HEADER TRANSCRIPTION 12-OCT-15 5E7D TITLE CRYSTAL STRUCTURE OF THE FIFTH BROMODOMAIN OF HUMAN PB1 IN COMPLEX TITLE 2 WITH A HYDROXYPHENYL LIGAND COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN POLYBROMO-1; COMPND 3 CHAIN: A, B, C, D; COMPND 4 FRAGMENT: UNP RESIDUES 645-766; COMPND 5 SYNONYM: HPB1,BRG1-ASSOCIATED FACTOR 180,BAF180,POLYBROMO-1D, PB1; COMPND 6 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: PBRM1, BAF180, PB1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_VARIANT: R3; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PNIC28-BSA4 KEYWDS BROMODOMAIN, CHEMICAL PROBE, LIGAND, INHIBITOR, STRUCTURAL GENOMICS KEYWDS 2 CONSORTIUM, SGC, TRANSCRIPTION EXPDTA X-RAY DIFFRACTION AUTHOR P.FILIPPAKOPOULOS,S.PICAUD,F.VON DELFT,C.H.ARROWSMITH,A.EDWARDS, AUTHOR 2 C.BOUNTRA,D.OWEN,S.KNAPP,STRUCTURAL GENOMICS CONSORTIUM (SGC) REVDAT 2 08-MAY-24 5E7D 1 REMARK REVDAT 1 12-OCT-16 5E7D 0 JRNL AUTH P.FILIPPAKOPOULOS,S.PICAUD,F.VON DELFT,C.H.ARROWSMITH, JRNL AUTH 2 A.EDWARDS,C.BOUNTRA,D.OWEN,S.KNAPP JRNL TITL CRYSTAL STRUCTURE OF THE FIFTH BROMODOMAIN OF HUMAN PB1 IN JRNL TITL 2 COMPLEX WITH A HYDROXYPHENYL LIGAND JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.87 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0110 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) : 1.87 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 23.80 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 87.0 REMARK 3 NUMBER OF REFLECTIONS : 41808 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) : 0.201 REMARK 3 FREE R VALUE : 0.248 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1782 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) : 1.87 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.92 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3069 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 87.43 REMARK 3 BIN R VALUE (WORKING SET) : 0.4070 REMARK 3 BIN FREE R VALUE SET COUNT : 130 REMARK 3 BIN FREE R VALUE : 0.4660 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3628 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 60 REMARK 3 SOLVENT ATOMS : 232 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 29.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.13 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 3.57000 REMARK 3 B22 (A**2) : -1.90000 REMARK 3 B33 (A**2) : -1.67000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.31000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.155 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.151 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.112 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.658 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.956 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.934 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3764 ; 0.015 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2585 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5069 ; 1.364 ; 2.000 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6276 ; 0.920 ; 3.001 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 442 ; 5.129 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 176 ;33.741 ;24.205 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 710 ;14.816 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 25 ;16.625 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 556 ; 0.085 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4072 ; 0.006 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 725 ; 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): 2235 ; 3.628 ; 3.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 869 ; 1.171 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3631 ; 5.278 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1529 ; 8.742 ; 8.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1437 ;10.896 ;11.000 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): 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 : 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 621 A 639 REMARK 3 ORIGIN FOR THE GROUP (A): 11.7224 6.3855 -0.7252 REMARK 3 T TENSOR REMARK 3 T11: 0.2612 T22: 0.0103 REMARK 3 T33: 0.0417 T12: -0.0015 REMARK 3 T13: 0.0092 T23: 0.0273 REMARK 3 L TENSOR REMARK 3 L11: 0.8068 L22: 3.6233 REMARK 3 L33: 0.8978 L12: 0.6701 REMARK 3 L13: 0.0670 L23: 2.8075 REMARK 3 S TENSOR REMARK 3 S11: -0.0210 S12: -0.1156 S13: 0.0015 REMARK 3 S21: -0.0143 S22: -0.0216 S23: 0.0374 REMARK 3 S31: 0.3168 S32: 0.0737 S33: 0.0426 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 640 A 671 REMARK 3 ORIGIN FOR THE GROUP (A): 7.0974 25.4476 6.9681 REMARK 3 T TENSOR REMARK 3 T11: 0.0449 T22: 0.0836 REMARK 3 T33: 0.0687 T12: -0.0014 REMARK 3 T13: 0.0083 T23: 0.0076 REMARK 3 L TENSOR REMARK 3 L11: 1.3892 L22: 1.3304 REMARK 3 L33: 0.8402 L12: -1.3177 REMARK 3 L13: 0.3348 L23: -0.8113 REMARK 3 S TENSOR REMARK 3 S11: -0.1047 S12: -0.0442 S13: 0.0936 REMARK 3 S21: 0.1405 S22: 0.0722 S23: -0.0351 REMARK 3 S31: 0.0137 S32: -0.0438 S33: 0.0324 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 672 A 731 REMARK 3 ORIGIN FOR THE GROUP (A): 13.8891 20.7315 -0.0193 REMARK 3 T TENSOR REMARK 3 T11: 0.0507 T22: 0.0831 REMARK 3 T33: 0.0620 T12: -0.0002 REMARK 3 T13: 0.0370 T23: 0.0202 REMARK 3 L TENSOR REMARK 3 L11: 0.3137 L22: 1.5424 REMARK 3 L33: 1.4283 L12: 0.3278 REMARK 3 L13: 0.3034 L23: 0.2555 REMARK 3 S TENSOR REMARK 3 S11: -0.0167 S12: -0.0060 S13: 0.0769 REMARK 3 S21: -0.0661 S22: -0.0385 S23: -0.0210 REMARK 3 S31: 0.1410 S32: 0.0524 S33: 0.0552 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 : B 621 B 640 REMARK 3 ORIGIN FOR THE GROUP (A): 32.4997 57.0309 -0.4990 REMARK 3 T TENSOR REMARK 3 T11: 0.1950 T22: 0.0166 REMARK 3 T33: 0.0391 T12: -0.0314 REMARK 3 T13: 0.0193 T23: 0.0113 REMARK 3 L TENSOR REMARK 3 L11: 0.3573 L22: 6.3603 REMARK 3 L33: 1.2880 L12: -2.3112 REMARK 3 L13: -0.5540 L23: 2.9983 REMARK 3 S TENSOR REMARK 3 S11: -0.0405 S12: 0.0059 S13: -0.0057 REMARK 3 S21: -0.1136 S22: 0.0535 S23: 0.0452 REMARK 3 S31: -0.2252 S32: 0.1054 S33: -0.0130 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 : B 641 B 671 REMARK 3 ORIGIN FOR THE GROUP (A): 26.9200 38.3164 -8.7460 REMARK 3 T TENSOR REMARK 3 T11: 0.0179 T22: 0.1138 REMARK 3 T33: 0.0754 T12: -0.0054 REMARK 3 T13: 0.0211 T23: 0.0157 REMARK 3 L TENSOR REMARK 3 L11: 0.8937 L22: 1.2594 REMARK 3 L33: 1.3418 L12: 0.8844 REMARK 3 L13: -1.0975 L23: -0.4752 REMARK 3 S TENSOR REMARK 3 S11: 0.0329 S12: 0.0862 S13: -0.0811 REMARK 3 S21: -0.0108 S22: -0.0020 S23: 0.0602 REMARK 3 S31: -0.1647 S32: -0.0669 S33: -0.0309 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 : B 672 B 731 REMARK 3 ORIGIN FOR THE GROUP (A): 33.8640 43.3808 -1.0849 REMARK 3 T TENSOR REMARK 3 T11: 0.0513 T22: 0.0729 REMARK 3 T33: 0.0529 T12: -0.0059 REMARK 3 T13: 0.0022 T23: 0.0103 REMARK 3 L TENSOR REMARK 3 L11: 0.3723 L22: 3.4710 REMARK 3 L33: 1.5711 L12: -0.2210 REMARK 3 L13: -0.2506 L23: 0.4618 REMARK 3 S TENSOR REMARK 3 S11: -0.0412 S12: 0.0184 S13: -0.0513 REMARK 3 S21: 0.2907 S22: 0.0071 S23: -0.0775 REMARK 3 S31: -0.0975 S32: 0.1032 S33: 0.0341 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 : C 621 C 646 REMARK 3 ORIGIN FOR THE GROUP (A): 25.4588 59.2224 -24.9906 REMARK 3 T TENSOR REMARK 3 T11: 0.2592 T22: 0.0122 REMARK 3 T33: 0.0286 T12: 0.0117 REMARK 3 T13: -0.0359 T23: 0.0120 REMARK 3 L TENSOR REMARK 3 L11: 0.3386 L22: 3.7468 REMARK 3 L33: 2.2531 L12: 1.7095 REMARK 3 L13: -1.3005 L23: -1.2567 REMARK 3 S TENSOR REMARK 3 S11: -0.0641 S12: -0.2083 S13: 0.0400 REMARK 3 S21: -0.1687 S22: 0.1068 S23: 0.2873 REMARK 3 S31: -0.5575 S32: 0.1015 S33: -0.0427 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 : C 647 C 720 REMARK 3 ORIGIN FOR THE GROUP (A): 28.1164 44.2945 -27.0068 REMARK 3 T TENSOR REMARK 3 T11: 0.1140 T22: 0.0633 REMARK 3 T33: 0.0374 T12: -0.0271 REMARK 3 T13: -0.0083 T23: -0.0099 REMARK 3 L TENSOR REMARK 3 L11: 0.0406 L22: 1.2393 REMARK 3 L33: 1.3732 L12: -0.1929 REMARK 3 L13: 0.2294 L23: -0.2911 REMARK 3 S TENSOR REMARK 3 S11: -0.0563 S12: -0.0288 S13: -0.0866 REMARK 3 S21: -0.2044 S22: 0.0659 S23: 0.1050 REMARK 3 S31: -0.1889 S32: 0.0894 S33: -0.0096 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 : C 721 C 731 REMARK 3 ORIGIN FOR THE GROUP (A): 16.0423 54.5292 -29.6238 REMARK 3 T TENSOR REMARK 3 T11: 0.1139 T22: 0.0114 REMARK 3 T33: 0.1824 T12: 0.0523 REMARK 3 T13: -0.1684 T23: 0.0727 REMARK 3 L TENSOR REMARK 3 L11: -0.7520 L22: 9.9989 REMARK 3 L33: 13.6863 L12: 1.1046 REMARK 3 L13: 0.4915 L23: -5.9672 REMARK 3 S TENSOR REMARK 3 S11: 0.0047 S12: 0.0025 S13: 0.0567 REMARK 3 S21: -0.1371 S22: 0.1583 S23: 0.4298 REMARK 3 S31: -0.4337 S32: -0.4794 S33: -0.1630 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 : D 621 D 660 REMARK 3 ORIGIN FOR THE GROUP (A): 7.4616 18.3031 -33.7119 REMARK 3 T TENSOR REMARK 3 T11: 0.0790 T22: 0.1013 REMARK 3 T33: 0.0393 T12: 0.0312 REMARK 3 T13: 0.0138 T23: -0.0190 REMARK 3 L TENSOR REMARK 3 L11: 0.7443 L22: 2.0461 REMARK 3 L33: 2.9957 L12: -0.1539 REMARK 3 L13: 0.9843 L23: -0.4224 REMARK 3 S TENSOR REMARK 3 S11: 0.0052 S12: 0.1540 S13: -0.0089 REMARK 3 S21: 0.2193 S22: 0.0719 S23: -0.0594 REMARK 3 S31: 0.1542 S32: 0.3456 S33: -0.0770 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 : D 661 D 680 REMARK 3 ORIGIN FOR THE GROUP (A): 12.8962 31.0010 -29.9105 REMARK 3 T TENSOR REMARK 3 T11: 0.0247 T22: 0.1561 REMARK 3 T33: 0.0760 T12: -0.0355 REMARK 3 T13: -0.0518 T23: -0.0085 REMARK 3 L TENSOR REMARK 3 L11: 1.4449 L22: 4.2903 REMARK 3 L33: 2.4755 L12: -0.2935 REMARK 3 L13: -1.2221 L23: 0.7911 REMARK 3 S TENSOR REMARK 3 S11: -0.1150 S12: 0.0717 S13: 0.2641 REMARK 3 S21: 0.0261 S22: 0.2283 S23: -0.1260 REMARK 3 S31: -0.0249 S32: 0.3726 S33: -0.1133 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 : D 681 D 731 REMARK 3 ORIGIN FOR THE GROUP (A): 2.4790 24.9601 -28.6845 REMARK 3 T TENSOR REMARK 3 T11: 0.0898 T22: 0.0656 REMARK 3 T33: 0.0313 T12: 0.0186 REMARK 3 T13: 0.0180 T23: 0.0024 REMARK 3 L TENSOR REMARK 3 L11: 0.7499 L22: 1.7939 REMARK 3 L33: 1.9479 L12: -0.7161 REMARK 3 L13: 0.8882 L23: 0.5118 REMARK 3 S TENSOR REMARK 3 S11: -0.1624 S12: -0.0499 S13: 0.1022 REMARK 3 S21: 0.2956 S22: 0.0913 S23: 0.0246 REMARK 3 S31: 0.0129 S32: -0.0488 S33: 0.0711 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES : WITH TLS ADDED REMARK 4 REMARK 4 5E7D COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 12-OCT-15. REMARK 100 THE DEPOSITION ID IS D_1000214483. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-MAR-11 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 FR-E SUPERBRIGHT REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.52 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.16 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 44203 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.866 REMARK 200 RESOLUTION RANGE LOW (A) : 23.819 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 87.7 REMARK 200 DATA REDUNDANCY : 4.400 REMARK 200 R MERGE (I) : 0.06900 REMARK 200 R SYM (I) : 0.06900 REMARK 200 FOR THE DATA SET : 12.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.87 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.97 REMARK 200 COMPLETENESS FOR SHELL (%) : 76.7 REMARK 200 DATA REDUNDANCY IN SHELL : 3.80 REMARK 200 R MERGE FOR SHELL (I) : 0.63200 REMARK 200 R SYM FOR SHELL (I) : 0.63200 REMARK 200 FOR SHELL : 1.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.1.4 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.52 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.65 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M NA2SO4 20W/V PEG_3350 10V/V REMARK 280 ETHYLENE_GLYCOL, PH 7.5, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 67.83200 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3, 4 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: C REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 4 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: D REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 611 REMARK 465 MET A 612 REMARK 465 SER A 613 REMARK 465 GLY A 614 REMARK 465 ILE A 615 REMARK 465 SER A 616 REMARK 465 PRO A 617 REMARK 465 LYS A 618 REMARK 465 LYS A 619 REMARK 465 SER A 620 REMARK 465 GLU A 732 REMARK 465 GLY A 733 REMARK 465 ASP A 734 REMARK 465 SER B 611 REMARK 465 MET B 612 REMARK 465 SER B 613 REMARK 465 GLY B 614 REMARK 465 ILE B 615 REMARK 465 SER B 616 REMARK 465 PRO B 617 REMARK 465 LYS B 618 REMARK 465 LYS B 619 REMARK 465 SER B 620 REMARK 465 GLU B 732 REMARK 465 GLY B 733 REMARK 465 ASP B 734 REMARK 465 SER C 611 REMARK 465 MET C 612 REMARK 465 SER C 613 REMARK 465 GLY C 614 REMARK 465 ILE C 615 REMARK 465 SER C 616 REMARK 465 PRO C 617 REMARK 465 LYS C 618 REMARK 465 LYS C 619 REMARK 465 SER C 620 REMARK 465 GLU C 732 REMARK 465 GLY C 733 REMARK 465 ASP C 734 REMARK 465 SER D 611 REMARK 465 MET D 612 REMARK 465 SER D 613 REMARK 465 GLY D 614 REMARK 465 ILE D 615 REMARK 465 SER D 616 REMARK 465 PRO D 617 REMARK 465 LYS D 618 REMARK 465 LYS D 619 REMARK 465 SER D 620 REMARK 465 GLU D 732 REMARK 465 GLY D 733 REMARK 465 ASP D 734 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LYS A 669 CE NZ REMARK 470 LYS A 676 NZ REMARK 470 LYS A 685 CD CE NZ REMARK 470 ARG A 728 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 729 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 621 CE NZ REMARK 470 LYS B 629 NZ REMARK 470 LYS B 643 CD CE NZ REMARK 470 LYS B 669 CE NZ REMARK 470 LYS B 670 CD CE NZ REMARK 470 LYS B 676 CD CE NZ REMARK 470 GLN B 687 CD OE1 NE2 REMARK 470 ARG B 728 CZ NH1 NH2 REMARK 470 ARG B 729 CD NE CZ NH1 NH2 REMARK 470 LYS C 621 CG CD CE NZ REMARK 470 LYS C 629 CE NZ REMARK 470 LYS C 638 NZ REMARK 470 ARG C 644 CD NE CZ NH1 NH2 REMARK 470 LYS C 722 CD CE NZ REMARK 470 ARG C 729 CG CD NE CZ NH1 NH2 REMARK 470 LEU C 731 CG CD1 CD2 REMARK 470 LYS D 643 CE NZ REMARK 470 LYS D 669 CG CD CE NZ REMARK 470 LYS D 676 CD CE NZ REMARK 470 LYS D 685 CG CD CE NZ REMARK 470 ARG D 728 NE CZ NH1 NH2 REMARK 470 ARG D 729 NE CZ NH1 NH2 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 A 903 O HOH A 960 2.13 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 5KL A 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 5KL B 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 5KL C 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 5KL D 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO D 802 DBREF 5E7D A 613 734 UNP Q86U86 PB1_HUMAN 645 766 DBREF 5E7D B 613 734 UNP Q86U86 PB1_HUMAN 645 766 DBREF 5E7D C 613 734 UNP Q86U86 PB1_HUMAN 645 766 DBREF 5E7D D 613 734 UNP Q86U86 PB1_HUMAN 645 766 SEQADV 5E7D SER A 611 UNP Q86U86 EXPRESSION TAG SEQADV 5E7D MET A 612 UNP Q86U86 EXPRESSION TAG SEQADV 5E7D SER B 611 UNP Q86U86 EXPRESSION TAG SEQADV 5E7D MET B 612 UNP Q86U86 EXPRESSION TAG SEQADV 5E7D SER C 611 UNP Q86U86 EXPRESSION TAG SEQADV 5E7D MET C 612 UNP Q86U86 EXPRESSION TAG SEQADV 5E7D SER D 611 UNP Q86U86 EXPRESSION TAG SEQADV 5E7D MET D 612 UNP Q86U86 EXPRESSION TAG SEQRES 1 A 124 SER MET SER GLY ILE SER PRO LYS LYS SER LYS TYR MET SEQRES 2 A 124 THR PRO MET GLN GLN LYS LEU ASN GLU VAL TYR GLU ALA SEQRES 3 A 124 VAL LYS ASN TYR THR ASP LYS ARG GLY ARG ARG LEU SER SEQRES 4 A 124 ALA ILE PHE LEU ARG LEU PRO SER ARG SER GLU LEU PRO SEQRES 5 A 124 ASP TYR TYR LEU THR ILE LYS LYS PRO MET ASP MET GLU SEQRES 6 A 124 LYS ILE ARG SER HIS MET MET ALA ASN LYS TYR GLN ASP SEQRES 7 A 124 ILE ASP SER MET VAL GLU ASP PHE VAL MET MET PHE ASN SEQRES 8 A 124 ASN ALA CYS THR TYR ASN GLU PRO GLU SER LEU ILE TYR SEQRES 9 A 124 LYS ASP ALA LEU VAL LEU HIS LYS VAL LEU LEU GLU THR SEQRES 10 A 124 ARG ARG ASP LEU GLU GLY ASP SEQRES 1 B 124 SER MET SER GLY ILE SER PRO LYS LYS SER LYS TYR MET SEQRES 2 B 124 THR PRO MET GLN GLN LYS LEU ASN GLU VAL TYR GLU ALA SEQRES 3 B 124 VAL LYS ASN TYR THR ASP LYS ARG GLY ARG ARG LEU SER SEQRES 4 B 124 ALA ILE PHE LEU ARG LEU PRO SER ARG SER GLU LEU PRO SEQRES 5 B 124 ASP TYR TYR LEU THR ILE LYS LYS PRO MET ASP MET GLU SEQRES 6 B 124 LYS ILE ARG SER HIS MET MET ALA ASN LYS TYR GLN ASP SEQRES 7 B 124 ILE ASP SER MET VAL GLU ASP PHE VAL MET MET PHE ASN SEQRES 8 B 124 ASN ALA CYS THR TYR ASN GLU PRO GLU SER LEU ILE TYR SEQRES 9 B 124 LYS ASP ALA LEU VAL LEU HIS LYS VAL LEU LEU GLU THR SEQRES 10 B 124 ARG ARG ASP LEU GLU GLY ASP SEQRES 1 C 124 SER MET SER GLY ILE SER PRO LYS LYS SER LYS TYR MET SEQRES 2 C 124 THR PRO MET GLN GLN LYS LEU ASN GLU VAL TYR GLU ALA SEQRES 3 C 124 VAL LYS ASN TYR THR ASP LYS ARG GLY ARG ARG LEU SER SEQRES 4 C 124 ALA ILE PHE LEU ARG LEU PRO SER ARG SER GLU LEU PRO SEQRES 5 C 124 ASP TYR TYR LEU THR ILE LYS LYS PRO MET ASP MET GLU SEQRES 6 C 124 LYS ILE ARG SER HIS MET MET ALA ASN LYS TYR GLN ASP SEQRES 7 C 124 ILE ASP SER MET VAL GLU ASP PHE VAL MET MET PHE ASN SEQRES 8 C 124 ASN ALA CYS THR TYR ASN GLU PRO GLU SER LEU ILE TYR SEQRES 9 C 124 LYS ASP ALA LEU VAL LEU HIS LYS VAL LEU LEU GLU THR SEQRES 10 C 124 ARG ARG ASP LEU GLU GLY ASP SEQRES 1 D 124 SER MET SER GLY ILE SER PRO LYS LYS SER LYS TYR MET SEQRES 2 D 124 THR PRO MET GLN GLN LYS LEU ASN GLU VAL TYR GLU ALA SEQRES 3 D 124 VAL LYS ASN TYR THR ASP LYS ARG GLY ARG ARG LEU SER SEQRES 4 D 124 ALA ILE PHE LEU ARG LEU PRO SER ARG SER GLU LEU PRO SEQRES 5 D 124 ASP TYR TYR LEU THR ILE LYS LYS PRO MET ASP MET GLU SEQRES 6 D 124 LYS ILE ARG SER HIS MET MET ALA ASN LYS TYR GLN ASP SEQRES 7 D 124 ILE ASP SER MET VAL GLU ASP PHE VAL MET MET PHE ASN SEQRES 8 D 124 ASN ALA CYS THR TYR ASN GLU PRO GLU SER LEU ILE TYR SEQRES 9 D 124 LYS ASP ALA LEU VAL LEU HIS LYS VAL LEU LEU GLU THR SEQRES 10 D 124 ARG ARG ASP LEU GLU GLY ASP HET 5KL A 801 14 HET 5KL B 801 14 HET 5KL C 801 14 HET 5KL D 801 14 HET EDO D 802 4 HETNAM 5KL (2E)-3-(DIMETHYLAMINO)-1-(2-HYDROXYPHENYL)PROP-2-EN-1- HETNAM 2 5KL ONE HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 5 5KL 4(C11 H13 N O2) FORMUL 9 EDO C2 H6 O2 FORMUL 10 HOH *232(H2 O) HELIX 1 AA1 THR A 624 TYR A 640 1 17 HELIX 2 AA2 ARG A 647 LEU A 653 5 7 HELIX 3 AA3 LEU A 661 ILE A 668 1 8 HELIX 4 AA4 ASP A 673 ALA A 683 1 11 HELIX 5 AA5 ASP A 688 ASN A 707 1 20 HELIX 6 AA6 SER A 711 LEU A 731 1 21 HELIX 7 AA7 THR B 624 TYR B 640 1 17 HELIX 8 AA8 ARG B 647 LEU B 653 5 7 HELIX 9 AA9 ASP B 663 ILE B 668 1 6 HELIX 10 AB1 ASP B 673 ALA B 683 1 11 HELIX 11 AB2 ASP B 688 ASN B 707 1 20 HELIX 12 AB3 SER B 711 ASP B 730 1 20 HELIX 13 AB4 THR C 624 TYR C 640 1 17 HELIX 14 AB5 ARG C 647 LEU C 653 5 7 HELIX 15 AB6 LEU C 661 ILE C 668 1 8 HELIX 16 AB7 ASP C 673 ALA C 683 1 11 HELIX 17 AB8 ASP C 688 ASN C 707 1 20 HELIX 18 AB9 SER C 711 LEU C 731 1 21 HELIX 19 AC1 THR D 624 TYR D 640 1 17 HELIX 20 AC2 ARG D 647 LEU D 653 5 7 HELIX 21 AC3 LEU D 661 ILE D 668 1 8 HELIX 22 AC4 ASP D 673 ALA D 683 1 11 HELIX 23 AC5 ASP D 688 ASN D 707 1 20 HELIX 24 AC6 SER D 711 LEU D 731 1 21 SITE 1 AC1 9 ILE A 651 LEU A 655 TYR A 664 MET A 672 SITE 2 AC1 9 ASN A 702 ALA A 703 ASN A 707 ILE A 713 SITE 3 AC1 9 EDO D 802 SITE 1 AC2 9 ILE B 651 PHE B 652 LEU B 655 LEU B 661 SITE 2 AC2 9 TYR B 664 MET B 672 ALA B 703 ASN B 707 SITE 3 AC2 9 ILE B 713 SITE 1 AC3 8 ILE C 651 PHE C 652 LEU C 655 TYR C 664 SITE 2 AC3 8 MET C 672 ALA C 703 ASN C 707 ILE C 713 SITE 1 AC4 8 ILE D 651 PHE D 652 LEU D 655 TYR D 664 SITE 2 AC4 8 MET D 672 ALA D 703 ASN D 707 ILE D 713 SITE 1 AC5 6 5KL A 801 ILE D 651 ILE D 713 ASP D 716 SITE 2 AC5 6 HOH D 923 HOH D 926 CRYST1 40.790 135.664 56.045 90.00 90.60 90.00 P 1 21 1 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 0.024516 0.000000 0.000257 0.00000 SCALE2 0.000000 0.007371 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017844 0.00000