HEADER HYDROLASE 17-MAR-15 4UFJ TITLE MOUSE GALACTOCEREBROSIDASE COMPLEXED WITH ISO-GALACTO-FAGOMINE LACTAM TITLE 2 IGL COMPND MOL_ID: 1; COMPND 2 MOLECULE: GALACTOCEREBROSIDASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: GALCERASE, GALACTOCEREBROSIDE BETA-GALACTOSIDASE, COMPND 5 GALACTOSYLCERAMIDASE, GALACTOSYLCERAMIDE BETA-GALACTOSIDASE; COMPND 6 EC: 3.2.1.46; COMPND 7 ENGINEERED: YES; COMPND 8 OTHER_DETAILS: COMPLEX WITH IGL SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: HOUSE 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: HEK293T KEYWDS HYDROLASE, GLYCOSYL HYDROLASE, COMPLEX, LYSOSOME EXPDTA X-RAY DIFFRACTION AUTHOR C.H.HILL,A.H.VIUFF,S.J.SPRATLEY,S.SALAMONE,S.H.CHRISTENSEN,R.J.READ, AUTHOR 2 N.W.MORIARTY,H.H.JENSEN,J.E.DEANE REVDAT 5 06-NOV-24 4UFJ 1 REMARK REVDAT 4 20-DEC-23 4UFJ 1 HETSYN REVDAT 3 29-JUL-20 4UFJ 1 COMPND REMARK HETNAM LINK REVDAT 3 2 1 SITE ATOM REVDAT 2 10-JUN-15 4UFJ 1 JRNL REVDAT 1 25-MAR-15 4UFJ 0 JRNL AUTH C.H.HILL,A.H.VIUFF,S.J.SPRATLEY,S.SALAMONE,S.H.CHRISTENSEN, JRNL AUTH 2 R.J.READ,N.W.MORIARTY,H.H.JENSEN,J.E.DEANE JRNL TITL AZASUGAR INHIBITORS AS PHARMACOLOGICAL CHAPERONES FOR KRABBE JRNL TITL 2 DISEASE. JRNL REF CHEM.SCI. V. 6 3075 2015 JRNL REFN ISSN 2041-6520 JRNL PMID 26029356 JRNL DOI 10.1039/C5SC00754B REMARK 2 REMARK 2 RESOLUTION. 2.20 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) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 63.21 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 46923 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.167 REMARK 3 R VALUE (WORKING SET) : 0.165 REMARK 3 FREE R VALUE : 0.198 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.200 REMARK 3 FREE R VALUE TEST SET COUNT : 2421 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 63.2380 - 5.6559 1.00 2706 145 0.1430 0.1709 REMARK 3 2 5.6559 - 4.4896 1.00 2658 136 0.1171 0.1289 REMARK 3 3 4.4896 - 3.9222 1.00 2636 137 0.1248 0.1470 REMARK 3 4 3.9222 - 3.5636 1.00 2606 149 0.1444 0.1903 REMARK 3 5 3.5636 - 3.3082 1.00 2656 127 0.1715 0.2186 REMARK 3 6 3.3082 - 3.1132 1.00 2590 146 0.1892 0.2254 REMARK 3 7 3.1132 - 2.9573 1.00 2641 132 0.1880 0.1929 REMARK 3 8 2.9573 - 2.8285 1.00 2631 120 0.1847 0.1956 REMARK 3 9 2.8285 - 2.7196 1.00 2607 154 0.1872 0.2635 REMARK 3 10 2.7196 - 2.6258 1.00 2599 152 0.1908 0.2156 REMARK 3 11 2.6258 - 2.5437 1.00 2610 136 0.2021 0.2381 REMARK 3 12 2.5437 - 2.4710 1.00 2576 144 0.2018 0.2236 REMARK 3 13 2.4710 - 2.4059 1.00 2591 166 0.2045 0.2648 REMARK 3 14 2.4059 - 2.3472 1.00 2606 143 0.2247 0.2856 REMARK 3 15 2.3472 - 2.2939 1.00 2573 146 0.2377 0.2792 REMARK 3 16 2.2939 - 2.2450 1.00 2611 151 0.2511 0.2659 REMARK 3 17 2.2450 - 2.2001 1.00 2605 137 0.2680 0.3094 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.230 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.320 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 38.64 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL 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 : 0.005 5404 REMARK 3 ANGLE : 0.932 7384 REMARK 3 CHIRALITY : 0.053 795 REMARK 3 PLANARITY : 0.004 931 REMARK 3 DIHEDRAL : 11.625 1866 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 472:668) REMARK 3 ORIGIN FOR THE GROUP (A): 82.8113 77.9181 43.6707 REMARK 3 T TENSOR REMARK 3 T11: 0.3000 T22: 0.5306 REMARK 3 T33: 0.3858 T12: -0.0567 REMARK 3 T13: -0.1046 T23: 0.0289 REMARK 3 L TENSOR REMARK 3 L11: 1.1661 L22: 2.7115 REMARK 3 L33: 2.1056 L12: -0.4243 REMARK 3 L13: 0.3858 L23: -0.3838 REMARK 3 S TENSOR REMARK 3 S11: 0.0527 S12: -0.2458 S13: -0.1152 REMARK 3 S21: 0.3206 S22: 0.0547 S23: -0.3095 REMARK 3 S31: 0.0857 S32: 0.5006 S33: -0.0931 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN A AND (RESSEQ 453:471) REMARK 3 ORIGIN FOR THE GROUP (A): 98.4615 105.1814 27.2934 REMARK 3 T TENSOR REMARK 3 T11: 0.3613 T22: 1.0290 REMARK 3 T33: 0.6877 T12: -0.5047 REMARK 3 T13: 0.0286 T23: 0.1179 REMARK 3 L TENSOR REMARK 3 L11: 0.4637 L22: 0.1620 REMARK 3 L33: 0.2464 L12: 0.3259 REMARK 3 L13: -0.1612 L23: -0.0296 REMARK 3 S TENSOR REMARK 3 S11: 0.0874 S12: 0.2779 S13: 0.1490 REMARK 3 S21: 0.1727 S22: -0.0628 S23: -0.3597 REMARK 3 S31: -0.1855 S32: 0.9744 S33: 0.0785 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN A AND (RESSEQ 41:337) REMARK 3 ORIGIN FOR THE GROUP (A): 74.8464 99.5112 22.4026 REMARK 3 T TENSOR REMARK 3 T11: 0.2942 T22: 0.3646 REMARK 3 T33: 0.3018 T12: -0.1742 REMARK 3 T13: -0.0012 T23: 0.0133 REMARK 3 L TENSOR REMARK 3 L11: 1.3566 L22: 1.0321 REMARK 3 L33: 2.2199 L12: -0.4487 REMARK 3 L13: 0.1846 L23: -0.0006 REMARK 3 S TENSOR REMARK 3 S11: 0.0636 S12: 0.0743 S13: 0.0779 REMARK 3 S21: -0.0405 S22: -0.0395 S23: -0.1824 REMARK 3 S31: -0.3224 S32: 0.4747 S33: -0.0228 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN A AND ((RESSEQ 25:40) OR (RESSEQ 338:452)) REMARK 3 ORIGIN FOR THE GROUP (A): 90.2595 110.2033 1.4450 REMARK 3 T TENSOR REMARK 3 T11: 0.8104 T22: 1.0432 REMARK 3 T33: 0.5571 T12: -0.4450 REMARK 3 T13: 0.1687 T23: 0.1843 REMARK 3 L TENSOR REMARK 3 L11: 2.3414 L22: 1.5147 REMARK 3 L33: 1.2769 L12: 1.0835 REMARK 3 L13: -0.1657 L23: 0.7167 REMARK 3 S TENSOR REMARK 3 S11: 0.1409 S12: 0.6817 S13: 0.3752 REMARK 3 S21: -0.6058 S22: -0.1044 S23: -0.3717 REMARK 3 S31: -0.6476 S32: 0.8531 S33: -0.0516 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4UFJ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 17-MAR-15. REMARK 100 THE DEPOSITION ID IS D_1290063366. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-FEB-14 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 : I04-1 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 : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XIA2 REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 46932 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 63.200 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 8.600 REMARK 200 R MERGE (I) : 0.09000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 15.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.26 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 8.50 REMARK 200 R MERGE FOR SHELL (I) : 1.10000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: PDB ENTRY 3ZR5 REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.78 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.14 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M SODIUM ACETATE, 0.1 M SODIUM REMARK 280 CACODYLATE (PH 6.8), 34% PEG 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 124.92500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 72.12548 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 25.96333 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 124.92500 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 72.12548 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 25.96333 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 124.92500 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 72.12548 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 25.96333 REMARK 290 SMTRY1 10 -0.500000 0.866025 0.000000 124.92500 REMARK 290 SMTRY2 10 0.866025 0.500000 0.000000 72.12548 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 25.96333 REMARK 290 SMTRY1 11 1.000000 0.000000 0.000000 124.92500 REMARK 290 SMTRY2 11 0.000000 -1.000000 0.000000 72.12548 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 25.96333 REMARK 290 SMTRY1 12 -0.500000 -0.866025 0.000000 124.92500 REMARK 290 SMTRY2 12 -0.866025 0.500000 0.000000 72.12548 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 25.96333 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 144.25096 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 51.92667 REMARK 290 SMTRY1 14 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 14 0.866025 -0.500000 0.000000 144.25096 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 51.92667 REMARK 290 SMTRY1 15 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 15 -0.866025 -0.500000 0.000000 144.25096 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 51.92667 REMARK 290 SMTRY1 16 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 16 0.866025 0.500000 0.000000 144.25096 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 51.92667 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 -1.000000 0.000000 144.25096 REMARK 290 SMTRY3 17 0.000000 0.000000 -1.000000 51.92667 REMARK 290 SMTRY1 18 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 18 -0.866025 0.500000 0.000000 144.25096 REMARK 290 SMTRY3 18 0.000000 0.000000 -1.000000 51.92667 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 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 15 REMARK 465 HIS A 16 REMARK 465 HIS A 17 REMARK 465 HIS A 18 REMARK 465 HIS A 19 REMARK 465 HIS A 20 REMARK 465 ILE A 21 REMARK 465 GLU A 22 REMARK 465 GLY A 23 REMARK 465 ARG A 24 REMARK 465 THR A 416 REMARK 465 PRO A 417 REMARK 465 GLN A 418 REMARK 465 GLN A 419 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 589 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 -64.96 -143.53 REMARK 500 ASP A 89 -3.05 71.74 REMARK 500 THR A 93 -44.79 147.65 REMARK 500 SER A 146 57.87 -91.68 REMARK 500 ILE A 179 -81.73 -109.25 REMARK 500 ASN A 212 -121.97 -147.74 REMARK 500 THR A 241 -3.22 71.39 REMARK 500 THR A 243 -161.98 -119.50 REMARK 500 PHE A 260 -101.94 75.76 REMARK 500 ASN A 264 37.20 -80.61 REMARK 500 SER A 265 -164.77 -75.39 REMARK 500 SER A 296 55.75 -113.54 REMARK 500 ALA A 311 74.42 -151.56 REMARK 500 SER A 376 23.97 -146.74 REMARK 500 GLU A 443 -159.36 -115.78 REMARK 500 PHE A 478 19.87 56.19 REMARK 500 ASN A 490 -13.91 70.17 REMARK 500 ARG A 555 -53.83 70.53 REMARK 500 THR A 653 -166.33 -127.86 REMARK 500 REMARK 500 REMARK: NULL 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 A3669 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 477 O REMARK 620 2 ASN A 479 OD1 73.5 REMARK 620 3 PHE A 511 O 94.6 94.9 REMARK 620 4 ASP A 660 OD1 81.2 152.4 98.0 REMARK 620 5 ASP A 660 OD2 130.4 155.6 88.5 49.4 REMARK 620 6 HOH A2156 O 96.8 89.3 168.6 82.8 83.4 REMARK 620 7 HOH A2158 O 154.5 81.0 87.7 123.6 75.0 82.5 REMARK 620 N 1 2 3 4 5 6 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: 4UFH RELATED DB: PDB REMARK 900 MOUSE GALACTOCEREBROSIDASE COMPLEXED WITH ISO-GALACTO- FAGOMINE IGF REMARK 900 RELATED ID: 4UFI RELATED DB: PDB REMARK 900 MOUSE GALACTOCEREBROSIDASE COMPLEXED WITH AZA-GALACTO- FAGOMINE AGF REMARK 900 RELATED ID: 4UFK RELATED DB: PDB REMARK 900 MOUSE GALACTOCEREBROSIDASE COMPLEXED WITH DIDEOXY-IMINO- LYXITOL DIL REMARK 900 RELATED ID: 4UFL RELATED DB: PDB REMARK 900 MOUSE GALACTOCEREBROSIDASE COMPLEXED WITH DEOXY-GALACTO- REMARK 900 NOEUROSTEGINE DGN REMARK 900 RELATED ID: 4UFM RELATED DB: PDB REMARK 900 MOUSE GALACTOCEREBROSIDASE COMPLEXED WITH 1-DEOXY-GALACTO - REMARK 900 NOJIRIMYCIN DGJ REMARK 999 REMARK 999 SEQUENCE REMARK 999 NUMBERING IS FROM SECOND START SITE AS USED IN THE REMARK 999 LITERATURE AND IN PDB ENTRIES 3ZR5, 3ZR6, 4CCC, 4CCD, 4CCE. DBREF 4UFJ A 25 668 UNP P54818 GALC_MOUSE 41 684 SEQADV 4UFJ HIS A 15 UNP P54818 EXPRESSION TAG SEQADV 4UFJ HIS A 16 UNP P54818 EXPRESSION TAG SEQADV 4UFJ HIS A 17 UNP P54818 EXPRESSION TAG SEQADV 4UFJ HIS A 18 UNP P54818 EXPRESSION TAG SEQADV 4UFJ HIS A 19 UNP P54818 EXPRESSION TAG SEQADV 4UFJ HIS A 20 UNP P54818 EXPRESSION TAG SEQADV 4UFJ ILE A 21 UNP P54818 EXPRESSION TAG SEQADV 4UFJ GLU A 22 UNP P54818 EXPRESSION TAG SEQADV 4UFJ GLY A 23 UNP P54818 EXPRESSION TAG SEQADV 4UFJ ARG A 24 UNP P54818 EXPRESSION TAG SEQRES 1 A 654 HIS HIS HIS HIS HIS HIS ILE GLU GLY ARG GLY ALA TYR SEQRES 2 A 654 VAL LEU ASP ASP SER ASP GLY LEU GLY ARG GLU PHE ASP SEQRES 3 A 654 GLY ILE GLY ALA VAL SER GLY GLY GLY ALA THR SER ARG SEQRES 4 A 654 LEU LEU VAL ASN TYR PRO GLU PRO TYR ARG SER GLU ILE SEQRES 5 A 654 LEU ASP TYR LEU PHE LYS PRO ASN PHE GLY ALA SER LEU SEQRES 6 A 654 HIS ILE LEU LYS VAL GLU ILE GLY GLY ASP GLY GLN THR SEQRES 7 A 654 THR ASP GLY THR GLU PRO SER HIS MET HIS TYR GLU LEU SEQRES 8 A 654 ASP GLU ASN TYR PHE ARG GLY TYR GLU TRP TRP LEU MET SEQRES 9 A 654 LYS GLU ALA LYS LYS ARG ASN PRO ASP ILE ILE LEU MET SEQRES 10 A 654 GLY LEU PRO TRP SER PHE PRO GLY TRP LEU GLY LYS GLY SEQRES 11 A 654 PHE SER TRP PRO TYR VAL ASN LEU GLN LEU THR ALA TYR SEQRES 12 A 654 TYR VAL VAL ARG TRP ILE LEU GLY ALA LYS HIS TYR HIS SEQRES 13 A 654 ASP LEU ASP ILE ASP TYR ILE GLY ILE TRP ASN GLU ARG SEQRES 14 A 654 PRO PHE ASP ALA ASN TYR ILE LYS GLU LEU ARG LYS MET SEQRES 15 A 654 LEU ASP TYR GLN GLY LEU GLN ARG VAL ARG ILE ILE ALA SEQRES 16 A 654 SER ASP ASN LEU TRP GLU PRO ILE SER SER SER LEU LEU SEQRES 17 A 654 LEU ASP GLN GLU LEU TRP LYS VAL VAL ASP VAL ILE GLY SEQRES 18 A 654 ALA HIS TYR PRO GLY THR TYR THR VAL TRP ASN ALA LYS SEQRES 19 A 654 MET SER GLY LYS LYS LEU TRP SER SER GLU ASP PHE SER SEQRES 20 A 654 THR ILE ASN SER ASN VAL GLY ALA GLY CYS TRP SER ARG SEQRES 21 A 654 ILE LEU ASN GLN ASN TYR ILE ASN GLY ASN MET THR SER SEQRES 22 A 654 THR ILE ALA TRP ASN LEU VAL ALA SER TYR TYR GLU GLU SEQRES 23 A 654 LEU PRO TYR GLY ARG SER GLY LEU MET THR ALA GLN GLU SEQRES 24 A 654 PRO TRP SER GLY HIS TYR VAL VAL ALA SER PRO ILE TRP SEQRES 25 A 654 VAL SER ALA HIS THR THR GLN PHE THR GLN PRO GLY TRP SEQRES 26 A 654 TYR TYR LEU LYS THR VAL GLY HIS LEU GLU LYS GLY GLY SEQRES 27 A 654 SER TYR VAL ALA LEU THR ASP GLY LEU GLY ASN LEU THR SEQRES 28 A 654 ILE ILE ILE GLU THR MET SER HIS GLN HIS SER MET CYS SEQRES 29 A 654 ILE ARG PRO TYR LEU PRO TYR TYR ASN VAL SER HIS GLN SEQRES 30 A 654 LEU ALA THR PHE THR LEU LYS GLY SER LEU ARG GLU ILE SEQRES 31 A 654 GLN GLU LEU GLN VAL TRP TYR THR LYS LEU GLY THR PRO SEQRES 32 A 654 GLN GLN ARG LEU HIS PHE LYS GLN LEU ASP THR LEU TRP SEQRES 33 A 654 LEU LEU ASP GLY SER GLY SER PHE THR LEU GLU LEU GLU SEQRES 34 A 654 GLU ASP GLU ILE PHE THR LEU THR THR LEU THR THR GLY SEQRES 35 A 654 ARG LYS GLY SER TYR PRO PRO PRO PRO SER SER LYS PRO SEQRES 36 A 654 PHE PRO THR ASN TYR LYS ASP ASP PHE ASN VAL GLU TYR SEQRES 37 A 654 PRO LEU PHE SER GLU ALA PRO ASN PHE ALA ASP GLN THR SEQRES 38 A 654 GLY VAL PHE GLU TYR TYR MET ASN ASN GLU ASP ARG GLU SEQRES 39 A 654 HIS ARG PHE THR LEU ARG GLN VAL LEU ASN GLN ARG PRO SEQRES 40 A 654 ILE THR TRP ALA ALA ASP ALA SER SER THR ILE SER VAL SEQRES 41 A 654 ILE GLY ASP HIS HIS TRP THR ASN MET THR VAL GLN CYS SEQRES 42 A 654 ASP VAL TYR ILE GLU THR PRO ARG SER GLY GLY VAL PHE SEQRES 43 A 654 ILE ALA GLY ARG VAL ASN LYS GLY GLY ILE LEU ILE ARG SEQRES 44 A 654 SER ALA THR GLY VAL PHE PHE TRP ILE PHE ALA ASN GLY SEQRES 45 A 654 SER TYR ARG VAL THR ALA ASP LEU GLY GLY TRP ILE THR SEQRES 46 A 654 TYR ALA SER GLY HIS ALA ASP VAL THR ALA LYS ARG TRP SEQRES 47 A 654 TYR THR LEU THR LEU GLY ILE LYS GLY TYR PHE ALA PHE SEQRES 48 A 654 GLY MET LEU ASN GLY THR ILE LEU TRP LYS ASN VAL ARG SEQRES 49 A 654 VAL LYS TYR PRO GLY HIS GLY TRP ALA ALA ILE GLY THR SEQRES 50 A 654 HIS THR PHE GLU PHE ALA GLN PHE ASP ASN PHE ARG VAL SEQRES 51 A 654 GLU ALA ALA ARG MODRES 4UFJ ASN A 284 ASN GLYCOSYLATION SITE MODRES 4UFJ ASN A 363 ASN GLYCOSYLATION SITE MODRES 4UFJ ASN A 387 ASN GLYCOSYLATION SITE MODRES 4UFJ 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 IF7 A1001 11 HET NAG A1387 14 HET CA A3669 1 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM IF7 (3S,4S,5R)-5-(HYDROXYMETHYL)-3,4-BIS(OXIDANYL) HETNAM 2 IF7 PIPERIDIN-2-ONE 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 HETSYN IF7 ISO-GALACTO-FAGOMINE LACTAM FORMUL 2 NAG 7(C8 H15 N O6) FORMUL 5 IF7 C6 H11 N O4 FORMUL 7 CA CA 2+ FORMUL 8 HOH *196(H2 O) HELIX 1 1 PRO A 61 LYS A 72 1 12 HELIX 2 2 TYR A 113 ASN A 125 1 13 HELIX 3 3 PRO A 138 LYS A 143 5 6 HELIX 4 4 ASN A 151 ASP A 171 1 21 HELIX 5 5 ASP A 186 GLN A 200 1 15 HELIX 6 6 PRO A 216 ASP A 224 1 9 HELIX 7 7 ASP A 224 VAL A 231 1 8 HELIX 8 8 VAL A 244 GLY A 251 1 8 HELIX 9 9 SER A 265 ASN A 284 1 20 HELIX 10 10 ALA A 322 GLN A 333 1 12 HELIX 11 11 SER A 372 SER A 376 5 5 HELIX 12 12 GLY A 399 ARG A 402 5 4 HELIX 13 13 GLY A 568 SER A 574 5 7 SHEET 1 AA 3 ALA A 26 LEU A 29 0 SHEET 2 AA 3 GLN A 391 LEU A 397 1 O THR A 394 N TYR A 27 SHEET 3 AA 3 SER A 437 LEU A 442 -1 O PHE A 438 N PHE A 395 SHEET 1 AB 7 LEU A 35 GLU A 38 0 SHEET 2 AB 7 TYR A 340 LEU A 342 -1 O TYR A 341 N GLY A 36 SHEET 3 AB 7 SER A 353 THR A 358 -1 O ALA A 356 N LEU A 342 SHEET 4 AB 7 LEU A 364 GLU A 369 -1 O THR A 365 N LEU A 357 SHEET 5 AB 7 GLU A 446 THR A 451 -1 O PHE A 448 N ILE A 368 SHEET 6 AB 7 GLU A 406 LYS A 413 -1 O GLN A 408 N THR A 451 SHEET 7 AB 7 LEU A 421 TRP A 430 -1 O LEU A 421 N LYS A 413 SHEET 1 AC 4 LEU A 35 GLU A 38 0 SHEET 2 AC 4 TYR A 340 LEU A 342 -1 O TYR A 341 N GLY A 36 SHEET 3 AC 4 SER A 353 THR A 358 -1 O ALA A 356 N LEU A 342 SHEET 4 AC 4 GLY A 346 HIS A 347 1 O GLY A 346 N TYR A 354 SHEET 1 AD 9 GLY A 41 SER A 46 0 SHEET 2 AD 9 SER A 287 TRP A 291 1 O THR A 288 N GLY A 43 SHEET 3 AD 9 LYS A 253 PHE A 260 1 O SER A 256 N ILE A 289 SHEET 4 AD 9 VAL A 233 HIS A 237 1 O ILE A 234 N TRP A 255 SHEET 5 AD 9 ARG A 206 ASN A 212 1 O ALA A 209 N GLY A 235 SHEET 6 AD 9 TYR A 176 ILE A 177 1 O ILE A 177 N ILE A 208 SHEET 7 AD 9 ILE A 129 PRO A 134 1 N GLY A 132 O TYR A 176 SHEET 8 AD 9 ILE A 81 ILE A 86 1 O LEU A 82 N MET A 131 SHEET 9 AD 9 GLY A 41 SER A 46 1 O ALA A 44 N LYS A 83 SHEET 1 AE 2 VAL A 294 ALA A 295 0 SHEET 2 AE 2 MET A 309 THR A 310 1 O MET A 309 N ALA A 295 SHEET 1 AF 2 ASN A 473 ASP A 476 0 SHEET 2 AF 2 ALA A 657 ALA A 667 1 O PHE A 662 N ASP A 476 SHEET 1 AG 7 PHE A 498 MET A 502 0 SHEET 2 AG 7 PHE A 511 GLN A 515 -1 O THR A 512 N TYR A 501 SHEET 3 AG 7 ALA A 657 ALA A 667 -1 O ALA A 657 N GLN A 515 SHEET 4 AG 7 ASN A 542 ILE A 551 -1 O ASN A 542 N ALA A 667 SHEET 5 AG 7 TRP A 612 LYS A 620 -1 O TYR A 613 N VAL A 549 SHEET 6 AG 7 PHE A 623 LEU A 628 -1 O PHE A 623 N LYS A 620 SHEET 7 AG 7 THR A 631 ARG A 638 -1 O THR A 631 N LEU A 628 SHEET 1 AH 4 PHE A 498 MET A 502 0 SHEET 2 AH 4 PHE A 511 GLN A 515 -1 O THR A 512 N TYR A 501 SHEET 3 AH 4 ALA A 657 ALA A 667 -1 O ALA A 657 N GLN A 515 SHEET 4 AH 4 ASN A 473 ASP A 476 1 O TYR A 474 N VAL A 664 SHEET 1 AI 7 ALA A 492 THR A 495 0 SHEET 2 AI 7 THR A 531 ILE A 535 -1 O ILE A 532 N GLN A 494 SHEET 3 AI 7 TRP A 646 THR A 651 -1 O ALA A 647 N ILE A 535 SHEET 4 AI 7 GLY A 558 VAL A 565 -1 O PHE A 560 N GLY A 650 SHEET 5 AI 7 THR A 576 PHE A 583 -1 O VAL A 578 N GLY A 563 SHEET 6 AI 7 SER A 587 ASP A 593 -1 O SER A 587 N PHE A 583 SHEET 7 AI 7 THR A 599 HIS A 604 -1 N TYR A 600 O VAL A 590 SSBOND 1 CYS A 271 CYS A 378 1555 1555 2.03 LINK ND2 ASN A 284 C1 NAG B 1 1555 1555 1.44 LINK ND2 ASN A 363 C1 NAG C 1 1555 1555 1.43 LINK ND2 ASN A 387 C1 NAG A1387 1555 1555 1.44 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 A3669 1555 1555 2.39 LINK OD1 ASN A 479 CA CA A3669 1555 1555 2.46 LINK O PHE A 511 CA CA A3669 1555 1555 2.36 LINK OD1 ASP A 660 CA CA A3669 1555 1555 2.38 LINK OD2 ASP A 660 CA CA A3669 1555 1555 2.78 LINK O HOH A2156 CA CA A3669 1555 1555 2.46 LINK O HOH A2158 CA CA A3669 1555 1555 2.49 CISPEP 1 GLY A 48 GLY A 49 0 -1.69 CISPEP 2 GLU A 60 PRO A 61 0 1.15 CISPEP 3 ALA A 209 SER A 210 0 -1.25 CISPEP 4 GLU A 215 PRO A 216 0 7.83 CISPEP 5 TRP A 291 ASN A 292 0 2.31 CISPEP 6 ARG A 380 PRO A 381 0 -3.16 CISPEP 7 TYR A 641 PRO A 642 0 1.04 CRYST1 249.850 249.850 77.890 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 0.002311 0.000000 0.00000 SCALE2 0.000000 0.004622 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012839 0.00000