HEADER HYDROLASE 14-JUN-11 3ZR5 TITLE STRUCTURE OF GALACTOCEREBROSIDASE FROM MOUSE COMPND MOL_ID: 1; COMPND 2 MOLECULE: GALACTOCEREBROSIDASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 40-684; COMPND 5 SYNONYM: GALCERASE, GALACTOCEREBROSIDE BETA-GALACTOSIDASE, COMPND 6 GALACTOSYLCERAMIDASE, GALACTOSYLCERAMIDE BETA-GALACTOSIDASE; COMPND 7 EC: 3.2.1.46; COMPND 8 ENGINEERED: YES; COMPND 9 OTHER_DETAILS: FRAGMENT CORRESPONDS TO RESIDUES 25-668 BASED ON COMPND 10 NUMBERING STARTING AT SECOND UNIPROT INITIATION SITE SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 6 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 8 EXPRESSION_SYSTEM_CELL_LINE: HEK293; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PSECTAG2B KEYWDS HYDROLASE, GALC, GLYCOSYL HYDROLASE, KRABBE DISEASE, TIM BARREL, KEYWDS 2 LECTIN DOMAIN EXPDTA X-RAY DIFFRACTION AUTHOR J.E.DEANE,S.C.GRAHAM,N.N.KIM,P.E.STEIN,R.MCNAIR,M.B.CACHON-GONZALEZ, AUTHOR 2 T.M.COX,R.J.READ REVDAT 4 16-OCT-24 3ZR5 1 HETSYN REVDAT 3 29-JUL-20 3ZR5 1 COMPND REMARK HETNAM LINK REVDAT 3 2 1 SITE ATOM REVDAT 2 03-APR-19 3ZR5 1 SOURCE REVDAT 1 28-SEP-11 3ZR5 0 JRNL AUTH J.E.DEANE,S.C.GRAHAM,N.N.KIM,P.E.STEIN,R.MCNAIR, JRNL AUTH 2 M.B.CACHON-GONZALEZ,T.M.COX,R.J.READ JRNL TITL INSIGHTS INTO KRABBE DISEASE FROM STRUCTURES OF JRNL TITL 2 GALACTOCEREBROSIDASE. JRNL REF PROC.NATL.ACAD.SCI.USA V. 108 15169 2011 JRNL REFN ISSN 0027-8424 JRNL PMID 21876145 JRNL DOI 10.1073/PNAS.1105639108 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 63.18 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.880 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 53619 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.183 REMARK 3 R VALUE (WORKING SET) : 0.181 REMARK 3 FREE R VALUE : 0.214 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 5056 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 63.2108 - 6.5230 0.98 3310 164 0.1454 0.1767 REMARK 3 2 6.5230 - 5.1783 0.93 3134 167 0.1501 0.1613 REMARK 3 3 5.1783 - 4.5239 0.96 3200 167 0.1157 0.1351 REMARK 3 4 4.5239 - 4.1104 0.96 3222 147 0.1253 0.1517 REMARK 3 5 4.1104 - 3.8158 0.97 3217 209 0.1348 0.1947 REMARK 3 6 3.8158 - 3.5908 0.96 3218 179 0.1637 0.2100 REMARK 3 7 3.5908 - 3.4110 0.97 3249 133 0.1733 0.2080 REMARK 3 8 3.4110 - 3.2625 0.97 3251 192 0.1755 0.2007 REMARK 3 9 3.2625 - 3.1369 0.96 3207 170 0.1826 0.2278 REMARK 3 10 3.1369 - 3.0287 0.96 3275 149 0.1856 0.1964 REMARK 3 11 3.0287 - 2.9340 0.96 3208 165 0.1712 0.2016 REMARK 3 12 2.9340 - 2.8501 0.95 3223 151 0.1722 0.1896 REMARK 3 13 2.8501 - 2.7751 0.95 3140 181 0.1839 0.2495 REMARK 3 14 2.7751 - 2.7074 0.95 3179 182 0.1858 0.2214 REMARK 3 15 2.7074 - 2.6458 0.95 3180 185 0.1848 0.1960 REMARK 3 16 2.6458 - 2.5895 0.94 3135 158 0.1975 0.2167 REMARK 3 17 2.5895 - 2.5377 0.94 3153 172 0.2051 0.2615 REMARK 3 18 2.5377 - 2.4898 0.94 3131 177 0.2196 0.2453 REMARK 3 19 2.4898 - 2.4454 0.93 3096 173 0.2235 0.2815 REMARK 3 20 2.4454 - 2.4039 0.93 3089 196 0.2279 0.2714 REMARK 3 21 2.4039 - 2.3651 0.93 3071 178 0.2444 0.2831 REMARK 3 22 2.3651 - 2.3288 0.93 3162 187 0.2519 0.2872 REMARK 3 23 2.3288 - 2.2945 0.93 3068 164 0.2562 0.2696 REMARK 3 24 2.2945 - 2.2622 0.92 3115 165 0.2562 0.2901 REMARK 3 25 2.2622 - 2.2316 0.92 3019 194 0.2693 0.3121 REMARK 3 26 2.2316 - 2.2026 0.92 3140 164 0.2762 0.2888 REMARK 3 27 2.2026 - 2.1751 0.92 3075 133 0.2693 0.2608 REMARK 3 28 2.1751 - 2.1489 0.92 3071 130 0.2714 0.3003 REMARK 3 29 2.1489 - 2.1239 0.91 3064 140 0.2966 0.3034 REMARK 3 30 2.1239 - 2.1000 0.90 2983 184 0.3011 0.3309 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 REMARK 3 SHRINKAGE RADIUS : 0.83 REMARK 3 K_SOL : 0.33 REMARK 3 B_SOL : 31.58 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.610 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.440 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 27.18 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 33.07 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.91650 REMARK 3 B22 (A**2) : 0.91650 REMARK 3 B33 (A**2) : -1.83290 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 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.010 5435 REMARK 3 ANGLE : 1.245 7423 REMARK 3 CHIRALITY : 0.080 793 REMARK 3 PLANARITY : 0.006 934 REMARK 3 DIHEDRAL : 16.813 1920 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN A AND (RESSEQ 25:40 OR RESSEQ 338:452) REMARK 3 ORIGIN FOR THE GROUP (A): 90.3702 110.2297 1.4877 REMARK 3 T TENSOR REMARK 3 T11: 0.3967 T22: 0.4182 REMARK 3 T33: 0.2877 T12: -0.1915 REMARK 3 T13: 0.0887 T23: 0.0735 REMARK 3 L TENSOR REMARK 3 L11: 0.8845 L22: 0.1439 REMARK 3 L33: 0.3140 L12: -0.0738 REMARK 3 L13: -0.2284 L23: 0.0874 REMARK 3 S TENSOR REMARK 3 S11: 0.0292 S12: 0.1410 S13: 0.1817 REMARK 3 S21: -0.1451 S22: -0.0641 S23: -0.2201 REMARK 3 S31: -0.1114 S32: 0.1290 S33: 0.0269 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN A AND RESSEQ 41:337 REMARK 3 ORIGIN FOR THE GROUP (A): 74.6559 99.4339 22.4809 REMARK 3 T TENSOR REMARK 3 T11: 0.1625 T22: 0.2191 REMARK 3 T33: 0.1191 T12: -0.1071 REMARK 3 T13: 0.0090 T23: 0.0068 REMARK 3 L TENSOR REMARK 3 L11: 0.4244 L22: 0.3259 REMARK 3 L33: 0.3048 L12: 0.0289 REMARK 3 L13: 0.0527 L23: -0.0230 REMARK 3 S TENSOR REMARK 3 S11: 0.0163 S12: 0.0169 S13: 0.0323 REMARK 3 S21: -0.0152 S22: -0.0076 S23: -0.0521 REMARK 3 S31: -0.1430 S32: 0.1813 S33: -0.0037 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN A AND RESSEQ 453:471 REMARK 3 ORIGIN FOR THE GROUP (A): 98.4339 105.1553 27.2285 REMARK 3 T TENSOR REMARK 3 T11: 0.2858 T22: 0.4571 REMARK 3 T33: 0.3390 T12: -0.2011 REMARK 3 T13: 0.0056 T23: 0.0471 REMARK 3 L TENSOR REMARK 3 L11: 0.5011 L22: 0.0992 REMARK 3 L33: 0.1605 L12: 0.1702 REMARK 3 L13: -0.0489 L23: 0.0636 REMARK 3 S TENSOR REMARK 3 S11: 0.0021 S12: 0.0516 S13: 0.0572 REMARK 3 S21: 0.0195 S22: -0.0588 S23: -0.1974 REMARK 3 S31: -0.0861 S32: 0.1130 S33: 0.0876 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN A AND RESSEQ 472:668 REMARK 3 ORIGIN FOR THE GROUP (A): 82.7605 77.8359 43.6245 REMARK 3 T TENSOR REMARK 3 T11: 0.1369 T22: 0.2726 REMARK 3 T33: 0.1136 T12: -0.0311 REMARK 3 T13: -0.0368 T23: -0.0050 REMARK 3 L TENSOR REMARK 3 L11: 1.1741 L22: 1.3959 REMARK 3 L33: 0.9063 L12: -0.1353 REMARK 3 L13: 0.4403 L23: -0.2978 REMARK 3 S TENSOR REMARK 3 S11: 0.0198 S12: -0.1171 S13: -0.0087 REMARK 3 S21: 0.1833 S22: -0.0091 S23: -0.1591 REMARK 3 S31: -0.0064 S32: 0.2286 S33: -0.0170 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE NUMBERS OF REFLECTIONS IN THE TWO REMARK 3 TABLES ABOVE (FIT TO DATA USED IN REFINEMENT AND FIT TO DATA REMARK 3 USED IN REFINEMENT (IN BINS)) ARE FOR THE DATA BEFORE MERGING OF REMARK 3 ANOMALOUS PAIRS. REMARK 4 REMARK 4 3ZR5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 14-JUN-11. REMARK 100 THE DEPOSITION ID IS D_1290048696. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-JAN-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.8 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) : 0.98 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 53657 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 73.230 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 3.700 REMARK 200 R MERGE (I) : 0.12000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 7.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.15 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 3.70 REMARK 200 R MERGE FOR SHELL (I) : 0.70000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MIRAS REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: NONE REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.52 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.04 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M SODIUM ACETATE, 0.1 M SODIUM REMARK 280 CACODYLATE, PH 6.8, 34% (W/V) POLYETHYLENE GLYCOL 8000. REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-X+Y,-Z REMARK 290 7555 X+2/3,Y+1/3,Z+1/3 REMARK 290 8555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 9555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 10555 Y+2/3,X+1/3,-Z+1/3 REMARK 290 11555 X-Y+2/3,-Y+1/3,-Z+1/3 REMARK 290 12555 -X+2/3,-X+Y+1/3,-Z+1/3 REMARK 290 13555 X+1/3,Y+2/3,Z+2/3 REMARK 290 14555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 15555 -X+Y+1/3,-X+2/3,Z+2/3 REMARK 290 16555 Y+1/3,X+2/3,-Z+2/3 REMARK 290 17555 X-Y+1/3,-Y+2/3,-Z+2/3 REMARK 290 18555 -X+1/3,-X+Y+2/3,-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 0.00000 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 0.00000 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 0.00000 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 0.00000 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 124.95200 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 72.14107 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 25.94200 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 124.95200 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 72.14107 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 25.94200 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 124.95200 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 72.14107 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 25.94200 REMARK 290 SMTRY1 10 -0.500000 0.866025 0.000000 124.95200 REMARK 290 SMTRY2 10 0.866025 0.500000 0.000000 72.14107 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 25.94200 REMARK 290 SMTRY1 11 1.000000 0.000000 0.000000 124.95200 REMARK 290 SMTRY2 11 0.000000 -1.000000 0.000000 72.14107 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 25.94200 REMARK 290 SMTRY1 12 -0.500000 -0.866025 0.000000 124.95200 REMARK 290 SMTRY2 12 -0.866025 0.500000 0.000000 72.14107 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 25.94200 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 144.28214 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 51.88400 REMARK 290 SMTRY1 14 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 14 0.866025 -0.500000 0.000000 144.28214 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 51.88400 REMARK 290 SMTRY1 15 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 15 -0.866025 -0.500000 0.000000 144.28214 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 51.88400 REMARK 290 SMTRY1 16 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 16 0.866025 0.500000 0.000000 144.28214 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 51.88400 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 -1.000000 0.000000 144.28214 REMARK 290 SMTRY3 17 0.000000 0.000000 -1.000000 51.88400 REMARK 290 SMTRY1 18 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 18 -0.866025 0.500000 0.000000 144.28214 REMARK 290 SMTRY3 18 0.000000 0.000000 -1.000000 51.88400 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, B, C, 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 832 LIES ON A SPECIAL POSITION. 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 HIS A 13 REMARK 465 HIS A 14 REMARK 465 HIS A 15 REMARK 465 HIS A 16 REMARK 465 HIS A 17 REMARK 465 HIS A 18 REMARK 465 ILE A 19 REMARK 465 GLU A 20 REMARK 465 GLY A 21 REMARK 465 HIS A 22 REMARK 465 ILE A 23 REMARK 465 GLY A 24 REMARK 465 THR A 416 REMARK 465 PRO A 417 REMARK 465 GLN A 418 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 350 CG CD CE NZ REMARK 470 LYS A 398 CG CD CE NZ REMARK 470 ARG A 420 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 424 CG CD CE NZ REMARK 470 LYS A 475 CG CD CE NZ REMARK 470 ARG A 507 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 663 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 665 CG CD OE1 OE2 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 PHE A 75 -68.28 -146.95 REMARK 500 ASP A 89 -7.11 77.84 REMARK 500 THR A 93 -45.56 150.64 REMARK 500 LEU A 105 -9.88 80.99 REMARK 500 SER A 146 53.24 -97.30 REMARK 500 ILE A 179 -84.12 -111.90 REMARK 500 ASN A 212 -123.56 -146.00 REMARK 500 THR A 241 -5.99 80.96 REMARK 500 THR A 243 -162.43 -113.25 REMARK 500 PHE A 260 -107.27 76.08 REMARK 500 ASN A 264 40.30 -79.09 REMARK 500 SER A 296 54.87 -113.26 REMARK 500 SER A 376 24.26 -147.36 REMARK 500 SER A 400 0.91 -57.39 REMARK 500 GLU A 443 -162.01 -113.26 REMARK 500 ASP A 445 32.76 70.86 REMARK 500 PRO A 465 151.57 -48.45 REMARK 500 ASN A 490 -19.24 72.31 REMARK 500 ILE A 522 97.35 -69.16 REMARK 500 ARG A 555 -52.39 75.91 REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 N-ACETYL-D-GLUCOSAMINE (NAG): THE LAST 3 NUMBERS MATCH THE REMARK 600 ASN RESIDUE THEY ARE LINKED TO. THE GLYCANS ARE THEN REMARK 600 NUMBERED ACCORDING TO THEIR POSITION DISTANT FROM THE REMARK 600 ATTACHED ASN. REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 708 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 477 O REMARK 620 2 ASN A 479 OD1 71.5 REMARK 620 3 PHE A 511 O 100.0 99.2 REMARK 620 4 ASP A 660 OD1 83.6 153.6 93.4 REMARK 620 5 ASP A 660 OD2 131.6 155.4 85.9 48.0 REMARK 620 6 HOH A 817 O 94.7 88.7 164.9 84.7 81.7 REMARK 620 7 HOH A 851 O 154.8 85.6 93.8 116.7 70.1 73.8 REMARK 620 N 1 2 3 4 5 6 REMARK 650 REMARK 650 HELIX REMARK 650 DETERMINATION METHOD: DSSP OUTPUT MODIFIED BY AUTHOR REMARK 700 REMARK 700 SHEET REMARK 700 DETERMINATION METHOD: DSSP REMARK 700 THE SHEETS PRESENTED AS "AD" IN EACH CHAIN ON SHEET RECORDS REMARK 700 BELOW IS ACTUALLY AN 8-STRANDED BARREL THIS IS REPRESENTED BY REMARK 700 A 9-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS REMARK 700 ARE IDENTICAL. REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3ZR6 RELATED DB: PDB REMARK 900 STRUCTURE OF GALACTOCEREBROSIDASE FROM MOUSE IN COMPLEX WITH REMARK 900 GALACTOSE REMARK 999 REMARK 999 SEQUENCE REMARK 999 TWO DIFFERENT START SITES ARE PRESENT IN MOUSE GALC, WE REMARK 999 HAVE USED THE SECOND START SITE (TO MATCH THE LITERATURE) REMARK 999 WHICH IS M17 IN THE UNIPROT ENTRY. THE FULL CONSTRUCT REMARK 999 CONTAINS A SECRETION TAG (THAT IS CLEAVED) A HIS TAG AND A REMARK 999 FACTOR XA SITE WHICH ARE NOT. DBREF 3ZR5 A 24 668 UNP P54818 GALC_MOUSE 40 684 SEQADV 3ZR5 HIS A 13 UNP P54818 EXPRESSION TAG SEQADV 3ZR5 HIS A 14 UNP P54818 EXPRESSION TAG SEQADV 3ZR5 HIS A 15 UNP P54818 EXPRESSION TAG SEQADV 3ZR5 HIS A 16 UNP P54818 EXPRESSION TAG SEQADV 3ZR5 HIS A 17 UNP P54818 EXPRESSION TAG SEQADV 3ZR5 HIS A 18 UNP P54818 EXPRESSION TAG SEQADV 3ZR5 ILE A 19 UNP P54818 EXPRESSION TAG SEQADV 3ZR5 GLU A 20 UNP P54818 EXPRESSION TAG SEQADV 3ZR5 GLY A 21 UNP P54818 EXPRESSION TAG SEQADV 3ZR5 HIS A 22 UNP P54818 EXPRESSION TAG SEQADV 3ZR5 ILE A 23 UNP P54818 EXPRESSION TAG SEQRES 1 A 656 HIS HIS HIS HIS HIS HIS ILE GLU GLY HIS ILE GLY GLY SEQRES 2 A 656 ALA TYR VAL LEU ASP ASP SER ASP GLY LEU GLY ARG GLU SEQRES 3 A 656 PHE ASP GLY ILE GLY ALA VAL SER GLY GLY GLY ALA THR SEQRES 4 A 656 SER ARG LEU LEU VAL ASN TYR PRO GLU PRO TYR ARG SER SEQRES 5 A 656 GLU ILE LEU ASP TYR LEU PHE LYS PRO ASN PHE GLY ALA SEQRES 6 A 656 SER LEU HIS ILE LEU LYS VAL GLU ILE GLY GLY ASP GLY SEQRES 7 A 656 GLN THR THR ASP GLY THR GLU PRO SER HIS MET HIS TYR SEQRES 8 A 656 GLU LEU ASP GLU ASN TYR PHE ARG GLY TYR GLU TRP TRP SEQRES 9 A 656 LEU MET LYS GLU ALA LYS LYS ARG ASN PRO ASP ILE ILE SEQRES 10 A 656 LEU MET GLY LEU PRO TRP SER PHE PRO GLY TRP LEU GLY SEQRES 11 A 656 LYS GLY PHE SER TRP PRO TYR VAL ASN LEU GLN LEU THR SEQRES 12 A 656 ALA TYR TYR VAL VAL ARG TRP ILE LEU GLY ALA LYS HIS SEQRES 13 A 656 TYR HIS ASP LEU ASP ILE ASP TYR ILE GLY ILE TRP ASN SEQRES 14 A 656 GLU ARG PRO PHE ASP ALA ASN TYR ILE LYS GLU LEU ARG SEQRES 15 A 656 LYS MET LEU ASP TYR GLN GLY LEU GLN ARG VAL ARG ILE SEQRES 16 A 656 ILE ALA SER ASP ASN LEU TRP GLU PRO ILE SER SER SER SEQRES 17 A 656 LEU LEU LEU ASP GLN GLU LEU TRP LYS VAL VAL ASP VAL SEQRES 18 A 656 ILE GLY ALA HIS TYR PRO GLY THR TYR THR VAL TRP ASN SEQRES 19 A 656 ALA LYS MET SER GLY LYS LYS LEU TRP SER SER GLU ASP SEQRES 20 A 656 PHE SER THR ILE ASN SER ASN VAL GLY ALA GLY CYS TRP SEQRES 21 A 656 SER ARG ILE LEU ASN GLN ASN TYR ILE ASN GLY ASN MET SEQRES 22 A 656 THR SER THR ILE ALA TRP ASN LEU VAL ALA SER TYR TYR SEQRES 23 A 656 GLU GLU LEU PRO TYR GLY ARG SER GLY LEU MET THR ALA SEQRES 24 A 656 GLN GLU PRO TRP SER GLY HIS TYR VAL VAL ALA SER PRO SEQRES 25 A 656 ILE TRP VAL SER ALA HIS THR THR GLN PHE THR GLN PRO SEQRES 26 A 656 GLY TRP TYR TYR LEU LYS THR VAL GLY HIS LEU GLU LYS SEQRES 27 A 656 GLY GLY SER TYR VAL ALA LEU THR ASP GLY LEU GLY ASN SEQRES 28 A 656 LEU THR ILE ILE ILE GLU THR MET SER HIS GLN HIS SER SEQRES 29 A 656 MET CYS ILE ARG PRO TYR LEU PRO TYR TYR ASN VAL SER SEQRES 30 A 656 HIS GLN LEU ALA THR PHE THR LEU LYS GLY SER LEU ARG SEQRES 31 A 656 GLU ILE GLN GLU LEU GLN VAL TRP TYR THR LYS LEU GLY SEQRES 32 A 656 THR PRO GLN GLN ARG LEU HIS PHE LYS GLN LEU ASP THR SEQRES 33 A 656 LEU TRP LEU LEU ASP GLY SER GLY SER PHE THR LEU GLU SEQRES 34 A 656 LEU GLU GLU ASP GLU ILE PHE THR LEU THR THR LEU THR SEQRES 35 A 656 THR GLY ARG LYS GLY SER TYR PRO PRO PRO PRO SER SER SEQRES 36 A 656 LYS PRO PHE PRO THR ASN TYR LYS ASP ASP PHE ASN VAL SEQRES 37 A 656 GLU TYR PRO LEU PHE SER GLU ALA PRO ASN PHE ALA ASP SEQRES 38 A 656 GLN THR GLY VAL PHE GLU TYR TYR MET ASN ASN GLU ASP SEQRES 39 A 656 ARG GLU HIS ARG PHE THR LEU ARG GLN VAL LEU ASN GLN SEQRES 40 A 656 ARG PRO ILE THR TRP ALA ALA ASP ALA SER SER THR ILE SEQRES 41 A 656 SER VAL ILE GLY ASP HIS HIS TRP THR ASN MET THR VAL SEQRES 42 A 656 GLN CYS ASP VAL TYR ILE GLU THR PRO ARG SER GLY GLY SEQRES 43 A 656 VAL PHE ILE ALA GLY ARG VAL ASN LYS GLY GLY ILE LEU SEQRES 44 A 656 ILE ARG SER ALA THR GLY VAL PHE PHE TRP ILE PHE ALA SEQRES 45 A 656 ASN GLY SER TYR ARG VAL THR ALA ASP LEU GLY GLY TRP SEQRES 46 A 656 ILE THR TYR ALA SER GLY HIS ALA ASP VAL THR ALA LYS SEQRES 47 A 656 ARG TRP TYR THR LEU THR LEU GLY ILE LYS GLY TYR PHE SEQRES 48 A 656 ALA PHE GLY MET LEU ASN GLY THR ILE LEU TRP LYS ASN SEQRES 49 A 656 VAL ARG VAL LYS TYR PRO GLY HIS GLY TRP ALA ALA ILE SEQRES 50 A 656 GLY THR HIS THR PHE GLU PHE ALA GLN PHE ASP ASN PHE SEQRES 51 A 656 ARG VAL GLU ALA ALA ARG MODRES 3ZR5 ASN A 284 ASN GLYCOSYLATION SITE MODRES 3ZR5 ASN A 363 ASN GLYCOSYLATION SITE MODRES 3ZR5 ASN A 387 ASN GLYCOSYLATION SITE MODRES 3ZR5 ASN A 542 ASN GLYCOSYLATION SITE HET NAG B 1 14 HET NAG B 2 14 HET NAG C 1 14 HET NAG C 2 14 HET NAG D 1 14 HET NAG D 2 14 HET NAG A 705 14 HET CA A 708 1 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM CA CALCIUM ION HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE FORMUL 2 NAG 7(C8 H15 N O6) FORMUL 6 CA CA 2+ FORMUL 7 HOH *258(H2 O) HELIX 1 AA1 PRO A 61 LYS A 72 1 12 HELIX 2 AA2 TYR A 113 ASN A 125 1 13 HELIX 3 AA3 PRO A 138 LYS A 143 5 6 HELIX 4 AA4 ASN A 151 ASP A 171 1 21 HELIX 5 AA5 ASP A 186 GLN A 200 1 15 HELIX 6 AA6 PRO A 216 ASP A 224 1 9 HELIX 7 AA7 ASP A 224 VAL A 231 1 8 HELIX 8 AA8 VAL A 244 GLY A 251 1 8 HELIX 9 AA9 SER A 265 ASN A 284 1 20 HELIX 10 AB1 ALA A 322 GLN A 333 1 12 HELIX 11 AB2 GLY A 399 ARG A 402 5 4 HELIX 12 AB3 GLY A 568 SER A 574 5 7 SHEET 1 AA1 3 ALA A 26 LEU A 29 0 SHEET 2 AA1 3 GLN A 391 LEU A 397 1 O THR A 394 N TYR A 27 SHEET 3 AA1 3 SER A 437 LEU A 442 -1 O PHE A 438 N PHE A 395 SHEET 1 AA2 4 LEU A 35 GLU A 38 0 SHEET 2 AA2 4 TYR A 340 LEU A 342 -1 O TYR A 341 N GLY A 36 SHEET 3 AA2 4 SER A 353 THR A 358 -1 O THR A 358 N TYR A 340 SHEET 4 AA2 4 GLY A 346 HIS A 347 -1 N GLY A 346 O TYR A 354 SHEET 1 AA3 7 LEU A 35 GLU A 38 0 SHEET 2 AA3 7 TYR A 340 LEU A 342 -1 O TYR A 341 N GLY A 36 SHEET 3 AA3 7 SER A 353 THR A 358 -1 O THR A 358 N TYR A 340 SHEET 4 AA3 7 LEU A 364 GLU A 369 -1 O ILE A 367 N VAL A 355 SHEET 5 AA3 7 GLU A 446 THR A 451 -1 O PHE A 448 N ILE A 368 SHEET 6 AA3 7 GLU A 406 LYS A 413 -1 N GLN A 408 O THR A 451 SHEET 7 AA3 7 LEU A 421 TRP A 430 -1 O LEU A 421 N LYS A 413 SHEET 1 AA4 9 GLY A 41 SER A 46 0 SHEET 2 AA4 9 ILE A 81 ILE A 86 1 O LYS A 83 N SER A 46 SHEET 3 AA4 9 ILE A 129 PRO A 134 1 O ILE A 129 N LEU A 82 SHEET 4 AA4 9 TYR A 176 ILE A 177 1 O TYR A 176 N GLY A 132 SHEET 5 AA4 9 ARG A 206 ASN A 212 1 O ARG A 206 N ILE A 177 SHEET 6 AA4 9 VAL A 233 HIS A 237 1 O HIS A 237 N ASN A 212 SHEET 7 AA4 9 LYS A 253 PHE A 260 1 O TRP A 255 N ALA A 236 SHEET 8 AA4 9 SER A 287 TRP A 291 1 O TRP A 291 N ASP A 259 SHEET 9 AA4 9 GLY A 41 SER A 46 1 N VAL A 45 O ALA A 290 SHEET 1 AA5 2 VAL A 294 ALA A 295 0 SHEET 2 AA5 2 MET A 309 THR A 310 1 O MET A 309 N ALA A 295 SHEET 1 AA6 4 ASN A 473 ASP A 476 0 SHEET 2 AA6 4 ALA A 657 ALA A 667 -1 O PHE A 662 N ASP A 476 SHEET 3 AA6 4 PHE A 511 GLN A 515 -1 N LEU A 513 O PHE A 659 SHEET 4 AA6 4 PHE A 498 MET A 502 -1 N GLU A 499 O ARG A 514 SHEET 1 AA7 6 ASN A 473 ASP A 476 0 SHEET 2 AA7 6 ALA A 657 ALA A 667 -1 O PHE A 662 N ASP A 476 SHEET 3 AA7 6 ASN A 542 ILE A 551 -1 N GLN A 546 O ARG A 663 SHEET 4 AA7 6 TRP A 612 LYS A 620 -1 O TYR A 613 N VAL A 549 SHEET 5 AA7 6 PHE A 623 LEU A 628 -1 O PHE A 623 N LYS A 620 SHEET 6 AA7 6 THR A 631 ARG A 638 -1 O LEU A 633 N GLY A 626 SHEET 1 AA8 7 ALA A 492 THR A 495 0 SHEET 2 AA8 7 THR A 531 ILE A 535 -1 O ILE A 532 N GLN A 494 SHEET 3 AA8 7 TRP A 646 THR A 651 -1 O ILE A 649 N SER A 533 SHEET 4 AA8 7 GLY A 558 VAL A 565 -1 N VAL A 565 O TRP A 646 SHEET 5 AA8 7 THR A 576 PHE A 583 -1 O PHE A 580 N ILE A 561 SHEET 6 AA8 7 SER A 587 ASP A 593 -1 O ARG A 589 N TRP A 581 SHEET 7 AA8 7 THR A 599 HIS A 604 -1 O ALA A 601 N VAL A 590 SSBOND 1 CYS A 271 CYS A 378 1555 1555 2.05 LINK ND2 ASN A 284 C1 NAG B 1 1555 1555 1.45 LINK ND2 ASN A 363 C1 NAG C 1 1555 1555 1.44 LINK ND2 ASN A 387 C1 NAG A 705 1555 1555 1.46 LINK ND2 ASN A 542 C1 NAG D 1 1555 1555 1.44 LINK O4 NAG B 1 C1 NAG B 2 1555 1555 1.45 LINK O4 NAG C 1 C1 NAG C 2 1555 1555 1.45 LINK O4 NAG D 1 C1 NAG D 2 1555 1555 1.44 LINK O ASP A 477 CA CA A 708 1555 1555 2.41 LINK OD1 ASN A 479 CA CA A 708 1555 1555 2.47 LINK O PHE A 511 CA CA A 708 1555 1555 2.36 LINK OD1 ASP A 660 CA CA A 708 1555 1555 2.47 LINK OD2 ASP A 660 CA CA A 708 1555 1555 2.84 LINK CA CA A 708 O HOH A 817 1555 1555 2.50 LINK CA CA A 708 O HOH A 851 1555 1555 2.52 CISPEP 1 GLY A 48 GLY A 49 0 -2.20 CISPEP 2 GLU A 60 PRO A 61 0 6.65 CISPEP 3 ALA A 209 SER A 210 0 -2.34 CISPEP 4 GLU A 215 PRO A 216 0 7.22 CISPEP 5 TRP A 291 ASN A 292 0 3.26 CISPEP 6 ARG A 380 PRO A 381 0 -4.30 CISPEP 7 TYR A 641 PRO A 642 0 -0.08 CRYST1 249.904 249.904 77.826 90.00 90.00 120.00 H 3 2 18 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 0.004002 0.002310 0.000000 0.00000 SCALE2 0.000000 0.004621 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012849 0.00000