HEADER SUGAR BINDING PROTEIN 02-JUL-21 7P1M TITLE GALECTIN-8 N-TERMINAL CARBOHYDRATE RECOGNITION DOMAIN IN COMPLEX WITH TITLE 2 BENZIMIDAZOLE D-GALACTAL LIGAND COMPND MOL_ID: 1; COMPND 2 MOLECULE: GALECTIN-8; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: GAL-8,PO66 CARBOHYDRATE-BINDING PROTEIN,PO66-CBP,PROSTATE COMPND 5 CARCINOMA TUMOR ANTIGEN 1,PCTA-1; 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: LGALS8; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS INHIBITOR, COMPLEX, GALECTIN, LECTIN, D-GALACTAL, SUGAR BINDING KEYWDS 2 PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR M.HASSAN,M.HAKANSSON,J.U.NILSSON,R.KOVACIC REVDAT 3 31-JAN-24 7P1M 1 REMARK REVDAT 2 22-DEC-21 7P1M 1 KEYWDS REVDAT 1 15-DEC-21 7P1M 0 JRNL AUTH M.HASSAN,F.BAUSSIERE,S.GUZELJ,A.P.SUNDIN,M.HAKANSSON, JRNL AUTH 2 R.KOVACIC,H.LEFFLER,T.TOMASIC,M.ANDERLUH,Z.JAKOPIN, JRNL AUTH 3 U.J.NILSSON JRNL TITL STRUCTURE-GUIDED DESIGN OF D-GALACTAL DERIVATIVES WITH HIGH JRNL TITL 2 AFFINITY AND SELECTIVITY FOR THE GALECTIN-8 N-TERMINAL JRNL TITL 3 DOMAIN. JRNL REF ACS MED.CHEM.LETT. V. 12 1745 2021 JRNL REFN ISSN 1948-5875 JRNL PMID 34795863 JRNL DOI 10.1021/ACSMEDCHEMLETT.1C00371 REMARK 2 REMARK 2 RESOLUTION. 1.52 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0258 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) : 1.52 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.91 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 42412 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) : 0.148 REMARK 3 R VALUE (WORKING SET) : 0.145 REMARK 3 FREE R VALUE : 0.207 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 2175 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) : 1.52 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.56 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3108 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.97 REMARK 3 BIN R VALUE (WORKING SET) : 0.3190 REMARK 3 BIN FREE R VALUE SET COUNT : 163 REMARK 3 BIN FREE R VALUE : 0.3330 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2386 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 49 REMARK 3 SOLVENT ATOMS : 283 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 31.96 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.31000 REMARK 3 B22 (A**2) : 5.07000 REMARK 3 B33 (A**2) : -3.76000 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): 0.091 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.083 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.094 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.574 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.981 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.962 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2599 ; 0.013 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 2420 ; 0.005 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3532 ; 1.756 ; 1.672 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5626 ; 1.398 ; 1.597 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 318 ; 7.280 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 142 ;30.521 ;21.831 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 445 ;13.286 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 19 ;18.615 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 340 ; 0.076 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2921 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 570 ; 0.003 ; 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): 1239 ; 3.574 ; 2.106 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1240 ; 3.573 ; 2.106 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1560 ; 4.427 ; 3.166 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1560 ; 4.428 ; 3.167 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1360 ; 4.271 ; 2.486 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1360 ; 4.271 ; 2.486 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1969 ; 5.086 ; 3.584 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 2802 ; 5.867 ;25.613 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 2735 ; 5.689 ;24.998 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 5019 ; 4.305 ; 3.000 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 14 160 B 14 160 4590 0.12 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 7 A 156 REMARK 3 ORIGIN FOR THE GROUP (A): 15.3420 -0.0820 -1.5883 REMARK 3 T TENSOR REMARK 3 T11: 0.0953 T22: 0.0143 REMARK 3 T33: 0.1012 T12: -0.0340 REMARK 3 T13: -0.0267 T23: 0.0079 REMARK 3 L TENSOR REMARK 3 L11: 1.6224 L22: 1.8225 REMARK 3 L33: 0.8798 L12: -0.1684 REMARK 3 L13: -0.3312 L23: 0.0610 REMARK 3 S TENSOR REMARK 3 S11: 0.0476 S12: 0.0337 S13: 0.0524 REMARK 3 S21: 0.2065 S22: -0.1048 S23: -0.0384 REMARK 3 S31: 0.0769 S32: -0.0454 S33: 0.0572 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 6 B 154 REMARK 3 ORIGIN FOR THE GROUP (A): 41.4800 2.0748 -20.9326 REMARK 3 T TENSOR REMARK 3 T11: 0.0856 T22: 0.0179 REMARK 3 T33: 0.0802 T12: 0.0055 REMARK 3 T13: -0.0035 T23: 0.0115 REMARK 3 L TENSOR REMARK 3 L11: 1.2902 L22: 1.3067 REMARK 3 L33: 1.5585 L12: 0.2126 REMARK 3 L13: -0.7516 L23: -0.1064 REMARK 3 S TENSOR REMARK 3 S11: -0.0435 S12: 0.1407 S13: 0.0352 REMARK 3 S21: -0.2294 S22: 0.0172 S23: 0.0545 REMARK 3 S31: 0.0985 S32: -0.0568 S33: 0.0263 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 301 A 436 REMARK 3 ORIGIN FOR THE GROUP (A): 28.5919 -0.5621 -10.8886 REMARK 3 T TENSOR REMARK 3 T11: 0.0819 T22: 0.0091 REMARK 3 T33: 0.1026 T12: 0.0067 REMARK 3 T13: -0.0375 T23: 0.0039 REMARK 3 L TENSOR REMARK 3 L11: 1.0293 L22: 0.4862 REMARK 3 L33: 0.8091 L12: 0.2644 REMARK 3 L13: -0.5463 L23: -0.0480 REMARK 3 S TENSOR REMARK 3 S11: 0.0204 S12: 0.0752 S13: 0.0107 REMARK 3 S21: -0.0284 S22: -0.0182 S23: -0.0105 REMARK 3 S31: 0.0943 S32: -0.0374 S33: -0.0022 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 201 A 201 REMARK 3 ORIGIN FOR THE GROUP (A): 31.3890 -5.5340 -7.3160 REMARK 3 T TENSOR REMARK 3 T11: 0.1128 T22: 0.0118 REMARK 3 T33: 0.2319 T12: -0.0169 REMARK 3 T13: -0.0415 T23: 0.0512 REMARK 3 L TENSOR REMARK 3 L11: 0.0000 L22: 0.0000 REMARK 3 L33: 0.0000 L12: 0.0000 REMARK 3 L13: 0.0000 L23: 0.0000 REMARK 3 S TENSOR REMARK 3 S11: 0.0000 S12: 0.0000 S13: 0.0000 REMARK 3 S21: 0.0000 S22: 0.0000 S23: 0.0000 REMARK 3 S31: 0.0000 S32: 0.0000 S33: -0.0000 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 7 A 156 REMARK 3 ORIGIN FOR THE GROUP (A): 0.0000 0.0000 0.0000 REMARK 3 T TENSOR REMARK 3 T11: 0.0974 T22: 0.0974 REMARK 3 T33: 0.0974 T12: 0.0000 REMARK 3 T13: 0.0000 T23: 0.0000 REMARK 3 L TENSOR REMARK 3 L11: 0.0000 L22: 0.0000 REMARK 3 L33: 0.0000 L12: 0.0000 REMARK 3 L13: 0.0000 L23: 0.0000 REMARK 3 S TENSOR REMARK 3 S11: 0.0000 S12: 0.0000 S13: 0.0000 REMARK 3 S21: 0.0000 S22: 0.0000 S23: 0.0000 REMARK 3 S31: 0.0000 S32: 0.0000 S33: -0.0000 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 6 B 154 REMARK 3 ORIGIN FOR THE GROUP (A): 0.0000 0.0000 0.0000 REMARK 3 T TENSOR REMARK 3 T11: 0.0974 T22: 0.0974 REMARK 3 T33: 0.0974 T12: 0.0000 REMARK 3 T13: 0.0000 T23: 0.0000 REMARK 3 L TENSOR REMARK 3 L11: 0.0000 L22: 0.0000 REMARK 3 L33: 0.0000 L12: 0.0000 REMARK 3 L13: 0.0000 L23: 0.0000 REMARK 3 S TENSOR REMARK 3 S11: 0.0000 S12: 0.0000 S13: 0.0000 REMARK 3 S21: 0.0000 S22: 0.0000 S23: 0.0000 REMARK 3 S31: 0.0000 S32: 0.0000 S33: -0.0000 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 : A 301 A 436 REMARK 3 ORIGIN FOR THE GROUP (A): 0.0000 0.0000 0.0000 REMARK 3 T TENSOR REMARK 3 T11: 0.0974 T22: 0.0974 REMARK 3 T33: 0.0974 T12: 0.0000 REMARK 3 T13: 0.0000 T23: 0.0000 REMARK 3 L TENSOR REMARK 3 L11: 0.0000 L22: 0.0000 REMARK 3 L33: 0.0000 L12: 0.0000 REMARK 3 L13: 0.0000 L23: 0.0000 REMARK 3 S TENSOR REMARK 3 S11: 0.0000 S12: 0.0000 S13: 0.0000 REMARK 3 S21: 0.0000 S22: 0.0000 S23: 0.0000 REMARK 3 S31: 0.0000 S32: 0.0000 S33: -0.0000 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 : A 201 A 201 REMARK 3 ORIGIN FOR THE GROUP (A): 0.0000 0.0000 0.0000 REMARK 3 T TENSOR REMARK 3 T11: 0.0974 T22: 0.0974 REMARK 3 T33: 0.0974 T12: 0.0000 REMARK 3 T13: 0.0000 T23: 0.0000 REMARK 3 L TENSOR REMARK 3 L11: 0.0000 L22: 0.0000 REMARK 3 L33: 0.0000 L12: 0.0000 REMARK 3 L13: 0.0000 L23: 0.0000 REMARK 3 S TENSOR REMARK 3 S11: 0.0000 S12: 0.0000 S13: 0.0000 REMARK 3 S21: 0.0000 S22: 0.0000 S23: 0.0000 REMARK 3 S31: 0.0000 S32: 0.0000 S33: -0.0000 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 : A 14 A 156 REMARK 3 ORIGIN FOR THE GROUP (A): 9.6509 -4.6438 8.3219 REMARK 3 T TENSOR REMARK 3 T11: 0.2403 T22: 0.0795 REMARK 3 T33: 0.1150 T12: -0.0184 REMARK 3 T13: 0.0414 T23: 0.0094 REMARK 3 L TENSOR REMARK 3 L11: 2.4276 L22: 2.3842 REMARK 3 L33: 6.1857 L12: -0.9355 REMARK 3 L13: 3.4401 L23: -2.9016 REMARK 3 S TENSOR REMARK 3 S11: 0.0693 S12: -0.2674 S13: -0.1115 REMARK 3 S21: 0.2413 S22: 0.0674 S23: 0.0614 REMARK 3 S31: 0.0067 S32: -0.3280 S33: -0.1367 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 13 B 154 REMARK 3 ORIGIN FOR THE GROUP (A): 38.7287 -7.8793 -27.7157 REMARK 3 T TENSOR REMARK 3 T11: 0.1434 T22: 0.0925 REMARK 3 T33: 0.0933 T12: -0.0137 REMARK 3 T13: -0.0030 T23: -0.0116 REMARK 3 L TENSOR REMARK 3 L11: 1.3416 L22: 0.5385 REMARK 3 L33: 1.3998 L12: -0.5706 REMARK 3 L13: 0.2002 L23: -0.1744 REMARK 3 S TENSOR REMARK 3 S11: 0.0132 S12: 0.1542 S13: 0.0316 REMARK 3 S21: -0.0957 S22: -0.0011 S23: -0.0051 REMARK 3 S31: 0.1421 S32: -0.1457 S33: -0.0122 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 : A 301 A 436 REMARK 3 ORIGIN FOR THE GROUP (A): 0.0000 0.0000 0.0000 REMARK 3 T TENSOR REMARK 3 T11: 0.0974 T22: 0.0974 REMARK 3 T33: 0.0974 T12: 0.0000 REMARK 3 T13: 0.0000 T23: 0.0000 REMARK 3 L TENSOR REMARK 3 L11: 0.0000 L22: 0.0000 REMARK 3 L33: 0.0000 L12: 0.0000 REMARK 3 L13: 0.0000 L23: 0.0000 REMARK 3 S TENSOR REMARK 3 S11: 0.0000 S12: 0.0000 S13: 0.0000 REMARK 3 S21: 0.0000 S22: 0.0000 S23: 0.0000 REMARK 3 S31: 0.0000 S32: 0.0000 S33: -0.0000 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 : A 201 A 201 REMARK 3 ORIGIN FOR THE GROUP (A): 0.0000 0.0000 0.0000 REMARK 3 T TENSOR REMARK 3 T11: 0.0974 T22: 0.0974 REMARK 3 T33: 0.0974 T12: 0.0000 REMARK 3 T13: 0.0000 T23: 0.0000 REMARK 3 L TENSOR REMARK 3 L11: 0.0000 L22: 0.0000 REMARK 3 L33: 0.0000 L12: 0.0000 REMARK 3 L13: 0.0000 L23: 0.0000 REMARK 3 S TENSOR REMARK 3 S11: 0.0000 S12: 0.0000 S13: 0.0000 REMARK 3 S21: 0.0000 S22: 0.0000 S23: 0.0000 REMARK 3 S31: 0.0000 S32: 0.0000 S33: -0.0000 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: NULL REMARK 4 REMARK 4 7P1M COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 02-JUL-21. REMARK 100 THE DEPOSITION ID IS D_1292116793. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-OCT-19 REMARK 200 TEMPERATURE (KELVIN) : 293.5 REMARK 200 PH : 8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I03 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97935 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 3108 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.520 REMARK 200 RESOLUTION RANGE LOW (A) : 49.910 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 6.600 REMARK 200 R MERGE (I) : 0.03900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 19.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.52 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.56 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 1.61000 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: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 5GZD REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 38.85 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.01 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: BUFFER (10MM TRIS/HCL PH 8.0, 150 MM REMARK 280 NACL, 10 MM LACTOSE AND 1 MM TCEP) MIXED WITH RESERVOIR 25% (W/V) REMARK 280 PEG 2000 MONOMETHYLETHYER (MME), A CRYO SOLUTION (10 MM TRIS/ REMARK 280 HCL PH 8.0, 50 MM NACL, 10 MM LACTOSE, 25% (W/V) PEG 2000 MME, REMARK 280 20% ETHYLENE GLYCOL (EG) AND 1 MM TCEP) AND FLASH-FROZEN IN REMARK 280 LIQUID NITROGEN. A CO-CRYSTAL WITH LACTOSE, GROWN FROM A SEEDED REMARK 280 DROP WITH 24% (W/V) PEG 2000 MME IN THE RESERVOIR, WAS USED TO REMARK 280 SOAK IN COMPOUND 1 BY TRANSFERRING CRYSTALS IN THREE STEPS TO REMARK 280 DIFFERENT SOAKING DROPS. FIRST TO A 2 UL DROP WITH GLYCEROL ( 20% REMARK 280 (V/V) GLYCEROL, 25% (W/V PEG 2000 MME, 10 MM TRIS/HCL PH 8.0, REMARK 280 50 MM NACL AND 1 MM TCEP) AND SECONDLY TO A 2 UL DROP WITH 10 MM REMARK 280 COMPOUND 1 (10 MM TRIS/HCL PH 8.0, 50 MM NACL, 5 MM COMPOUND 1, REMARK 280 25% (W/V) PEG 2000 MME AND 1 MM TCEP) AND THIRDLY TO A SECOND REMARK 280 DROP WITH 5 MM COMPOUND 1 (SAME COMPOSITION AS BEFORE)., LIQUID REMARK 280 DIFFUSION, TEMPERATURE 293.5K 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 27.18000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 42.29500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 30.91000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 42.29500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 27.18000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 30.91000 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: 1190 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14430 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -12.0 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 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 ASN A 6 REMARK 465 SER B 155 REMARK 465 ASP B 156 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 412 O HOH B 426 1.94 REMARK 500 O HOH B 394 O HOH B 414 1.99 REMARK 500 OE2 GLU B 104 O HOH B 301 2.05 REMARK 500 O HOH B 386 O HOH B 388 2.09 REMARK 500 O HOH A 398 O HOH A 400 2.17 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 NH2 ARG A 72 O HOH A 425 2555 2.14 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 ILE A 12 145.74 -175.13 REMARK 500 ILE A 12 145.74 -178.04 REMARK 500 ARG A 72 -135.13 55.30 REMARK 500 ARG B 72 -132.49 57.04 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 B 447 DISTANCE = 6.15 ANGSTROMS DBREF 7P1M A 6 156 UNP O00214 LEG8_HUMAN 6 156 DBREF 7P1M B 6 156 UNP O00214 LEG8_HUMAN 6 156 SEQRES 1 A 151 ASN ASN LEU GLN ASN ILE ILE TYR ASN PRO VAL ILE PRO SEQRES 2 A 151 PHE VAL GLY THR ILE PRO ASP GLN LEU ASP PRO GLY THR SEQRES 3 A 151 LEU ILE VAL ILE ARG GLY HIS VAL PRO SER ASP ALA ASP SEQRES 4 A 151 ARG PHE GLN VAL ASP LEU GLN ASN GLY SER SER MET LYS SEQRES 5 A 151 PRO ARG ALA ASP VAL ALA PHE HIS PHE ASN PRO ARG PHE SEQRES 6 A 151 LYS ARG ALA GLY CYS ILE VAL CYS ASN THR LEU ILE ASN SEQRES 7 A 151 GLU LYS TRP GLY ARG GLU GLU ILE THR TYR ASP THR PRO SEQRES 8 A 151 PHE LYS ARG GLU LYS SER PHE GLU ILE VAL ILE MET VAL SEQRES 9 A 151 LEU LYS ASP LYS PHE GLN VAL ALA VAL ASN GLY LYS HIS SEQRES 10 A 151 THR LEU LEU TYR GLY HIS ARG ILE GLY PRO GLU LYS ILE SEQRES 11 A 151 ASP THR LEU GLY ILE TYR GLY LYS VAL ASN ILE HIS SER SEQRES 12 A 151 ILE GLY PHE SER PHE SER SER ASP SEQRES 1 B 151 ASN ASN LEU GLN ASN ILE ILE TYR ASN PRO VAL ILE PRO SEQRES 2 B 151 PHE VAL GLY THR ILE PRO ASP GLN LEU ASP PRO GLY THR SEQRES 3 B 151 LEU ILE VAL ILE ARG GLY HIS VAL PRO SER ASP ALA ASP SEQRES 4 B 151 ARG PHE GLN VAL ASP LEU GLN ASN GLY SER SER MET LYS SEQRES 5 B 151 PRO ARG ALA ASP VAL ALA PHE HIS PHE ASN PRO ARG PHE SEQRES 6 B 151 LYS ARG ALA GLY CYS ILE VAL CYS ASN THR LEU ILE ASN SEQRES 7 B 151 GLU LYS TRP GLY ARG GLU GLU ILE THR TYR ASP THR PRO SEQRES 8 B 151 PHE LYS ARG GLU LYS SER PHE GLU ILE VAL ILE MET VAL SEQRES 9 B 151 LEU LYS ASP LYS PHE GLN VAL ALA VAL ASN GLY LYS HIS SEQRES 10 B 151 THR LEU LEU TYR GLY HIS ARG ILE GLY PRO GLU LYS ILE SEQRES 11 B 151 ASP THR LEU GLY ILE TYR GLY LYS VAL ASN ILE HIS SER SEQRES 12 B 151 ILE GLY PHE SER PHE SER SER ASP HET 4IU A 201 24 HET CL A 202 1 HET 4IU B 201 24 HETNAM 4IU 2-[[(2R,3R,4R)-2-(HYDROXYMETHYL)-3-OXIDANYL-3,4- HETNAM 2 4IU DIHYDRO-2H-PYRAN-4-YL]OXYMETHYL]-3-METHYL- HETNAM 3 4IU BENZIMIDAZOLE-5-CARBOXYLIC ACID HETNAM CL CHLORIDE ION FORMUL 3 4IU 2(C16 H18 N2 O6) FORMUL 4 CL CL 1- FORMUL 6 HOH *283(H2 O) HELIX 1 AA1 GLY A 131 ILE A 135 5 5 HELIX 2 AA2 GLY B 131 ILE B 135 5 5 SHEET 1 AA1 6 GLN A 9 TYR A 13 0 SHEET 2 AA1 6 ASN A 145 SER A 152 -1 O PHE A 151 N GLN A 9 SHEET 3 AA1 6 LEU A 32 HIS A 38 -1 N HIS A 38 O ASN A 145 SHEET 4 AA1 6 SER A 102 VAL A 109 -1 O ILE A 105 N ILE A 35 SHEET 5 AA1 6 LYS A 113 VAL A 118 -1 O GLN A 115 N MET A 108 SHEET 6 AA1 6 LYS A 121 GLY A 127 -1 O LEU A 124 N VAL A 116 SHEET 1 AA2 6 PHE A 19 THR A 22 0 SHEET 2 AA2 6 THR A 137 GLY A 142 -1 O LEU A 138 N GLY A 21 SHEET 3 AA2 6 PHE A 46 ASN A 52 -1 N ASP A 49 O GLY A 139 SHEET 4 AA2 6 ASP A 61 ARG A 69 -1 O PHE A 64 N LEU A 50 SHEET 5 AA2 6 CYS A 75 ILE A 82 -1 O CYS A 75 N ARG A 69 SHEET 6 AA2 6 LYS A 85 TRP A 86 -1 O LYS A 85 N ILE A 82 SHEET 1 AA3 6 PHE A 19 THR A 22 0 SHEET 2 AA3 6 THR A 137 GLY A 142 -1 O LEU A 138 N GLY A 21 SHEET 3 AA3 6 PHE A 46 ASN A 52 -1 N ASP A 49 O GLY A 139 SHEET 4 AA3 6 ASP A 61 ARG A 69 -1 O PHE A 64 N LEU A 50 SHEET 5 AA3 6 CYS A 75 ILE A 82 -1 O CYS A 75 N ARG A 69 SHEET 6 AA3 6 GLU A 90 THR A 92 -1 O GLU A 90 N CYS A 78 SHEET 1 AA4 6 GLN B 9 TYR B 13 0 SHEET 2 AA4 6 ASN B 145 SER B 152 -1 O PHE B 151 N GLN B 9 SHEET 3 AA4 6 LEU B 32 HIS B 38 -1 N VAL B 34 O GLY B 150 SHEET 4 AA4 6 SER B 102 VAL B 109 -1 O ILE B 105 N ILE B 35 SHEET 5 AA4 6 LYS B 113 VAL B 118 -1 O GLN B 115 N MET B 108 SHEET 6 AA4 6 LYS B 121 GLY B 127 -1 O LEU B 124 N VAL B 116 SHEET 1 AA5 6 PHE B 19 THR B 22 0 SHEET 2 AA5 6 THR B 137 GLY B 142 -1 O LEU B 138 N GLY B 21 SHEET 3 AA5 6 PHE B 46 GLN B 51 -1 N ASP B 49 O GLY B 139 SHEET 4 AA5 6 VAL B 62 ARG B 69 -1 O PHE B 64 N LEU B 50 SHEET 5 AA5 6 CYS B 75 ILE B 82 -1 O CYS B 75 N ARG B 69 SHEET 6 AA5 6 LYS B 85 TRP B 86 -1 O LYS B 85 N ILE B 82 SHEET 1 AA6 6 PHE B 19 THR B 22 0 SHEET 2 AA6 6 THR B 137 GLY B 142 -1 O LEU B 138 N GLY B 21 SHEET 3 AA6 6 PHE B 46 GLN B 51 -1 N ASP B 49 O GLY B 139 SHEET 4 AA6 6 VAL B 62 ARG B 69 -1 O PHE B 64 N LEU B 50 SHEET 5 AA6 6 CYS B 75 ILE B 82 -1 O CYS B 75 N ARG B 69 SHEET 6 AA6 6 GLU B 90 THR B 92 -1 O THR B 92 N ILE B 76 CISPEP 1 ILE A 17 PRO A 18 0 4.36 CISPEP 2 LYS A 57 PRO A 58 0 -1.02 CISPEP 3 ILE B 17 PRO B 18 0 2.02 CISPEP 4 LYS B 57 PRO B 58 0 -2.71 CRYST1 54.360 61.820 84.590 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 0.018396 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016176 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011822 0.00000