HEADER HYDROLASE 18-FEB-16 5I85 TITLE ASMASE WITH ZINC AND PHOSPHOCHOLINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: SPHINGOMYELIN PHOSPHODIESTERASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: ACID SPHINGOMYELINASE,ASMASE; COMPND 5 EC: 3.1.4.12; 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: SMPD1, ASM; SOURCE 6 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 7 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 9 EXPRESSION_SYSTEM_CELL_LINE: HEK293S GNT1-; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PIRES2 KEYWDS ACID SPHINGOMYELINASE, PHOSPHOCHOLINE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR Y.F.ZHOU,R.R.WEI REVDAT 5 27-SEP-23 5I85 1 REMARK REVDAT 4 24-MAR-21 5I85 1 SOURCE HETSYN LINK REVDAT 3 29-JUL-20 5I85 1 COMPND REMARK HETNAM LINK REVDAT 3 2 1 SITE ATOM REVDAT 2 16-NOV-16 5I85 1 JRNL REVDAT 1 07-SEP-16 5I85 0 JRNL AUTH Y.F.ZHOU,M.C.METCALF,S.C.GARMAN,T.EDMUNDS,H.QIU,R.R.WEI JRNL TITL HUMAN ACID SPHINGOMYELINASE STRUCTURES PROVIDE INSIGHT TO JRNL TITL 2 MOLECULAR BASIS OF NIEMANN-PICK DISEASE. JRNL REF NAT COMMUN V. 7 13082 2016 JRNL REFN ESSN 2041-1723 JRNL PMID 27725636 JRNL DOI 10.1038/NCOMMS13082 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (DEV_2229: ???) 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) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 31.18 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 33985 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.192 REMARK 3 R VALUE (WORKING SET) : 0.190 REMARK 3 FREE R VALUE : 0.222 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.930 REMARK 3 FREE R VALUE TEST SET COUNT : 1676 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 31.1770 - 5.7129 1.00 2922 148 0.1751 0.1876 REMARK 3 2 5.7129 - 4.5390 1.00 2753 156 0.1545 0.1897 REMARK 3 3 4.5390 - 3.9665 1.00 2726 132 0.1462 0.1521 REMARK 3 4 3.9665 - 3.6044 1.00 2705 130 0.1739 0.1913 REMARK 3 5 3.6044 - 3.3464 1.00 2677 137 0.1948 0.2393 REMARK 3 6 3.3464 - 3.1493 1.00 2657 136 0.2067 0.2562 REMARK 3 7 3.1493 - 2.9917 1.00 2653 141 0.2197 0.2652 REMARK 3 8 2.9917 - 2.8616 1.00 2650 140 0.2294 0.2792 REMARK 3 9 2.8616 - 2.7515 1.00 2674 125 0.2228 0.2586 REMARK 3 10 2.7515 - 2.6566 1.00 2642 137 0.2344 0.2489 REMARK 3 11 2.6566 - 2.5736 1.00 2625 143 0.2384 0.2931 REMARK 3 12 2.5736 - 2.5000 1.00 2625 151 0.2547 0.3202 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) : 0.260 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.730 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 30.76 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 : 0.018 4557 REMARK 3 ANGLE : 0.885 6235 REMARK 3 CHIRALITY : 0.048 682 REMARK 3 PLANARITY : 0.007 782 REMARK 3 DIHEDRAL : 14.043 2642 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 5 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 84 THROUGH 127 ) REMARK 3 ORIGIN FOR THE GROUP (A): -32.0149 -53.4368 -43.2966 REMARK 3 T TENSOR REMARK 3 T11: 0.2714 T22: 0.5600 REMARK 3 T33: 0.3559 T12: -0.2193 REMARK 3 T13: 0.0096 T23: -0.0031 REMARK 3 L TENSOR REMARK 3 L11: 0.9436 L22: 6.9250 REMARK 3 L33: 1.6644 L12: -0.1747 REMARK 3 L13: 0.6986 L23: 0.4847 REMARK 3 S TENSOR REMARK 3 S11: 0.0165 S12: 0.1504 S13: 0.2727 REMARK 3 S21: -0.2940 S22: 0.0290 S23: 0.5323 REMARK 3 S31: 0.1801 S32: -0.0930 S33: -0.1392 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 128 THROUGH 324 ) REMARK 3 ORIGIN FOR THE GROUP (A): -8.4684 -36.5066 -33.4933 REMARK 3 T TENSOR REMARK 3 T11: 0.2229 T22: 0.3957 REMARK 3 T33: 0.2132 T12: -0.1387 REMARK 3 T13: -0.0230 T23: 0.0428 REMARK 3 L TENSOR REMARK 3 L11: 1.0157 L22: 0.6379 REMARK 3 L33: 1.2290 L12: 0.1910 REMARK 3 L13: 0.6005 L23: 0.2010 REMARK 3 S TENSOR REMARK 3 S11: -0.1307 S12: 0.3649 S13: 0.0575 REMARK 3 S21: -0.2050 S22: 0.1100 S23: 0.0469 REMARK 3 S31: 0.0272 S32: 0.0946 S33: 0.0110 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 325 THROUGH 416 ) REMARK 3 ORIGIN FOR THE GROUP (A): -0.9900 -49.7530 -31.9245 REMARK 3 T TENSOR REMARK 3 T11: 0.2329 T22: 0.3174 REMARK 3 T33: 0.2326 T12: -0.0650 REMARK 3 T13: -0.0014 T23: -0.0703 REMARK 3 L TENSOR REMARK 3 L11: 1.6337 L22: 1.2926 REMARK 3 L33: 2.1811 L12: 0.3303 REMARK 3 L13: 0.5182 L23: 0.0587 REMARK 3 S TENSOR REMARK 3 S11: -0.0442 S12: 0.4509 S13: -0.1991 REMARK 3 S21: -0.2181 S22: 0.1475 S23: -0.0160 REMARK 3 S31: 0.3624 S32: 0.1879 S33: -0.0966 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 417 THROUGH 510 ) REMARK 3 ORIGIN FOR THE GROUP (A): -2.6569 -41.1269 -17.0606 REMARK 3 T TENSOR REMARK 3 T11: 0.1315 T22: 0.2417 REMARK 3 T33: 0.1785 T12: -0.0674 REMARK 3 T13: -0.0069 T23: 0.0116 REMARK 3 L TENSOR REMARK 3 L11: 0.9744 L22: 0.9191 REMARK 3 L33: 1.9910 L12: -0.3485 REMARK 3 L13: 0.6301 L23: 0.0622 REMARK 3 S TENSOR REMARK 3 S11: -0.0707 S12: 0.2195 S13: -0.0159 REMARK 3 S21: 0.0132 S22: 0.1595 S23: 0.0298 REMARK 3 S31: 0.1940 S32: 0.1122 S33: -0.0615 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 511 THROUGH 611 ) REMARK 3 ORIGIN FOR THE GROUP (A): -8.1869 -27.2748 -13.2717 REMARK 3 T TENSOR REMARK 3 T11: 0.1490 T22: 0.2215 REMARK 3 T33: 0.1885 T12: -0.0412 REMARK 3 T13: -0.0488 T23: 0.0099 REMARK 3 L TENSOR REMARK 3 L11: 1.3917 L22: 2.0621 REMARK 3 L33: 2.2558 L12: -0.0444 REMARK 3 L13: 0.1141 L23: -1.1056 REMARK 3 S TENSOR REMARK 3 S11: -0.1570 S12: 0.0756 S13: 0.2077 REMARK 3 S21: 0.0728 S22: 0.1941 S23: 0.1160 REMARK 3 S31: -0.2219 S32: -0.0858 S33: -0.0033 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 5I85 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-FEB-16. REMARK 100 THE DEPOSITION ID IS D_1000218449. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-JAN-15 REMARK 200 TEMPERATURE (KELVIN) : 90 REMARK 200 PH : 5.0-5.5 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 FR-E+ SUPERBRIGHT 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 : CCD REMARK 200 DETECTOR MANUFACTURER : RIGAKU SATURN 944+ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : IMOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.21 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 34056 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 48.700 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 17.30 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.20000 REMARK 200 FOR THE DATA SET : 12.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.64 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 13.90 REMARK 200 R MERGE FOR SHELL (I) : 0.82200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 0.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 5I81 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 66.02 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.62 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PHOSPHOCHOLINE SOAKED IN WELL SOLUTION REMARK 280 CONTAINING 1.5 M AMMONIUM SULFATE, 0.1 M SODIUM ACETATE PH 5.0- REMARK 280 5.5, 12% GLYCEROL., VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 294K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 64 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z REMARK 290 5555 Y,-X+Y,Z+1/3 REMARK 290 6555 X-Y,X,Z+2/3 REMARK 290 7555 Y,X,-Z+1/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+2/3 REMARK 290 10555 -Y,-X,-Z+1/3 REMARK 290 11555 -X+Y,Y,-Z REMARK 290 12555 X,X-Y,-Z+2/3 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 62.85767 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 125.71533 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 62.85767 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 125.71533 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 62.85767 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 125.71533 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 62.85767 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 125.71533 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 25600 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 89120 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -658.0 KCAL/MOL 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 3 -0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 -1.000000 -62.85767 REMARK 350 BIOMT1 4 0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 4 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 -62.85767 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 950 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 LEU A 47 REMARK 465 SER A 48 REMARK 465 ASP A 49 REMARK 465 SER A 50 REMARK 465 ARG A 51 REMARK 465 VAL A 52 REMARK 465 LEU A 53 REMARK 465 TRP A 54 REMARK 465 ALA A 55 REMARK 465 PRO A 56 REMARK 465 ALA A 57 REMARK 465 GLU A 58 REMARK 465 ALA A 59 REMARK 465 HIS A 60 REMARK 465 PRO A 61 REMARK 465 LEU A 62 REMARK 465 SER A 63 REMARK 465 PRO A 64 REMARK 465 GLN A 65 REMARK 465 GLY A 66 REMARK 465 HIS A 67 REMARK 465 PRO A 68 REMARK 465 ALA A 69 REMARK 465 ARG A 70 REMARK 465 LEU A 71 REMARK 465 HIS A 72 REMARK 465 ARG A 73 REMARK 465 ILE A 74 REMARK 465 VAL A 75 REMARK 465 PRO A 76 REMARK 465 ARG A 77 REMARK 465 LEU A 78 REMARK 465 ARG A 79 REMARK 465 ASP A 80 REMARK 465 VAL A 81 REMARK 465 PHE A 82 REMARK 465 GLY A 83 REMARK 465 PRO A 612 REMARK 465 ASP A 613 REMARK 465 GLY A 614 REMARK 465 SER A 615 REMARK 465 LEU A 616 REMARK 465 PRO A 617 REMARK 465 GLU A 618 REMARK 465 ALA A 619 REMARK 465 GLN A 620 REMARK 465 SER A 621 REMARK 465 LEU A 622 REMARK 465 TRP A 623 REMARK 465 PRO A 624 REMARK 465 ARG A 625 REMARK 465 PRO A 626 REMARK 465 LEU A 627 REMARK 465 PHE A 628 REMARK 465 CYS A 629 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 ND2 ASN A 175 C1 NAG A 702 1.61 REMARK 500 ND2 ASN A 86 C1 NAG A 701 1.87 REMARK 500 OD1 ASN A 335 C1 NAG B 1 1.93 REMARK 500 O HOH A 1018 O HOH A 1036 2.11 REMARK 500 OD1 ASN A 108 NH1 ARG A 111 2.14 REMARK 500 O HOH A 1023 O HOH A 1044 2.16 REMARK 500 NH1 ARG A 200 O ALA A 267 2.17 REMARK 500 ND2 ASN A 520 O5 NAG D 1 2.18 REMARK 500 O HOH A 992 O HOH A 1055 2.19 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 LYS A 124 41.33 38.89 REMARK 500 SER A 149 -84.56 -131.80 REMARK 500 CYS A 165 -60.51 -90.03 REMARK 500 ASP A 220 53.62 -109.21 REMARK 500 CYS A 226 -156.01 -125.16 REMARK 500 ASP A 251 -162.59 -107.75 REMARK 500 THR A 276 42.29 -100.73 REMARK 500 ASP A 278 76.28 74.32 REMARK 500 HIS A 286 72.21 -150.57 REMARK 500 ASN A 395 112.38 -163.90 REMARK 500 ASP A 398 66.50 21.91 REMARK 500 HIS A 425 -78.90 -95.38 REMARK 500 HIS A 457 -38.75 69.70 REMARK 500 HIS A 459 -10.76 76.23 REMARK 500 SER A 473 -10.90 -142.57 REMARK 500 SER A 598 71.39 -104.91 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 NAG B 1 REMARK 610 NAG A 701 REMARK 610 NAG A 702 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 ZN A 715 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 206 OD1 REMARK 620 2 HIS A 208 NE2 113.6 REMARK 620 3 ASP A 278 OD2 82.1 83.4 REMARK 620 4 HIS A 459 NE2 94.3 101.9 174.5 REMARK 620 5 PC A 727 O1 160.0 81.3 86.8 95.5 REMARK 620 6 PC A 727 O4 104.7 133.1 76.1 101.0 56.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 714 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 278 OD2 REMARK 620 2 ASN A 318 OD1 101.9 REMARK 620 3 HIS A 425 NE2 93.9 81.7 REMARK 620 4 HIS A 457 ND1 159.1 99.0 89.8 REMARK 620 5 PC A 727 O4 79.8 135.5 142.8 84.9 REMARK 620 N 1 2 3 4 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5I81 RELATED DB: PDB REMARK 900 5I81 CONTAINS THE SAME PROTEIN BUT WITHOUT PHOSPHOCHOLINE. REMARK 900 RELATED ID: 5I8R RELATED DB: PDB DBREF 5I85 A 47 629 UNP P17405 ASM_HUMAN 47 629 SEQRES 1 A 583 LEU SER ASP SER ARG VAL LEU TRP ALA PRO ALA GLU ALA SEQRES 2 A 583 HIS PRO LEU SER PRO GLN GLY HIS PRO ALA ARG LEU HIS SEQRES 3 A 583 ARG ILE VAL PRO ARG LEU ARG ASP VAL PHE GLY TRP GLY SEQRES 4 A 583 ASN LEU THR CYS PRO ILE CYS LYS GLY LEU PHE THR ALA SEQRES 5 A 583 ILE ASN LEU GLY LEU LYS LYS GLU PRO ASN VAL ALA ARG SEQRES 6 A 583 VAL GLY SER VAL ALA ILE LYS LEU CYS ASN LEU LEU LYS SEQRES 7 A 583 ILE ALA PRO PRO ALA VAL CYS GLN SER ILE VAL HIS LEU SEQRES 8 A 583 PHE GLU ASP ASP MET VAL GLU VAL TRP ARG ARG SER VAL SEQRES 9 A 583 LEU SER PRO SER GLU ALA CYS GLY LEU LEU LEU GLY SER SEQRES 10 A 583 THR CYS GLY HIS TRP ASP ILE PHE SER SER TRP ASN ILE SEQRES 11 A 583 SER LEU PRO THR VAL PRO LYS PRO PRO PRO LYS PRO PRO SEQRES 12 A 583 SER PRO PRO ALA PRO GLY ALA PRO VAL SER ARG ILE LEU SEQRES 13 A 583 PHE LEU THR ASP LEU HIS TRP ASP HIS ASP TYR LEU GLU SEQRES 14 A 583 GLY THR ASP PRO ASP CYS ALA ASP PRO LEU CYS CYS ARG SEQRES 15 A 583 ARG GLY SER GLY LEU PRO PRO ALA SER ARG PRO GLY ALA SEQRES 16 A 583 GLY TYR TRP GLY GLU TYR SER LYS CYS ASP LEU PRO LEU SEQRES 17 A 583 ARG THR LEU GLU SER LEU LEU SER GLY LEU GLY PRO ALA SEQRES 18 A 583 GLY PRO PHE ASP MET VAL TYR TRP THR GLY ASP ILE PRO SEQRES 19 A 583 ALA HIS ASP VAL TRP HIS GLN THR ARG GLN ASP GLN LEU SEQRES 20 A 583 ARG ALA LEU THR THR VAL THR ALA LEU VAL ARG LYS PHE SEQRES 21 A 583 LEU GLY PRO VAL PRO VAL TYR PRO ALA VAL GLY ASN HIS SEQRES 22 A 583 GLU SER THR PRO VAL ASN SER PHE PRO PRO PRO PHE ILE SEQRES 23 A 583 GLU GLY ASN HIS SER SER ARG TRP LEU TYR GLU ALA MET SEQRES 24 A 583 ALA LYS ALA TRP GLU PRO TRP LEU PRO ALA GLU ALA LEU SEQRES 25 A 583 ARG THR LEU ARG ILE GLY GLY PHE TYR ALA LEU SER PRO SEQRES 26 A 583 TYR PRO GLY LEU ARG LEU ILE SER LEU ASN MET ASN PHE SEQRES 27 A 583 CYS SER ARG GLU ASN PHE TRP LEU LEU ILE ASN SER THR SEQRES 28 A 583 ASP PRO ALA GLY GLN LEU GLN TRP LEU VAL GLY GLU LEU SEQRES 29 A 583 GLN ALA ALA GLU ASP ARG GLY ASP LYS VAL HIS ILE ILE SEQRES 30 A 583 GLY HIS ILE PRO PRO GLY HIS CYS LEU LYS SER TRP SER SEQRES 31 A 583 TRP ASN TYR TYR ARG ILE VAL ALA ARG TYR GLU ASN THR SEQRES 32 A 583 LEU ALA ALA GLN PHE PHE GLY HIS THR HIS VAL ASP GLU SEQRES 33 A 583 PHE GLU VAL PHE TYR ASP GLU GLU THR LEU SER ARG PRO SEQRES 34 A 583 LEU ALA VAL ALA PHE LEU ALA PRO SER ALA THR THR TYR SEQRES 35 A 583 ILE GLY LEU ASN PRO GLY TYR ARG VAL TYR GLN ILE ASP SEQRES 36 A 583 GLY ASN TYR SER GLY SER SER HIS VAL VAL LEU ASP HIS SEQRES 37 A 583 GLU THR TYR ILE LEU ASN LEU THR GLN ALA ASN ILE PRO SEQRES 38 A 583 GLY ALA ILE PRO HIS TRP GLN LEU LEU TYR ARG ALA ARG SEQRES 39 A 583 GLU THR TYR GLY LEU PRO ASN THR LEU PRO THR ALA TRP SEQRES 40 A 583 HIS ASN LEU VAL TYR ARG MET ARG GLY ASP MET GLN LEU SEQRES 41 A 583 PHE GLN THR PHE TRP PHE LEU TYR HIS LYS GLY HIS PRO SEQRES 42 A 583 PRO SER GLU PRO CYS GLY THR PRO CYS ARG LEU ALA THR SEQRES 43 A 583 LEU CYS ALA GLN LEU SER ALA ARG ALA ASP SER PRO ALA SEQRES 44 A 583 LEU CYS ARG HIS LEU MET PRO ASP GLY SER LEU PRO GLU SEQRES 45 A 583 ALA GLN SER LEU TRP PRO ARG PRO LEU PHE CYS HET NAG B 1 14 HET NAG B 2 14 HET BMA B 3 11 HET NAG C 1 14 HET NAG C 2 14 HET BMA C 3 11 HET MAN C 4 11 HET MAN C 5 11 HET NAG D 1 14 HET NAG D 2 14 HET NAG A 701 14 HET NAG A 702 14 HET NAG A 711 14 HET ZN A 714 1 HET ZN A 715 1 HET SO4 A 716 5 HET SO4 A 717 5 HET SO4 A 718 5 HET SO4 A 719 5 HET SO4 A 720 5 HET SO4 A 721 5 HET SO4 A 722 5 HET SO4 A 723 5 HET SO4 A 724 5 HET SO4 A 725 5 HET SO4 A 726 5 HET PC A 727 11 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM BMA BETA-D-MANNOPYRANOSE HETNAM MAN ALPHA-D-MANNOPYRANOSE HETNAM ZN ZINC ION HETNAM SO4 SULFATE ION HETNAM PC PHOSPHOCHOLINE 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 BMA BETA-D-MANNOSE; D-MANNOSE; MANNOSE HETSYN MAN ALPHA-D-MANNOSE; D-MANNOSE; MANNOSE FORMUL 2 NAG 9(C8 H15 N O6) FORMUL 2 BMA 2(C6 H12 O6) FORMUL 3 MAN 2(C6 H12 O6) FORMUL 8 ZN 2(ZN 2+) FORMUL 10 SO4 11(O4 S 2-) FORMUL 21 PC C5 H15 N O4 P 1+ FORMUL 22 HOH *261(H2 O) HELIX 1 AA1 TRP A 84 ASN A 86 5 3 HELIX 2 AA2 LEU A 87 LYS A 104 1 18 HELIX 3 AA3 LYS A 105 LEU A 123 1 19 HELIX 4 AA4 PRO A 127 SER A 149 1 23 HELIX 5 AA5 SER A 152 GLY A 162 1 11 HELIX 6 AA6 PRO A 253 GLY A 263 1 11 HELIX 7 AA7 LEU A 264 GLY A 268 5 5 HELIX 8 AA8 THR A 288 GLY A 308 1 21 HELIX 9 AA9 SER A 338 TRP A 349 1 12 HELIX 10 AB1 PRO A 354 GLY A 365 1 12 HELIX 11 AB2 ASN A 381 CYS A 385 5 5 HELIX 12 AB3 ASN A 389 ILE A 394 5 6 HELIX 13 AB4 ASP A 398 ALA A 400 5 3 HELIX 14 AB5 GLY A 401 GLY A 417 1 17 HELIX 15 AB6 PRO A 427 CYS A 431 5 5 HELIX 16 AB7 LEU A 432 TYR A 446 1 15 HELIX 17 AB8 ASN A 520 ASN A 525 1 6 HELIX 18 AB9 ALA A 539 GLY A 544 1 6 HELIX 19 AC1 LEU A 549 ASP A 563 1 15 HELIX 20 AC2 ASP A 563 HIS A 575 1 13 HELIX 21 AC3 GLY A 585 LEU A 597 1 13 HELIX 22 AC4 SER A 603 ARG A 608 5 6 SHEET 1 AA1 6 VAL A 312 PRO A 314 0 SHEET 2 AA1 6 MET A 272 TRP A 275 1 N VAL A 273 O TYR A 313 SHEET 3 AA1 6 VAL A 198 LEU A 204 1 N LEU A 202 O TYR A 274 SHEET 4 AA1 6 GLY A 494 ASP A 501 -1 O ARG A 496 N PHE A 203 SHEET 5 AA1 6 VAL A 511 ILE A 518 -1 O LEU A 512 N GLN A 499 SHEET 6 AA1 6 GLN A 534 ARG A 538 -1 O LEU A 536 N THR A 516 SHEET 1 AA2 6 TYR A 367 TYR A 372 0 SHEET 2 AA2 6 LEU A 375 SER A 379 -1 O LEU A 377 N LEU A 369 SHEET 3 AA2 6 LYS A 419 ILE A 423 1 O LYS A 419 N ARG A 376 SHEET 4 AA2 6 LEU A 450 PHE A 455 1 O ALA A 451 N VAL A 420 SHEET 5 AA2 6 PRO A 475 LEU A 481 1 O PHE A 480 N PHE A 455 SHEET 6 AA2 6 GLU A 462 TYR A 467 -1 N PHE A 466 O LEU A 476 SSBOND 1 CYS A 89 CYS A 165 1555 1555 2.03 SSBOND 2 CYS A 92 CYS A 157 1555 1555 2.09 SSBOND 3 CYS A 120 CYS A 131 1555 1555 2.03 SSBOND 4 CYS A 221 CYS A 226 1555 1555 2.06 SSBOND 5 CYS A 227 CYS A 250 1555 1555 2.03 SSBOND 6 CYS A 385 CYS A 431 1555 1555 2.03 SSBOND 7 CYS A 584 CYS A 588 1555 1555 2.04 SSBOND 8 CYS A 594 CYS A 607 1555 1555 2.02 LINK ND2 ASN A 395 C1 NAG C 1 1555 1555 1.42 LINK ND2 ASN A 503 C1 NAG A 711 1555 1555 1.48 LINK ND2 ASN A 520 C1 NAG D 1 1555 1555 1.37 LINK O4 NAG B 1 C1 NAG B 2 1555 1555 1.40 LINK O4 NAG B 2 C1 BMA B 3 1555 1555 1.41 LINK O4 NAG C 1 C1 NAG C 2 1555 1555 1.46 LINK O4 NAG C 2 C1 BMA C 3 1555 1555 1.43 LINK O6 BMA C 3 C1 MAN C 4 1555 1555 1.44 LINK O3 MAN C 4 C1 MAN C 5 1555 1555 1.43 LINK O4 NAG D 1 C1 NAG D 2 1555 1555 1.38 LINK OD1 ASP A 206 ZN ZN A 715 1555 1555 2.11 LINK NE2 HIS A 208 ZN ZN A 715 1555 1555 2.22 LINK OD2 ASP A 278 ZN ZN A 714 1555 1555 2.36 LINK OD2 ASP A 278 ZN ZN A 715 1555 1555 2.11 LINK OD1 ASN A 318 ZN ZN A 714 1555 1555 2.05 LINK NE2 HIS A 425 ZN ZN A 714 1555 1555 2.04 LINK ND1 HIS A 457 ZN ZN A 714 1555 1555 2.18 LINK NE2 HIS A 459 ZN ZN A 715 1555 1555 2.08 LINK ZN ZN A 714 O4 PC A 727 1555 1555 2.10 LINK ZN ZN A 715 O1 PC A 727 1555 1555 2.52 LINK ZN ZN A 715 O4 PC A 727 1555 1555 2.51 CISPEP 1 GLY A 268 PRO A 269 0 -3.62 CISPEP 2 THR A 322 PRO A 323 0 -5.31 CISPEP 3 TYR A 488 ILE A 489 0 -3.90 CRYST1 131.601 131.601 188.573 90.00 90.00 120.00 P 64 2 2 12 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 0.007599 0.004387 0.000000 0.00000 SCALE2 0.000000 0.008774 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005303 0.00000