3 T33: 0.1012 T12: 0.0080 REMARK 3 T13: 0.0147 T23: -0.0111 REMARK 3 L TENSOR REMARK 3 L11: 1.9085 L22: 4.4754 REMARK 3 L33: 4.5045 L12: 2.7586 REMARK 3 L13: -2.4766 L23: -3.9592 REMARK 3 S TENSOR REMARK 3 S11: -0.1118 S12: 0.1019 S13: 0.0126 REMARK 3 S21: -0.1012 S22: 0.1022 S23: -0.0783 REMARK 3 S31: 0.0450 S32: 0.0699 S33: 0.0096 REMARK 3 REMARK 3 TLS GROUP : 11 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 93 B 121 REMARK 3 ORIGIN FOR THE GROUP (A): 10.3863 -5.8621 -7.7459 REMARK 3 T TENSOR REMARK 3 T11: 0.1088 T22: 0.0948 REMARK 3 T33: 0.1097 T12: -0.0115 REMARK 3 T13: -0.0037 T23: 0.0012 REMARK 3 L TENSOR REMARK 3 L11: 3.3335 L22: 3.4095 REMARK 3 L33: 1.9711 L12: 0.8671 REMARK 3 L13: -0.6592 L23: 0.6562 REMARK 3 S TENSOR REMARK 3 S11: -0.0806 S12: 0.0761 S13: 0.1648 REMARK 3 S21: -0.0127 S22: 0.0664 S23: 0.0151 REMARK 3 S31: -0.0209 S32: -0.0722 S33: 0.0142 REMARK 3 REMARK 3 TLS GROUP : 12 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 122 B 153 REMARK 3 ORIGIN FOR THE GROUP (A): 11.1968 -14.4031 -3.2639 REMARK 3 T TENSOR REMARK 3 T11: 0.0986 T22: 0.1055 REMARK 3 T33: 0.1389 T12: -0.0235 REMARK 3 T13: -0.0490 T23: 0.0366 REMARK 3 L TENSOR REMARK 3 L11: 4.0878 L22: 5.8147 REMARK 3 L33: 6.2134 L12: 0.4927 REMARK 3 L13: -1.4107 L23: 3.0691 REMARK 3 S TENSOR REMARK 3 S11: 0.1630 S12: -0.1036 S13: -0.1541 REMARK 3 S21: 0.0430 S22: -0.0735 S23: -0.2978 REMARK 3 S31: 0.0936 S32: 0.1022 S33: -0.0896 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 7DGM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 13-NOV-20. REMARK 100 THE DEPOSITION ID IS D_1300018254. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-JUL-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL38B1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 S 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 44098 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.510 REMARK 200 RESOLUTION RANGE LOW (A) : 47.150 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.9 REMARK 200 DATA REDUNDANCY : 6.100 REMARK 200 R MERGE (I) : 0.02800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 26.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.51 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.54 REMARK 200 COMPLETENESS FOR SHELL (%) : 55.7 REMARK 200 DATA REDUNDANCY IN SHELL : 4.40 REMARK 200 R MERGE FOR SHELL (I) : 0.60800 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: MOLREP REMARK 200 STARTING MODEL: 3VM9 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.19 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.20 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M SODIUM ACETATE, 0.1 M TRIS-HCL, REMARK 280 25% (W/V) PEG 6,000, PH 7.0, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 277K 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 28.61350 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 41.48100 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 31.44850 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 41.48100 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 28.61350 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 31.44850 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 8550 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14070 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -96.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 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 LYS A 96 -62.11 -92.51 REMARK 500 LYS B 96 -61.31 -95.72 REMARK 500 GLN B 152 -74.74 -79.39 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 379 DISTANCE = 6.27 ANGSTROMS REMARK 525 HOH B 396 DISTANCE = 6.58 ANGSTROMS 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 HEM A 201 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 93 NE2 REMARK 620 2 HEM A 201 NA 90.8 REMARK 620 3 HEM A 201 NB 88.3 88.7 REMARK 620 4 HEM A 201 NC 93.4 174.9 88.6 REMARK 620 5 HEM A 201 ND 96.6 91.7 175.1 90.7 REMARK 620 6 O B 201 O 176.4 92.7 90.7 83.1 84.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEM B 202 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 O A 202 O REMARK 620 2 HEM B 202 NA 89.9 REMARK 620 3 HEM B 202 NB 88.9 89.3 REMARK 620 4 HEM B 202 NC 83.3 172.7 87.8 REMARK 620 5 HEM B 202 ND 84.1 91.1 173.0 90.9 REMARK 620 6 HIS B 93 NE2 176.6 93.5 90.9 93.3 96.1 REMARK 620 N 1 2 3 4 5 DBREF 7DGM A 1 153 UNP P68082 MYG_HORSE 2 154 DBREF 7DGM B 1 153 UNP P68082 MYG_HORSE 2 154 SEQADV 7DGM HIS A 79 UNP P68082 LYS 80 ENGINEERED MUTATION SEQADV 7DGM ALA A 80 UNP P68082 GLY 81 ENGINEERED MUTATION SEQADV 7DGM ALA A 81 UNP P68082 HIS 82 ENGINEERED MUTATION SEQADV 7DGM HIS B 79 UNP P68082 LYS 80 ENGINEERED MUTATION SEQADV 7DGM ALA B 80 UNP P68082 GLY 81 ENGINEERED MUTATION SEQADV 7DGM ALA B 81 UNP P68082 HIS 82 ENGINEERED MUTATION SEQRES 1 A 153 GLY LEU SER ASP GLY GLU TRP GLN GLN VAL LEU ASN VAL SEQRES 2 A 153 TRP GLY LYS VAL GLU ALA ASP ILE ALA GLY HIS GLY GLN SEQRES 3 A 153 GLU VAL LEU ILE ARG LEU PHE THR GLY HIS PRO GLU THR SEQRES 4 A 153 LEU GLU LYS PHE ASP LYS PHE LYS HIS LEU LYS THR GLU SEQRES 5 A 153 ALA GLU MET LYS ALA SER GLU ASP LEU LYS LYS HIS GLY SEQRES 6 A 153 THR VAL VAL LEU THR ALA LEU GLY GLY ILE LEU LYS LYS SEQRES 7 A 153 HIS ALA ALA HIS GLU ALA GLU LEU LYS PRO LEU ALA GLN SEQRES 8 A 153 SER HIS ALA THR LYS HIS LYS ILE PRO ILE LYS TYR LEU SEQRES 9 A 153 GLU PHE ILE SER ASP ALA ILE ILE HIS VAL LEU HIS SER SEQRES 10 A 153 LYS HIS PRO GLY ASP PHE GLY ALA ASP ALA GLN GLY ALA SEQRES 11 A 153 MET THR LYS ALA LEU GLU LEU PHE ARG ASN ASP ILE ALA SEQRES 12 A 153 ALA LYS TYR LYS GLU LEU GLY PHE GLN GLY SEQRES 1 B 153 GLY LEU SER ASP GLY GLU TRP GLN GLN VAL LEU ASN VAL SEQRES 2 B 153 TRP GLY LYS VAL GLU ALA ASP ILE ALA GLY HIS GLY GLN SEQRES 3 B 153 GLU VAL LEU ILE ARG LEU PHE THR GLY HIS PRO GLU THR SEQRES 4 B 153 LEU GLU LYS PHE ASP LYS PHE LYS HIS LEU LYS THR GLU SEQRES 5 B 153 ALA GLU MET LYS ALA SER GLU ASP LEU LYS LYS HIS GLY SEQRES 6 B 153 THR VAL VAL LEU THR ALA LEU GLY GLY ILE LEU LYS LYS SEQRES 7 B 153 HIS ALA ALA HIS GLU ALA GLU LEU LYS PRO LEU ALA GLN SEQRES 8 B 153 SER HIS ALA THR LYS HIS LYS ILE PRO ILE LYS TYR LEU SEQRES 9 B 153 GLU PHE ILE SER ASP ALA ILE ILE HIS VAL LEU HIS SER SEQRES 10 B 153 LYS HIS PRO GLY ASP PHE GLY ALA ASP ALA GLN GLY ALA SEQRES 11 B 153 MET THR LYS ALA LEU GLU LEU PHE ARG ASN ASP ILE ALA SEQRES 12 B 153 ALA LYS TYR LYS GLU LEU GLY PHE GLN GLY HET HEM A 201 43 HET O A 202 1 HET O B 201 1 HET HEM B 202 43 HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETNAM O OXYGEN ATOM HETSYN HEM HEME FORMUL 3 HEM 2(C34 H32 FE N4 O4) FORMUL 4 O 2(O) FORMUL 7 HOH *175(H2 O) HELIX 1 AA1 SER A 3 ASP A 20 1 18 HELIX 2 AA2 ASP A 20 HIS A 36 1 17 HELIX 3 AA3 HIS A 36 GLU A 41 1 6 HELIX 4 AA4 THR A 51 SER A 58 1 8 HELIX 5 AA5 SER A 58 LYS A 96 1 39 HELIX 6 AA6 PRO A 100 HIS A 119 1 20 HELIX 7 AA7 GLY A 124 LEU A 149 1 26 HELIX 8 AA8 SER B 3 ASP B 20 1 18 HELIX 9 AA9 ASP B 20 HIS B 36 1 17 HELIX 10 AB1 HIS B 36 GLU B 41 1 6 HELIX 11 AB2 THR B 51 SER B 58 1 8 HELIX 12 AB3 SER B 58 LYS B 96 1 39 HELIX 13 AB4 PRO B 100 HIS B 119 1 20 HELIX 14 AB5 PRO B 120 PHE B 123 5 4 HELIX 15 AB6 GLY B 124 LEU B 149 1 26 LINK NE2 HIS A 93 FE HEM A 201 1555 1555 1.97 LINK FE HEM A 201 O O B 201 1555 1555 2.04 LINK O O A 202 FE HEM B 202 1555 1555 2.05 LINK NE2 HIS B 93 FE HEM B 202 1555 1555 1.98 CRYST1 57.227 62.897 82.962 90.00 90.00 90.00 P 21 21 21 8 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 0.017474 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015899 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012054 0.00000