HEADER GENE REGULATION 15-JUL-19 6S9T TITLE DIMERIZATION DOMAIN OF XENOPUS LAEVIS LDB1 IN COMPLEX WITH DARPIN 3 COMPND MOL_ID: 1; COMPND 2 MOLECULE: LIM DOMAIN-BINDING PROTEIN 1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: XLDB1; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: DARPIN 3; COMPND 8 CHAIN: D; COMPND 9 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: XENOPUS LAEVIS; SOURCE 3 ORGANISM_COMMON: AFRICAN CLAWED FROG; SOURCE 4 ORGANISM_TAXID: 8355; SOURCE 5 GENE: LDB1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 10 ORGANISM_TAXID: 32630; SOURCE 11 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 12 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS WNT SIGNALLING, WNT ENHANCEOSOME, GENE REGULATION EXPDTA X-RAY DIFFRACTION AUTHOR M.RENKO,J.V.SCHAEFER,A.PLUCKTHUN,M.BIENZ REVDAT 2 23-OCT-19 6S9T 1 JRNL REVDAT 1 09-OCT-19 6S9T 0 JRNL AUTH M.RENKO,M.FIEDLER,T.J.RUTHERFORD,J.V.SCHAEFER,A.PLUCKTHUN, JRNL AUTH 2 M.BIENZ JRNL TITL ROTATIONAL SYMMETRY OF THE STRUCTURED CHIP/LDB-SSDP CORE JRNL TITL 2 MODULE OF THE WNT ENHANCEOSOME. JRNL REF PROC.NATL.ACAD.SCI.USA V. 116 20977 2019 JRNL REFN ESSN 1091-6490 JRNL PMID 31570581 JRNL DOI 10.1073/PNAS.1912705116 REMARK 2 REMARK 2 RESOLUTION. 2.05 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0253 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.05 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.15 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 21557 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) : 0.221 REMARK 3 R VALUE (WORKING SET) : 0.218 REMARK 3 FREE R VALUE : 0.279 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.700 REMARK 3 FREE R VALUE TEST SET COUNT : 1071 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) : 2.05 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.10 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1550 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.82 REMARK 3 BIN R VALUE (WORKING SET) : 0.3410 REMARK 3 BIN FREE R VALUE SET COUNT : 97 REMARK 3 BIN FREE R VALUE : 0.3760 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2369 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 26 REMARK 3 SOLVENT ATOMS : 27 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 57.12 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.84000 REMARK 3 B22 (A**2) : -0.84000 REMARK 3 B33 (A**2) : 2.73000 REMARK 3 B12 (A**2) : -0.42000 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): 0.205 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.195 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.188 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 15.729 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.958 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.932 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2454 ; 0.010 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 2259 ; 0.002 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3310 ; 1.722 ; 1.646 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5241 ; 1.304 ; 1.577 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 295 ; 6.531 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 137 ;32.184 ;22.993 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 397 ;16.869 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;24.469 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 314 ; 0.074 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2724 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 518 ; 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : 10 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 30 A 71 REMARK 3 ORIGIN FOR THE GROUP (A): 35.3309 35.2387 2.6787 REMARK 3 T TENSOR REMARK 3 T11: 0.2109 T22: 0.5770 REMARK 3 T33: 0.4495 T12: 0.0822 REMARK 3 T13: 0.0267 T23: 0.0123 REMARK 3 L TENSOR REMARK 3 L11: 2.7498 L22: 1.1334 REMARK 3 L33: 2.0628 L12: 0.1110 REMARK 3 L13: 1.9273 L23: -0.3835 REMARK 3 S TENSOR REMARK 3 S11: -0.0647 S12: 0.2105 S13: 0.2420 REMARK 3 S21: -0.0648 S22: 0.1300 S23: -0.1001 REMARK 3 S31: -0.0794 S32: 0.1802 S33: -0.0653 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 72 A 91 REMARK 3 ORIGIN FOR THE GROUP (A): 33.5923 25.0548 15.4052 REMARK 3 T TENSOR REMARK 3 T11: 0.1987 T22: 0.6295 REMARK 3 T33: 0.5741 T12: 0.1235 REMARK 3 T13: 0.0095 T23: 0.1022 REMARK 3 L TENSOR REMARK 3 L11: 2.7249 L22: 1.5030 REMARK 3 L33: 0.0923 L12: -1.9875 REMARK 3 L13: -0.1692 L23: 0.1880 REMARK 3 S TENSOR REMARK 3 S11: -0.1066 S12: -0.3645 S13: -0.6045 REMARK 3 S21: 0.0782 S22: 0.2631 S23: 0.2884 REMARK 3 S31: 0.0428 S32: 0.0620 S33: -0.1564 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 92 A 142 REMARK 3 ORIGIN FOR THE GROUP (A): 25.6040 31.9387 6.2917 REMARK 3 T TENSOR REMARK 3 T11: 0.2984 T22: 0.4914 REMARK 3 T33: 0.4858 T12: 0.1110 REMARK 3 T13: 0.0167 T23: 0.0014 REMARK 3 L TENSOR REMARK 3 L11: 1.2385 L22: 2.6210 REMARK 3 L33: 1.1387 L12: 0.1722 REMARK 3 L13: 0.1055 L23: 1.7204 REMARK 3 S TENSOR REMARK 3 S11: 0.0037 S12: -0.0452 S13: 0.0323 REMARK 3 S21: -0.0472 S22: 0.0359 S23: 0.0310 REMARK 3 S31: -0.0037 S32: 0.0390 S33: -0.0396 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 143 A 169 REMARK 3 ORIGIN FOR THE GROUP (A): 29.6519 36.9095 13.2298 REMARK 3 T TENSOR REMARK 3 T11: 0.2719 T22: 0.5821 REMARK 3 T33: 0.4138 T12: 0.0929 REMARK 3 T13: 0.0027 T23: -0.0035 REMARK 3 L TENSOR REMARK 3 L11: 3.8256 L22: 4.2699 REMARK 3 L33: 0.1363 L12: 1.7376 REMARK 3 L13: -0.5921 L23: 0.0990 REMARK 3 S TENSOR REMARK 3 S11: 0.1260 S12: -0.2031 S13: 0.2189 REMARK 3 S21: 0.0391 S22: -0.0385 S23: -0.1035 REMARK 3 S31: -0.0042 S32: 0.0068 S33: -0.0875 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 170 A 196 REMARK 3 ORIGIN FOR THE GROUP (A): 12.6640 12.3075 0.5576 REMARK 3 T TENSOR REMARK 3 T11: 0.2810 T22: 0.4192 REMARK 3 T33: 0.5662 T12: 0.1588 REMARK 3 T13: 0.0569 T23: -0.0010 REMARK 3 L TENSOR REMARK 3 L11: 3.4942 L22: 3.0848 REMARK 3 L33: 2.2842 L12: -0.0228 REMARK 3 L13: 2.2304 L23: 1.5991 REMARK 3 S TENSOR REMARK 3 S11: -0.0581 S12: 0.1420 S13: -0.3250 REMARK 3 S21: 0.0552 S22: 0.1167 S23: 0.1113 REMARK 3 S31: -0.0430 S32: 0.1451 S33: -0.0586 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 : D 219 D 242 REMARK 3 ORIGIN FOR THE GROUP (A): 61.8227 28.4403 -1.5928 REMARK 3 T TENSOR REMARK 3 T11: 0.2767 T22: 0.5594 REMARK 3 T33: 0.4558 T12: 0.1469 REMARK 3 T13: 0.0238 T23: 0.0312 REMARK 3 L TENSOR REMARK 3 L11: 3.5721 L22: 0.9474 REMARK 3 L33: 3.5869 L12: 1.5324 REMARK 3 L13: 1.3820 L23: 1.3900 REMARK 3 S TENSOR REMARK 3 S11: 0.1786 S12: 0.2566 S13: 0.0452 REMARK 3 S21: -0.0992 S22: -0.1539 S23: -0.0802 REMARK 3 S31: -0.3594 S32: -0.2157 S33: -0.0248 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 : D 243 D 273 REMARK 3 ORIGIN FOR THE GROUP (A): 56.8890 24.9348 5.2533 REMARK 3 T TENSOR REMARK 3 T11: 0.2310 T22: 0.5951 REMARK 3 T33: 0.4681 T12: 0.0705 REMARK 3 T13: -0.0292 T23: -0.0359 REMARK 3 L TENSOR REMARK 3 L11: 4.1219 L22: 0.8651 REMARK 3 L33: 0.3271 L12: -0.7786 REMARK 3 L13: -1.1594 L23: 0.2017 REMARK 3 S TENSOR REMARK 3 S11: 0.2223 S12: 0.0986 S13: -0.1664 REMARK 3 S21: 0.0663 S22: -0.2598 S23: 0.0759 REMARK 3 S31: -0.0685 S32: -0.0094 S33: 0.0375 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 : D 274 D 288 REMARK 3 ORIGIN FOR THE GROUP (A): 57.1149 23.0591 12.9701 REMARK 3 T TENSOR REMARK 3 T11: 0.2558 T22: 0.5878 REMARK 3 T33: 0.4271 T12: 0.0610 REMARK 3 T13: -0.0184 T23: -0.0019 REMARK 3 L TENSOR REMARK 3 L11: 7.5949 L22: 1.9620 REMARK 3 L33: 2.1979 L12: -3.7996 REMARK 3 L13: -1.8451 L23: 0.8526 REMARK 3 S TENSOR REMARK 3 S11: 0.0673 S12: 0.0389 S13: -0.2364 REMARK 3 S21: 0.0764 S22: -0.0514 S23: 0.0525 REMARK 3 S31: -0.1808 S32: 0.0660 S33: -0.0159 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 : D 289 D 332 REMARK 3 ORIGIN FOR THE GROUP (A): 47.5885 17.6752 14.0049 REMARK 3 T TENSOR REMARK 3 T11: 0.1403 T22: 0.4786 REMARK 3 T33: 0.7513 T12: 0.0277 REMARK 3 T13: -0.0987 T23: 0.1337 REMARK 3 L TENSOR REMARK 3 L11: 3.0083 L22: 0.9884 REMARK 3 L33: 0.4672 L12: 0.9542 REMARK 3 L13: 1.0612 L23: 0.3686 REMARK 3 S TENSOR REMARK 3 S11: 0.0504 S12: -0.2978 S13: -0.7363 REMARK 3 S21: -0.1029 S22: 0.1818 S23: 0.3202 REMARK 3 S31: -0.0881 S32: -0.0626 S33: -0.2322 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 333 D 346 REMARK 3 ORIGIN FOR THE GROUP (A): 45.8537 7.8446 17.8180 REMARK 3 T TENSOR REMARK 3 T11: 1.0761 T22: 0.1247 REMARK 3 T33: 0.6170 T12: -0.0436 REMARK 3 T13: -0.0116 T23: -0.0466 REMARK 3 L TENSOR REMARK 3 L11: 0.0878 L22: 3.2633 REMARK 3 L33: 0.2899 L12: 0.3284 REMARK 3 L13: 0.1178 L23: 0.9268 REMARK 3 S TENSOR REMARK 3 S11: 0.2067 S12: -0.0161 S13: 0.1155 REMARK 3 S21: 0.9291 S22: -0.4437 S23: 0.9515 REMARK 3 S31: 0.4076 S32: -0.1037 S33: 0.2370 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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 U VALUES : WITH TLS ADDED REMARK 4 REMARK 4 6S9T COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 15-JUL-19. REMARK 100 THE DEPOSITION ID IS D_1292103213. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-OCT-17 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 : DIAMOND REMARK 200 BEAMLINE : I24 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.978860 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 : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 22528 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.050 REMARK 200 RESOLUTION RANGE LOW (A) : 43.150 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 39.50 REMARK 200 R MERGE (I) : 0.12700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 23.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.05 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.12 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELXCD REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.75 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.55 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M TRISHCL, PH 7.0 32% PEG200 0.05 REMARK 280 M LI2SO4, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 81.50467 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 40.75233 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 40.75233 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 81.50467 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7770 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27780 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -21.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, D REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 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 17 REMARK 465 SER A 18 REMARK 465 GLY A 19 REMARK 465 GLY A 20 REMARK 465 ILE A 21 REMARK 465 GLY A 22 REMARK 465 ARG A 23 REMARK 465 HIS A 24 REMARK 465 THR A 25 REMARK 465 PRO A 26 REMARK 465 TYR A 27 REMARK 465 GLY A 28 REMARK 465 ASN A 29 REMARK 465 CYS A 197 REMARK 465 GLY A 198 REMARK 465 LEU A 199 REMARK 465 SER A 200 REMARK 465 MET D 182 REMARK 465 ARG D 183 REMARK 465 GLY D 184 REMARK 465 SER D 185 REMARK 465 HIS D 186 REMARK 465 HIS D 187 REMARK 465 HIS D 188 REMARK 465 HIS D 189 REMARK 465 HIS D 190 REMARK 465 HIS D 191 REMARK 465 HIS D 192 REMARK 465 HIS D 193 REMARK 465 HIS D 194 REMARK 465 HIS D 195 REMARK 465 GLY D 196 REMARK 465 GLY D 197 REMARK 465 GLY D 198 REMARK 465 GLY D 199 REMARK 465 SER D 200 REMARK 465 TYR D 201 REMARK 465 PRO D 202 REMARK 465 TYR D 203 REMARK 465 ASP D 204 REMARK 465 VAL D 205 REMARK 465 PRO D 206 REMARK 465 ASP D 207 REMARK 465 TYR D 208 REMARK 465 ALA D 209 REMARK 465 LEU D 210 REMARK 465 GLU D 211 REMARK 465 VAL D 212 REMARK 465 LEU D 213 REMARK 465 PHE D 214 REMARK 465 GLN D 215 REMARK 465 GLY D 216 REMARK 465 PRO D 217 REMARK 465 GLY D 218 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 SER D 219 OG 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 OD1 ASN A 51 NH1 ARG A 93 1.90 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 A 49 102.19 -54.48 REMARK 500 ASP A 76 49.31 -92.43 REMARK 500 HIS A 109 70.46 38.33 REMARK 500 PHE A 152 104.14 -56.92 REMARK 500 ASP A 154 52.19 -108.60 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 PG4 A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PG4 A 302 DBREF 6S9T A 20 200 UNP P70060 LDB1_XENLA 20 200 DBREF 6S9T D 182 346 PDB 6S9T 6S9T 182 346 SEQADV 6S9T SER A 17 UNP P70060 EXPRESSION TAG SEQADV 6S9T SER A 18 UNP P70060 EXPRESSION TAG SEQADV 6S9T GLY A 19 UNP P70060 EXPRESSION TAG SEQRES 1 A 184 SER SER GLY GLY ILE GLY ARG HIS THR PRO TYR GLY ASN SEQRES 2 A 184 GLN THR ASP TYR ARG ILE PHE GLU LEU ASN LYS ARG LEU SEQRES 3 A 184 GLN ASN TRP THR GLU GLU CYS ASP ASN LEU TRP TRP ASP SEQRES 4 A 184 ALA PHE THR THR GLU PHE PHE GLU ASP ASP ALA MSE LEU SEQRES 5 A 184 THR ILE THR PHE CYS LEU GLU ASP GLY PRO LYS ARG TYR SEQRES 6 A 184 THR ILE GLY ARG THR LEU ILE PRO ARG TYR PHE ARG SER SEQRES 7 A 184 ILE PHE GLU GLY GLY ALA THR GLU LEU TYR TYR VAL LEU SEQRES 8 A 184 LYS HIS PRO LYS GLU SER PHE HIS ASN ASN PHE VAL SER SEQRES 9 A 184 LEU ASP CYS ASP GLN CYS THR MSE VAL THR GLN HIS GLY SEQRES 10 A 184 LYS PRO MSE PHE THR GLN VAL CYS VAL GLU GLY ARG LEU SEQRES 11 A 184 TYR LEU GLU PHE MSE PHE ASP ASP MSE MSE ARG ILE LYS SEQRES 12 A 184 THR TRP HIS PHE SER ILE ARG GLN HIS ARG GLU LEU ILE SEQRES 13 A 184 PRO ARG SER ILE LEU ALA MSE HIS ALA GLN ASP PRO GLN SEQRES 14 A 184 MSE LEU ASP GLN LEU SER LYS ASN ILE THR ARG CYS GLY SEQRES 15 A 184 LEU SER SEQRES 1 D 165 MET ARG GLY SER HIS HIS HIS HIS HIS HIS HIS HIS HIS SEQRES 2 D 165 HIS GLY GLY GLY GLY SER TYR PRO TYR ASP VAL PRO ASP SEQRES 3 D 165 TYR ALA LEU GLU VAL LEU PHE GLN GLY PRO GLY SER ASP SEQRES 4 D 165 LEU GLY LYS LYS LEU LEU GLU ALA ALA THR GLU GLY GLN SEQRES 5 D 165 ASP ASP GLU VAL ARG ILE LEU MET ALA ASN GLY ALA ASP SEQRES 6 D 165 VAL ASN ALA HIS ASP ARG LEU GLY SER THR PRO LEU HIS SEQRES 7 D 165 LEU ALA ALA LYS MET GLY HIS LEU GLU ILE VAL GLU VAL SEQRES 8 D 165 LEU LEU LYS THR GLY ALA ASP VAL ASN ALA GLU ASP THR SEQRES 9 D 165 ALA GLY TYR THR PRO LEU HIS LEU ALA ALA ALA TRP GLY SEQRES 10 D 165 HIS LEU GLU ILE VAL GLU VAL LEU LEU LYS HIS GLY ALA SEQRES 11 D 165 ASP VAL ASN ALA GLN ASP LYS PHE GLY LYS THR PRO PHE SEQRES 12 D 165 ASP LEU ALA ALA ILE PHE GLY ASN GLU ASP ILE ALA GLU SEQRES 13 D 165 VAL LEU GLN LYS ALA ALA LYS LEU ASN MODRES 6S9T MSE A 67 MET MODIFIED RESIDUE MODRES 6S9T MSE A 128 MET MODIFIED RESIDUE MODRES 6S9T MSE A 136 MET MODIFIED RESIDUE MODRES 6S9T MSE A 151 MET MODIFIED RESIDUE MODRES 6S9T MSE A 155 MET MODIFIED RESIDUE MODRES 6S9T MSE A 156 MET MODIFIED RESIDUE MODRES 6S9T MSE A 179 MET MODIFIED RESIDUE MODRES 6S9T MSE A 186 MET MODIFIED RESIDUE HET MSE A 67 16 HET MSE A 128 8 HET MSE A 136 8 HET MSE A 151 8 HET MSE A 155 8 HET MSE A 156 8 HET MSE A 179 8 HET MSE A 186 8 HET PG4 A 301 13 HET PG4 A 302 13 HETNAM MSE SELENOMETHIONINE HETNAM PG4 TETRAETHYLENE GLYCOL FORMUL 1 MSE 8(C5 H11 N O2 SE) FORMUL 3 PG4 2(C8 H18 O5) FORMUL 5 HOH *27(H2 O) HELIX 1 AA1 THR A 31 GLN A 43 1 13 HELIX 2 AA2 ASP A 50 PHE A 61 1 12 HELIX 3 AA3 LEU A 87 GLY A 98 1 12 HELIX 4 AA4 PRO A 173 HIS A 180 1 8 HELIX 5 AA5 ASP A 183 LYS A 192 1 10 HELIX 6 AA6 ASP D 220 GLY D 232 1 13 HELIX 7 AA7 GLN D 233 ASN D 243 1 11 HELIX 8 AA8 THR D 256 MET D 264 1 9 HELIX 9 AA9 HIS D 266 THR D 276 1 11 HELIX 10 AB1 THR D 289 TRP D 297 1 9 HELIX 11 AB2 HIS D 299 HIS D 309 1 11 HELIX 12 AB3 THR D 322 PHE D 330 1 9 HELIX 13 AB4 ASN D 332 LEU D 345 1 14 SHEET 1 AA1 6 ARG A 80 GLY A 84 0 SHEET 2 AA1 6 PHE A 62 THR A 71 -1 N LEU A 68 O ILE A 83 SHEET 3 AA1 6 ILE A 158 LEU A 171 1 O TRP A 161 N THR A 69 SHEET 4 AA1 6 GLN A 139 MSE A 151 -1 N GLN A 139 O LEU A 171 SHEET 5 AA1 6 PHE A 118 HIS A 132 -1 N CYS A 123 O LEU A 146 SHEET 6 AA1 6 ALA A 100 LEU A 107 -1 N VAL A 106 O THR A 127 SHEET 1 AA2 6 ARG A 80 GLY A 84 0 SHEET 2 AA2 6 PHE A 62 THR A 71 -1 N LEU A 68 O ILE A 83 SHEET 3 AA2 6 ILE A 158 LEU A 171 1 O TRP A 161 N THR A 69 SHEET 4 AA2 6 GLN A 139 MSE A 151 -1 N GLN A 139 O LEU A 171 SHEET 5 AA2 6 PHE A 118 HIS A 132 -1 N CYS A 123 O LEU A 146 SHEET 6 AA2 6 LYS A 111 PHE A 114 -1 N SER A 113 O SER A 120 LINK C ALA A 66 N AMSE A 67 1555 1555 1.34 LINK C ALA A 66 N BMSE A 67 1555 1555 1.34 LINK C AMSE A 67 N LEU A 68 1555 1555 1.33 LINK C BMSE A 67 N LEU A 68 1555 1555 1.33 LINK C THR A 127 N MSE A 128 1555 1555 1.33 LINK C MSE A 128 N VAL A 129 1555 1555 1.34 LINK C PRO A 135 N MSE A 136 1555 1555 1.34 LINK C MSE A 136 N PHE A 137 1555 1555 1.34 LINK C PHE A 150 N MSE A 151 1555 1555 1.34 LINK C MSE A 151 N PHE A 152 1555 1555 1.34 LINK C ASP A 154 N MSE A 155 1555 1555 1.35 LINK C MSE A 155 N MSE A 156 1555 1555 1.34 LINK C MSE A 156 N ARG A 157 1555 1555 1.34 LINK C ALA A 178 N MSE A 179 1555 1555 1.34 LINK C MSE A 179 N HIS A 180 1555 1555 1.34 LINK C GLN A 185 N MSE A 186 1555 1555 1.33 LINK C MSE A 186 N LEU A 187 1555 1555 1.34 CISPEP 1 LYS A 134 PRO A 135 0 1.95 SITE 1 AC1 4 PHE A 36 ASN A 39 TYR A 104 HOH A 405 SITE 1 AC2 7 THR A 69 ARG A 145 TYR A 147 THR A 160 SITE 2 AC2 7 HIS A 162 SER A 164 ASP D 279 CRYST1 70.217 70.217 122.257 90.00 90.00 120.00 P 32 2 1 6 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 0.014242 0.008222 0.000000 0.00000 SCALE2 0.000000 0.016445 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008179 0.00000