HEADER HYDROLASE 09-JAN-21 7LBV TITLE CRYSTAL STRUCTURE OF THE PROPIONIBACTERIUM ACNES SURFACE SIALIDASE IN TITLE 2 COMPLEX WITH NEU5AC2EN COMPND MOL_ID: 1; COMPND 2 MOLECULE: EXO-ALPHA-SIALIDASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: SIALIDASE; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CUTIBACTERIUM ACNES; SOURCE 3 ORGANISM_COMMON: PROPIONIBACTERIUM ACNES; SOURCE 4 ORGANISM_TAXID: 1747; SOURCE 5 GENE: B1B09_09755, FD518_10685; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS ACNE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR A.C.Y.YU,G.VOLKERS,N.C.J.STRYNADKA REVDAT 3 18-OCT-23 7LBV 1 REMARK REVDAT 2 30-MAR-22 7LBV 1 JRNL REVDAT 1 08-DEC-21 7LBV 0 JRNL AUTH A.C.Y.YU,G.VOLKERS,S.A.K.JONGKEES,L.J.WORRALL,S.G.WITHERS, JRNL AUTH 2 N.C.J.STRYNADKA JRNL TITL CRYSTAL STRUCTURE OF THE PROPIONIBACTERIUM ACNES SURFACE JRNL TITL 2 SIALIDASE, A DRUG TARGET FOR P. ACNES-ASSOCIATED DISEASES. JRNL REF GLYCOBIOLOGY V. 32 162 2022 JRNL REFN ESSN 1460-2423 JRNL PMID 34792586 JRNL DOI 10.1093/GLYCOB/CWAB094 REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 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) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.44 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 92.8 REMARK 3 NUMBER OF REFLECTIONS : 33635 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) : 0.153 REMARK 3 R VALUE (WORKING SET) : 0.152 REMARK 3 FREE R VALUE : 0.182 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1796 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) : 1.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.74 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2237 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 82.26 REMARK 3 BIN R VALUE (WORKING SET) : 0.1790 REMARK 3 BIN FREE R VALUE SET COUNT : 104 REMARK 3 BIN FREE R VALUE : 0.2560 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2895 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 25 REMARK 3 SOLVENT ATOMS : 302 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.48 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.49000 REMARK 3 B22 (A**2) : 1.07000 REMARK 3 B33 (A**2) : -0.04000 REMARK 3 B12 (A**2) : 0.29000 REMARK 3 B13 (A**2) : 0.05000 REMARK 3 B23 (A**2) : 0.56000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.107 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.100 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.062 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.543 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.968 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.956 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3042 ; 0.021 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4165 ; 2.047 ; 1.948 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 395 ; 7.483 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 142 ;36.071 ;22.606 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 458 ;11.421 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 34 ;16.127 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 461 ; 0.154 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2391 ; 0.013 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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 : 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 81 A 101 REMARK 3 ORIGIN FOR THE GROUP (A): -19.3220 -17.8640 6.3480 REMARK 3 T TENSOR REMARK 3 T11: 0.1182 T22: 0.0079 REMARK 3 T33: 0.1977 T12: 0.0174 REMARK 3 T13: -0.0402 T23: -0.0262 REMARK 3 L TENSOR REMARK 3 L11: 0.8498 L22: 0.4954 REMARK 3 L33: 0.4040 L12: -0.2074 REMARK 3 L13: 0.5092 L23: 0.0319 REMARK 3 S TENSOR REMARK 3 S11: 0.0899 S12: 0.0099 S13: -0.2140 REMARK 3 S21: 0.0206 S22: -0.0147 S23: 0.0535 REMARK 3 S31: 0.1121 S32: 0.0009 S33: -0.0752 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 102 A 162 REMARK 3 ORIGIN FOR THE GROUP (A): -20.4560 -6.7700 22.8000 REMARK 3 T TENSOR REMARK 3 T11: 0.1220 T22: 0.0264 REMARK 3 T33: 0.1452 T12: 0.0078 REMARK 3 T13: -0.0059 T23: -0.0109 REMARK 3 L TENSOR REMARK 3 L11: 0.0176 L22: 0.2248 REMARK 3 L33: 0.1707 L12: -0.0401 REMARK 3 L13: 0.0449 L23: -0.1860 REMARK 3 S TENSOR REMARK 3 S11: 0.0101 S12: -0.0088 S13: -0.0299 REMARK 3 S21: 0.0574 S22: 0.0271 S23: 0.0084 REMARK 3 S31: -0.0128 S32: -0.0193 S33: -0.0371 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 163 A 171 REMARK 3 ORIGIN FOR THE GROUP (A): -16.9670 -14.3750 23.0010 REMARK 3 T TENSOR REMARK 3 T11: 0.1421 T22: 0.0022 REMARK 3 T33: 0.1470 T12: -0.0015 REMARK 3 T13: 0.0019 T23: -0.0052 REMARK 3 L TENSOR REMARK 3 L11: 0.4404 L22: 2.7039 REMARK 3 L33: 1.4180 L12: -0.1669 REMARK 3 L13: 0.5372 L23: 1.2150 REMARK 3 S TENSOR REMARK 3 S11: 0.0668 S12: -0.0203 S13: -0.0523 REMARK 3 S21: 0.0887 S22: -0.0383 S23: 0.0862 REMARK 3 S31: 0.1306 S32: -0.0510 S33: -0.0285 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 172 A 195 REMARK 3 ORIGIN FOR THE GROUP (A): -9.4300 0.7370 20.9830 REMARK 3 T TENSOR REMARK 3 T11: 0.1355 T22: 0.0248 REMARK 3 T33: 0.1482 T12: 0.0119 REMARK 3 T13: -0.0145 T23: -0.0263 REMARK 3 L TENSOR REMARK 3 L11: 0.1100 L22: 0.4031 REMARK 3 L33: 0.7549 L12: -0.1677 REMARK 3 L13: -0.2250 L23: 0.4089 REMARK 3 S TENSOR REMARK 3 S11: -0.0031 S12: -0.0184 S13: -0.0432 REMARK 3 S21: 0.0231 S22: 0.0396 S23: -0.0547 REMARK 3 S31: -0.0331 S32: 0.0726 S33: -0.0365 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 196 A 211 REMARK 3 ORIGIN FOR THE GROUP (A): -10.1040 6.3280 18.9180 REMARK 3 T TENSOR REMARK 3 T11: 0.1506 T22: 0.0314 REMARK 3 T33: 0.1397 T12: 0.0088 REMARK 3 T13: -0.0232 T23: -0.0266 REMARK 3 L TENSOR REMARK 3 L11: 0.3183 L22: 0.3895 REMARK 3 L33: 0.6067 L12: 0.1247 REMARK 3 L13: 0.1329 L23: 0.4766 REMARK 3 S TENSOR REMARK 3 S11: -0.0261 S12: -0.0123 S13: -0.0046 REMARK 3 S21: 0.0003 S22: 0.0431 S23: -0.0345 REMARK 3 S31: -0.0388 S32: 0.0664 S33: -0.0171 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 212 A 254 REMARK 3 ORIGIN FOR THE GROUP (A): -4.7820 7.3390 16.7890 REMARK 3 T TENSOR REMARK 3 T11: 0.1215 T22: 0.0343 REMARK 3 T33: 0.1513 T12: 0.0020 REMARK 3 T13: -0.0137 T23: -0.0205 REMARK 3 L TENSOR REMARK 3 L11: 0.2971 L22: 0.2951 REMARK 3 L33: 0.1674 L12: -0.0548 REMARK 3 L13: 0.1257 L23: 0.0113 REMARK 3 S TENSOR REMARK 3 S11: -0.0158 S12: 0.0060 S13: 0.0176 REMARK 3 S21: 0.0719 S22: 0.0040 S23: -0.1127 REMARK 3 S31: -0.0315 S32: 0.0529 S33: 0.0119 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 255 A 308 REMARK 3 ORIGIN FOR THE GROUP (A): -10.3030 5.9270 4.5840 REMARK 3 T TENSOR REMARK 3 T11: 0.1123 T22: 0.0236 REMARK 3 T33: 0.1347 T12: 0.0080 REMARK 3 T13: 0.0018 T23: -0.0264 REMARK 3 L TENSOR REMARK 3 L11: 0.2139 L22: 0.5057 REMARK 3 L33: 0.1184 L12: -0.1093 REMARK 3 L13: 0.0176 L23: 0.1407 REMARK 3 S TENSOR REMARK 3 S11: 0.0130 S12: 0.0278 S13: 0.0111 REMARK 3 S21: 0.0007 S22: -0.0029 S23: -0.0232 REMARK 3 S31: -0.0134 S32: 0.0162 S33: -0.0100 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 309 A 334 REMARK 3 ORIGIN FOR THE GROUP (A): -21.8160 7.0850 2.7590 REMARK 3 T TENSOR REMARK 3 T11: 0.1210 T22: 0.0308 REMARK 3 T33: 0.1291 T12: 0.0249 REMARK 3 T13: 0.0005 T23: -0.0287 REMARK 3 L TENSOR REMARK 3 L11: 0.2919 L22: 0.4011 REMARK 3 L33: 0.2244 L12: -0.0900 REMARK 3 L13: -0.1983 L23: 0.2376 REMARK 3 S TENSOR REMARK 3 S11: 0.0080 S12: 0.0193 S13: -0.0181 REMARK 3 S21: -0.0159 S22: 0.0052 S23: 0.0091 REMARK 3 S31: -0.0236 S32: -0.0048 S33: -0.0132 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 335 A 374 REMARK 3 ORIGIN FOR THE GROUP (A): -23.6120 4.2680 0.2800 REMARK 3 T TENSOR REMARK 3 T11: 0.1008 T22: 0.0347 REMARK 3 T33: 0.1264 T12: 0.0229 REMARK 3 T13: -0.0099 T23: -0.0222 REMARK 3 L TENSOR REMARK 3 L11: 0.4249 L22: 0.2912 REMARK 3 L33: 0.3252 L12: -0.0748 REMARK 3 L13: -0.0883 L23: 0.0808 REMARK 3 S TENSOR REMARK 3 S11: 0.0307 S12: 0.0537 S13: 0.0140 REMARK 3 S21: -0.0230 S22: -0.0074 S23: 0.0436 REMARK 3 S31: -0.0149 S32: -0.0247 S33: -0.0233 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 : A 375 A 382 REMARK 3 ORIGIN FOR THE GROUP (A): -20.7330 -10.2310 -10.5520 REMARK 3 T TENSOR REMARK 3 T11: 0.1532 T22: 0.0737 REMARK 3 T33: 0.0892 T12: 0.0564 REMARK 3 T13: -0.0298 T23: -0.0468 REMARK 3 L TENSOR REMARK 3 L11: 4.0759 L22: 3.8575 REMARK 3 L33: 2.2073 L12: -1.2291 REMARK 3 L13: -1.1810 L23: 2.9062 REMARK 3 S TENSOR REMARK 3 S11: 0.0206 S12: 0.4101 S13: -0.0622 REMARK 3 S21: -0.1304 S22: -0.1174 S23: 0.1353 REMARK 3 S31: -0.0936 S32: -0.1087 S33: 0.0968 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 383 A 420 REMARK 3 ORIGIN FOR THE GROUP (A): -32.9490 -1.8180 5.0240 REMARK 3 T TENSOR REMARK 3 T11: 0.1123 T22: 0.0258 REMARK 3 T33: 0.1433 T12: 0.0206 REMARK 3 T13: -0.0191 T23: -0.0288 REMARK 3 L TENSOR REMARK 3 L11: 0.6042 L22: 0.0231 REMARK 3 L33: 0.4709 L12: 0.0534 REMARK 3 L13: -0.2131 L23: -0.0493 REMARK 3 S TENSOR REMARK 3 S11: 0.0085 S12: -0.0031 S13: -0.0665 REMARK 3 S21: -0.0323 S22: -0.0065 S23: 0.0264 REMARK 3 S31: -0.0384 S32: -0.0592 S33: -0.0020 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 421 A 460 REMARK 3 ORIGIN FOR THE GROUP (A): -28.0760 -10.6140 9.4700 REMARK 3 T TENSOR REMARK 3 T11: 0.1198 T22: 0.0090 REMARK 3 T33: 0.1854 T12: 0.0083 REMARK 3 T13: -0.0341 T23: -0.0125 REMARK 3 L TENSOR REMARK 3 L11: 0.8542 L22: 0.0250 REMARK 3 L33: 0.4120 L12: 0.1128 REMARK 3 L13: 0.0974 L23: -0.0398 REMARK 3 S TENSOR REMARK 3 S11: 0.0572 S12: -0.0289 S13: -0.1308 REMARK 3 S21: -0.0063 S22: 0.0073 S23: 0.0107 REMARK 3 S31: 0.0218 S32: -0.0026 S33: -0.0645 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH 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 USED IF PRESENT IN REMARK 3 THE INPUT U VALUES : WITH TLS ADDED REMARK 4 REMARK 4 7LBV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-JAN-21. REMARK 100 THE DEPOSITION ID IS D_1000254055. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-MAY-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 HF REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 345 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 33635 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.2 REMARK 200 DATA REDUNDANCY : 3.900 REMARK 200 R MERGE (I) : 0.04000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 20.1700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.76 REMARK 200 COMPLETENESS FOR SHELL (%) : 88.2 REMARK 200 DATA REDUNDANCY IN SHELL : 3.50 REMARK 200 R MERGE FOR SHELL (I) : 0.24000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.430 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: 1EUR REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 38.81 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.01 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 18% (W/V) POLYETHYLENE GLYCOL REMARK 280 MONOMETHYLETHER 2000, 100 MM HEPES, PH 6.8, VAPOR DIFFUSION, REMARK 280 TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 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 GLY A 27 REMARK 465 SER A 28 REMARK 465 HIS A 29 REMARK 465 MET A 30 REMARK 465 SER A 31 REMARK 465 GLY A 32 REMARK 465 ARG A 33 REMARK 465 ALA A 34 REMARK 465 PRO A 35 REMARK 465 ALA A 36 REMARK 465 PRO A 37 REMARK 465 VAL A 38 REMARK 465 ALA A 39 REMARK 465 ALA A 40 REMARK 465 THR A 41 REMARK 465 THR A 42 REMARK 465 GLN A 43 REMARK 465 PRO A 44 REMARK 465 LYS A 45 REMARK 465 LEU A 46 REMARK 465 VAL A 47 REMARK 465 THR A 48 REMARK 465 GLY A 49 REMARK 465 ASP A 50 REMARK 465 ILE A 51 REMARK 465 THR A 52 REMARK 465 SER A 53 REMARK 465 THR A 54 REMARK 465 ASP A 55 REMARK 465 GLN A 56 REMARK 465 SER A 57 REMARK 465 GLY A 58 REMARK 465 THR A 59 REMARK 465 ASN A 60 REMARK 465 LEU A 61 REMARK 465 PHE A 62 REMARK 465 PHE A 63 REMARK 465 GLY A 64 REMARK 465 LYS A 65 REMARK 465 LYS A 66 REMARK 465 ILE A 67 REMARK 465 VAL A 68 REMARK 465 ARG A 69 REMARK 465 ASN A 70 REMARK 465 ALA A 71 REMARK 465 ARG A 72 REMARK 465 GLY A 73 REMARK 465 ALA A 74 REMARK 465 ILE A 75 REMARK 465 MET A 76 REMARK 465 LYS A 77 REMARK 465 VAL A 78 REMARK 465 ASP A 79 REMARK 465 ARG A 80 REMARK 465 PRO A 461 REMARK 465 SER A 462 REMARK 465 GLY A 463 REMARK 465 ARG A 464 REMARK 465 PRO A 465 REMARK 465 THR A 466 REMARK 465 SER A 467 REMARK 465 GLY A 468 REMARK 465 LYS A 469 REMARK 465 PRO A 470 REMARK 465 THR A 471 REMARK 465 SER A 472 REMARK 465 GLY A 473 REMARK 465 THR A 474 REMARK 465 SER A 475 REMARK 465 LEU A 476 REMARK 465 PRO A 477 REMARK 465 PRO A 478 REMARK 465 THR A 479 REMARK 465 ALA A 480 REMARK 465 THR A 481 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 N THR A 81 O HOH A 701 2.10 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 TRP A 238 CE2 TRP A 238 CD2 0.075 REMARK 500 HIS A 413 CG HIS A 413 CD2 0.073 REMARK 500 TRP A 438 CE2 TRP A 438 CD2 0.079 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ARG A 159 NE - CZ - NH1 ANGL. DEV. = 5.6 DEGREES REMARK 500 ARG A 159 NE - CZ - NH2 ANGL. DEV. = -5.1 DEGREES REMARK 500 ASP A 242 CB - CG - OD2 ANGL. DEV. = 5.6 DEGREES REMARK 500 ASP A 250 CB - CG - OD1 ANGL. DEV. = 5.8 DEGREES REMARK 500 MET A 279 CG - SD - CE ANGL. DEV. = 11.3 DEGREES REMARK 500 TYR A 293 CB - CG - CD2 ANGL. DEV. = -3.8 DEGREES REMARK 500 ARG A 309 NE - CZ - NH2 ANGL. DEV. = -3.8 DEGREES REMARK 500 ASP A 321 CB - CG - OD1 ANGL. DEV. = 5.5 DEGREES REMARK 500 ARG A 337 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ILE A 122 81.28 80.93 REMARK 500 ALA A 144 42.45 -85.60 REMARK 500 ASP A 160 40.25 -142.17 REMARK 500 ASP A 185 79.00 72.55 REMARK 500 TYR A 205 -94.63 -115.51 REMARK 500 ASP A 312 -160.25 -162.07 REMARK 500 THR A 362 76.93 75.71 REMARK 500 THR A 393 -16.88 -143.26 REMARK 500 ASN A 397 71.69 68.67 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 A1002 DISTANCE = 6.13 ANGSTROMS REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 7LBU RELATED DB: PDB REMARK 900 7LBU CONTAINS THE SAME PROTEIN WITHOUT NEU5AC2EN DBREF1 7LBV A 31 481 UNP A0A2B7IY20_CUTAC DBREF2 7LBV A A0A2B7IY20 31 481 SEQADV 7LBV GLY A 27 UNP A0A2B7IY2 EXPRESSION TAG SEQADV 7LBV SER A 28 UNP A0A2B7IY2 EXPRESSION TAG SEQADV 7LBV HIS A 29 UNP A0A2B7IY2 EXPRESSION TAG SEQADV 7LBV MET A 30 UNP A0A2B7IY2 EXPRESSION TAG SEQRES 1 A 455 GLY SER HIS MET SER GLY ARG ALA PRO ALA PRO VAL ALA SEQRES 2 A 455 ALA THR THR GLN PRO LYS LEU VAL THR GLY ASP ILE THR SEQRES 3 A 455 SER THR ASP GLN SER GLY THR ASN LEU PHE PHE GLY LYS SEQRES 4 A 455 LYS ILE VAL ARG ASN ALA ARG GLY ALA ILE MET LYS VAL SEQRES 5 A 455 ASP ARG THR TRP PRO ALA ALA VAL PRO ALA PRO LEU PRO SEQRES 6 A 455 ASP VAL ARG ALA ASP SER SER THR ARG MET LEU LEU GLY SEQRES 7 A 455 PRO VAL VAL ASP LEU ALA VAL ASN GLU HIS PRO GLU GLY SEQRES 8 A 455 VAL PHE TYR ARG ILE PRO ALA LEU ALA THR ALA SER ASN SEQRES 9 A 455 GLY ASP LEU LEU ALA SER TYR ASP LEU ARG PRO GLY SER SEQRES 10 A 455 ALA GLY ASP ALA PRO ASN PRO ASN SER ILE VAL GLN ARG SEQRES 11 A 455 ARG SER ARG ASP ASN GLY ARG THR TRP GLY PRO GLN THR SEQRES 12 A 455 VAL ILE HIS ALA GLY THR PRO GLY ARG ARG LYS VAL GLY SEQRES 13 A 455 TYR SER ASP PRO SER TYR LEU VAL ASP PRO ALA THR GLY SEQRES 14 A 455 ARG ILE LEU ASN PHE HIS VAL LYS SER TYR ASP ARG GLY SEQRES 15 A 455 PHE ALA THR SER GLU VAL GLY THR ASP PRO ASP ASP ARG SEQRES 16 A 455 HIS VAL LEU HIS ALA GLU VAL SER THR SER THR ASP ASN SEQRES 17 A 455 GLY HIS THR TRP THR HIS ARG ASP ILE THR ARG GLU ILE SEQRES 18 A 455 THR SER ASP PRO THR THR ARG THR ARG PHE VAL ALA SER SEQRES 19 A 455 GLY GLN GLY ILE ALA LEU LEU HIS GLY PRO HIS ALA GLY SEQRES 20 A 455 ARG LEU ILE ALA GLN MET THR VAL ARG ASN SER VAL GLY SEQRES 21 A 455 GLN GLN ALA GLN SER ILE TYR SER ASP ASP HIS GLY ILE SEQRES 22 A 455 THR TRP HIS ALA GLY ASN PRO VAL GLY ARG MET MET ASP SEQRES 23 A 455 GLU ASN LYS VAL VAL GLU LEU SER ASP GLY THR LEU MET SEQRES 24 A 455 LEU ASN SER ARG ASP ALA ALA ARG SER GLY ARG ARG LYS SEQRES 25 A 455 VAL ALA TYR SER GLN ASP GLY GLY LEU THR TRP GLY PRO SEQRES 26 A 455 VAL LYS LEU VAL ASP ASP LEU ILE ASP PRO THR ASN ASN SEQRES 27 A 455 ALA GLN ILE ILE ARG ALA TYR PRO ASN ALA ARG ALA GLY SEQRES 28 A 455 SER ALA LYS ALA ARG ILE LEU LEU PHE THR ASN ALA ARG SEQRES 29 A 455 ASN ALA THR GLU ARG VAL ASN GLY THR LEU SER VAL SER SEQRES 30 A 455 CYS ASP ASP GLY ARG THR TRP VAL SER HIS GLN THR TYR SEQRES 31 A 455 MET PRO GLY GLU VAL GLY TYR THR THR ALA ALA VAL GLN SEQRES 32 A 455 SER ASP GLY ALA LEU GLY VAL LEU TRP GLU ARG ASP GLY SEQRES 33 A 455 ILE ARG TYR SER THR ILE PRO MET GLY TRP LEU ASN SER SEQRES 34 A 455 VAL CYS PRO LEU ALA PRO SER GLY ARG PRO THR SER GLY SEQRES 35 A 455 LYS PRO THR SER GLY THR SER LEU PRO PRO THR ALA THR HET DAN A 601 20 HET PO4 A 602 5 HETNAM DAN 2-DEOXY-2,3-DEHYDRO-N-ACETYL-NEURAMINIC ACID HETNAM PO4 PHOSPHATE ION HETSYN DAN NEU5AC2EN FORMUL 2 DAN C11 H17 N O8 FORMUL 3 PO4 O4 P 3- FORMUL 4 HOH *302(H2 O) HELIX 1 AA1 ALA A 379 ARG A 382 5 4 HELIX 2 AA2 TRP A 452 CYS A 457 1 6 SHEET 1 AA1 4 VAL A 107 VAL A 111 0 SHEET 2 AA1 4 GLY A 442 ILE A 448 -1 O TYR A 445 N VAL A 107 SHEET 3 AA1 4 LEU A 434 GLU A 439 -1 N VAL A 436 O SER A 446 SHEET 4 AA1 4 THR A 425 VAL A 428 -1 N ALA A 427 O GLY A 435 SHEET 1 AA2 4 VAL A 118 THR A 127 0 SHEET 2 AA2 4 LEU A 133 PRO A 141 -1 O ARG A 140 N PHE A 119 SHEET 3 AA2 4 SER A 152 SER A 158 -1 O SER A 158 N LEU A 133 SHEET 4 AA2 4 THR A 169 HIS A 172 -1 O ILE A 171 N ILE A 153 SHEET 1 AA3 5 THR A 239 ASP A 242 0 SHEET 2 AA3 5 HIS A 225 SER A 231 -1 N THR A 230 O THR A 239 SHEET 3 AA3 5 ILE A 197 SER A 204 -1 N ILE A 197 O SER A 231 SHEET 4 AA3 5 GLY A 182 VAL A 190 -1 N SER A 184 O VAL A 202 SHEET 5 AA3 5 GLY A 261 GLN A 262 1 O GLY A 261 N TYR A 188 SHEET 1 AA4 3 THR A 255 VAL A 258 0 SHEET 2 AA4 3 LEU A 275 ARG A 282 -1 O THR A 280 N PHE A 257 SHEET 3 AA4 3 ILE A 264 ALA A 265 -1 N ILE A 264 O ILE A 276 SHEET 1 AA5 4 THR A 255 VAL A 258 0 SHEET 2 AA5 4 LEU A 275 ARG A 282 -1 O THR A 280 N PHE A 257 SHEET 3 AA5 4 GLN A 287 SER A 294 -1 O GLN A 290 N MET A 279 SHEET 4 AA5 4 HIS A 302 ALA A 303 -1 O HIS A 302 N TYR A 293 SHEET 1 AA6 4 MET A 311 GLU A 318 0 SHEET 2 AA6 4 LEU A 324 ASP A 330 -1 O ARG A 329 N GLU A 313 SHEET 3 AA6 4 ARG A 336 SER A 342 -1 O LYS A 338 N SER A 328 SHEET 4 AA6 4 LYS A 353 ILE A 359 -1 O VAL A 355 N ARG A 337 SHEET 1 AA7 4 GLN A 366 ARG A 369 0 SHEET 2 AA7 4 LEU A 384 ALA A 389 -1 O LEU A 385 N ILE A 368 SHEET 3 AA7 4 VAL A 396 SER A 403 -1 O SER A 401 N PHE A 386 SHEET 4 AA7 4 SER A 412 GLU A 420 -1 O GLN A 414 N LEU A 400 SSBOND 1 CYS A 404 CYS A 457 1555 1555 1.99 CISPEP 1 HIS A 114 PRO A 115 0 0.32 CISPEP 2 HIS A 114 PRO A 115 0 0.94 CISPEP 3 ALA A 147 PRO A 148 0 6.92 CRYST1 43.978 46.650 49.659 116.93 99.10 91.73 P 1 1 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 0.022739 0.000686 0.004468 0.00000 SCALE2 0.000000 0.021446 0.011223 0.00000 SCALE3 0.000000 0.000000 0.023018 0.00000