HEADER HYDROLASE 15-OCT-13 4CBN TITLE CRYSTAL STRUCTURE OF COMPLEMENT FACTOR D MUTANT R202A AFTER TITLE 2 CONVENTIONAL REFINEMENT COMPND MOL_ID: 1; COMPND 2 MOLECULE: COMPLEMENT FACTOR D; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: RESIDUES 26-253; COMPND 5 SYNONYM: ADIPSIN, C3 CONVERTASE ACTIVATOR, PROPERDIN FACTOR D; COMPND 6 EC: 3.4.21.46; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; 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 KEYWDS HYDROLASE, COMPLEMENT SYSTEM, ENSEMBLE REFINEMENT EXPDTA X-RAY DIFFRACTION AUTHOR F.FORNERIS,B.T.BURNLEY,P.GROS REVDAT 4 20-DEC-23 4CBN 1 REMARK REVDAT 3 19-MAR-14 4CBN 1 JRNL REVDAT 2 12-MAR-14 4CBN 1 JRNL REVDAT 1 18-DEC-13 4CBN 0 JRNL AUTH F.FORNERIS,B.T.BURNLEY,P.GROS JRNL TITL ENSEMBLE REFINEMENT SHOWS CONFORMATIONAL FLEXIBILITY IN JRNL TITL 2 CRYSTAL STRUCTURES OF HUMAN COMPLEMENT FACTOR D JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 70 733 2014 JRNL REFN ISSN 0907-4449 JRNL PMID 24598742 JRNL DOI 10.1107/S1399004713032549 REMARK 2 REMARK 2 RESOLUTION. 1.80 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.33 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 3 NUMBER OF REFLECTIONS : 37152 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.191 REMARK 3 R VALUE (WORKING SET) : 0.190 REMARK 3 FREE R VALUE : 0.219 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1857 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 47.3479 - 4.2315 0.98 2899 155 0.1983 0.1944 REMARK 3 2 4.2315 - 3.3589 0.96 2709 130 0.1574 0.1900 REMARK 3 3 3.3589 - 2.9344 0.99 2751 137 0.1750 0.2146 REMARK 3 4 2.9344 - 2.6662 0.98 2712 157 0.1849 0.2188 REMARK 3 5 2.6662 - 2.4751 0.99 2723 134 0.1945 0.2249 REMARK 3 6 2.4751 - 2.3291 0.98 2669 154 0.1910 0.2453 REMARK 3 7 2.3291 - 2.2125 1.00 2731 133 0.1868 0.2239 REMARK 3 8 2.2125 - 2.1162 0.98 2654 158 0.1921 0.2154 REMARK 3 9 2.1162 - 2.0347 0.99 2723 120 0.1973 0.2220 REMARK 3 10 2.0347 - 1.9645 0.99 2689 137 0.2050 0.2675 REMARK 3 11 1.9645 - 1.9031 1.00 2694 150 0.2252 0.2530 REMARK 3 12 1.9031 - 1.8487 0.99 2658 144 0.2465 0.2836 REMARK 3 13 1.8487 - 1.8000 0.99 2683 148 0.2605 0.2893 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) : 0.200 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.680 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 20.81 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.20 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 : 0.007 3729 REMARK 3 ANGLE : 1.242 5097 REMARK 3 CHIRALITY : 0.083 570 REMARK 3 PLANARITY : 0.008 685 REMARK 3 DIHEDRAL : 15.422 1407 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 10 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN A AND (RESSEQ 1:32) REMARK 3 ORIGIN FOR THE GROUP (A): -15.2263 21.7797 -16.2857 REMARK 3 T TENSOR REMARK 3 T11: 0.0965 T22: 0.1357 REMARK 3 T33: 0.2250 T12: 0.0204 REMARK 3 T13: -0.0117 T23: -0.0256 REMARK 3 L TENSOR REMARK 3 L11: 1.6265 L22: 1.5208 REMARK 3 L33: 2.1251 L12: -0.1954 REMARK 3 L13: 0.3662 L23: 0.0250 REMARK 3 S TENSOR REMARK 3 S11: -0.0669 S12: -0.0231 S13: 0.4355 REMARK 3 S21: 0.1702 S22: 0.0793 S23: -0.0969 REMARK 3 S31: -0.1788 S32: -0.0671 S33: 0.0755 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN A AND (RESSEQ 33:55) REMARK 3 ORIGIN FOR THE GROUP (A): -16.1876 8.8784 -12.6134 REMARK 3 T TENSOR REMARK 3 T11: 0.1481 T22: 0.1972 REMARK 3 T33: 0.1700 T12: 0.0212 REMARK 3 T13: 0.0298 T23: 0.0082 REMARK 3 L TENSOR REMARK 3 L11: 2.8850 L22: 2.1968 REMARK 3 L33: 1.2556 L12: 0.0530 REMARK 3 L13: -0.8121 L23: 0.5803 REMARK 3 S TENSOR REMARK 3 S11: -0.1062 S12: -0.4095 S13: -0.3615 REMARK 3 S21: 0.2134 S22: 0.0961 S23: 0.1448 REMARK 3 S31: 0.2270 S32: 0.0054 S33: 0.0134 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN A AND (RESSEQ 56:171) REMARK 3 ORIGIN FOR THE GROUP (A): -7.3209 16.7582 -16.2217 REMARK 3 T TENSOR REMARK 3 T11: 0.1209 T22: 0.1400 REMARK 3 T33: 0.1003 T12: 0.0136 REMARK 3 T13: -0.0023 T23: -0.0343 REMARK 3 L TENSOR REMARK 3 L11: 2.7136 L22: 1.2227 REMARK 3 L33: 0.4276 L12: -0.2697 REMARK 3 L13: -0.2830 L23: -0.0888 REMARK 3 S TENSOR REMARK 3 S11: -0.0507 S12: -0.1442 S13: 0.2402 REMARK 3 S21: 0.1385 S22: 0.0336 S23: -0.0098 REMARK 3 S31: -0.0107 S32: -0.0177 S33: 0.0200 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN A AND (RESSEQ 172:185) REMARK 3 ORIGIN FOR THE GROUP (A): -2.9757 25.9002 -9.8308 REMARK 3 T TENSOR REMARK 3 T11: 0.5356 T22: 0.4962 REMARK 3 T33: 0.8337 T12: -0.0390 REMARK 3 T13: -0.0252 T23: -0.1440 REMARK 3 L TENSOR REMARK 3 L11: 2.0994 L22: 1.7834 REMARK 3 L33: 0.9065 L12: 0.7362 REMARK 3 L13: 0.3094 L23: 0.8465 REMARK 3 S TENSOR REMARK 3 S11: 0.1631 S12: -0.9044 S13: 1.1020 REMARK 3 S21: 0.5409 S22: -0.1065 S23: -0.1371 REMARK 3 S31: -0.5317 S32: 0.2581 S33: -0.0783 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN A AND (RESSEQ 186:210) REMARK 3 ORIGIN FOR THE GROUP (A): -1.0777 20.4685 -12.9353 REMARK 3 T TENSOR REMARK 3 T11: 0.2623 T22: 0.3044 REMARK 3 T33: 0.1929 T12: -0.0500 REMARK 3 T13: -0.0308 T23: -0.0400 REMARK 3 L TENSOR REMARK 3 L11: 2.2837 L22: 1.9729 REMARK 3 L33: 2.5499 L12: 0.5364 REMARK 3 L13: 1.1538 L23: 0.7568 REMARK 3 S TENSOR REMARK 3 S11: 0.1989 S12: -0.5529 S13: 0.2836 REMARK 3 S21: 0.5528 S22: -0.2036 S23: -0.1650 REMARK 3 S31: 0.0735 S32: 0.1512 S33: -0.0273 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN A AND (RESSEQ 211:228) REMARK 3 ORIGIN FOR THE GROUP (A): -3.3155 7.8086 -21.1415 REMARK 3 T TENSOR REMARK 3 T11: 0.1147 T22: 0.1439 REMARK 3 T33: 0.0744 T12: 0.0141 REMARK 3 T13: -0.0023 T23: 0.0003 REMARK 3 L TENSOR REMARK 3 L11: 1.6343 L22: 2.9970 REMARK 3 L33: 1.9788 L12: 0.2880 REMARK 3 L13: -0.2810 L23: 0.8387 REMARK 3 S TENSOR REMARK 3 S11: -0.0686 S12: 0.1219 S13: -0.0520 REMARK 3 S21: -0.2556 S22: -0.0793 S23: -0.0340 REMARK 3 S31: 0.0787 S32: -0.1185 S33: 0.1353 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN B AND (RESSEQ 1:32) REMARK 3 ORIGIN FOR THE GROUP (A): -5.4040 21.4290 -47.5204 REMARK 3 T TENSOR REMARK 3 T11: 0.2028 T22: 0.1113 REMARK 3 T33: 0.0736 T12: -0.0118 REMARK 3 T13: 0.0403 T23: 0.0119 REMARK 3 L TENSOR REMARK 3 L11: 1.2311 L22: 0.9729 REMARK 3 L33: 1.4194 L12: 0.4438 REMARK 3 L13: 0.2436 L23: -0.7070 REMARK 3 S TENSOR REMARK 3 S11: -0.0553 S12: -0.1106 S13: 0.0517 REMARK 3 S21: -0.1911 S22: 0.0180 S23: -0.2746 REMARK 3 S31: 0.1617 S32: 0.0470 S33: 0.0264 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN B AND (RESSEQ 33:55) REMARK 3 ORIGIN FOR THE GROUP (A): -4.4739 9.5434 -50.1276 REMARK 3 T TENSOR REMARK 3 T11: 0.4750 T22: 0.1600 REMARK 3 T33: 0.1721 T12: 0.0602 REMARK 3 T13: 0.0315 T23: -0.0473 REMARK 3 L TENSOR REMARK 3 L11: 1.5890 L22: 0.2918 REMARK 3 L33: 1.3484 L12: 0.3770 REMARK 3 L13: -0.2987 L23: 0.2603 REMARK 3 S TENSOR REMARK 3 S11: 0.2738 S12: 0.1663 S13: -0.5515 REMARK 3 S21: -0.6035 S22: -0.1053 S23: -0.3558 REMARK 3 S31: 0.8135 S32: 0.1915 S33: 0.0469 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN B AND (RESSEQ 56:185) REMARK 3 ORIGIN FOR THE GROUP (A): -13.8106 18.1615 -50.1428 REMARK 3 T TENSOR REMARK 3 T11: 0.2326 T22: 0.1062 REMARK 3 T33: 0.1019 T12: -0.0403 REMARK 3 T13: -0.0376 T23: 0.0137 REMARK 3 L TENSOR REMARK 3 L11: 1.5857 L22: 2.5287 REMARK 3 L33: 1.8747 L12: -0.2034 REMARK 3 L13: 0.2283 L23: -1.0052 REMARK 3 S TENSOR REMARK 3 S11: 0.0395 S12: 0.0493 S13: -0.0959 REMARK 3 S21: -0.5030 S22: 0.1125 S23: 0.2465 REMARK 3 S31: 0.2880 S32: -0.1601 S33: -0.0647 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN B AND (RESSEQ 186:228) REMARK 3 ORIGIN FOR THE GROUP (A): -18.3586 15.9713 -50.7582 REMARK 3 T TENSOR REMARK 3 T11: 0.3568 T22: 0.2000 REMARK 3 T33: 0.1608 T12: -0.0893 REMARK 3 T13: -0.0851 T23: 0.0580 REMARK 3 L TENSOR REMARK 3 L11: 2.3527 L22: 1.5088 REMARK 3 L33: 1.4459 L12: 0.0144 REMARK 3 L13: 0.2987 L23: 0.0188 REMARK 3 S TENSOR REMARK 3 S11: 0.1102 S12: -0.0532 S13: -0.0727 REMARK 3 S21: -0.6460 S22: 0.1275 S23: 0.6149 REMARK 3 S31: 0.2643 S32: -0.4096 S33: -0.0856 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : 1 REMARK 3 NCS GROUP : 1 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THIS ENTRY IS RELATED TO PDB ENTRY REMARK 3 4CBO. THESE TWO ENTRIES REFER TO THE SAME CRYSTAL STRUCTURE, REMARK 3 REFINED USING CONVENTIONAL AND ENSEMBLE REFINEMENT. REMARK 4 REMARK 4 4CBN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 15-OCT-13. REMARK 100 THE DEPOSITION ID IS D_1290058736. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : IMOSFLM REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 37211 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 47.330 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : 0.14000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 4.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.84 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.1 REMARK 200 DATA REDUNDANCY IN SHELL : 3.30 REMARK 200 R MERGE FOR SHELL (I) : 0.51000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.900 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: PDB ENTRY 1DSU REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.03 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 15% PEG 6000, 50 MM MES/NAOH, PH 6.0 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 22.07000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 66.57000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 33.65500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 66.57000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 22.07000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 33.65500 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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 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 350 REMARK 350 BIOMOLECULE: 2 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: B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 475 REMARK 475 ZERO OCCUPANCY RESIDUES REMARK 475 THE FOLLOWING RESIDUES WERE MODELED WITH ZERO OCCUPANCY. REMARK 475 THE LOCATION AND PROPERTIES OF THESE RESIDUES MAY NOT REMARK 475 BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 475 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE) REMARK 475 M RES C SSEQI REMARK 475 GLY A 200 REMARK 475 SER A 201 REMARK 475 ALA A 202 REMARK 475 VAL A 203 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 2003 O HOH A 2021 1.96 REMARK 500 O HOH B 2045 O HOH B 2060 1.98 REMARK 500 OE1 GLU B 33 O HOH A 2114 2.04 REMARK 500 O HOH B 2094 O HOH B 2096 2.09 REMARK 500 OG1 THR B 165 O HOH B 2074 2.10 REMARK 500 O2 GOL B 1230 O HOH B 2137 2.11 REMARK 500 O HOH B 2136 O HOH B 2137 2.11 REMARK 500 O HOH A 2035 O HOH A 2036 2.14 REMARK 500 OD1 ASP B 114 NH2 ARG B 215 2.17 REMARK 500 NE2 GLN B 62 O HOH B 2054 2.18 REMARK 500 NH2 ARG A 106 O HOH A 2105 2.18 REMARK 500 O HOH A 2057 O HOH A 2136 2.19 REMARK 500 O PRO B 79 O HOH B 2069 2.19 REMARK 500 ND2 ASN A 132 O HOH A 2136 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 2092 O HOH B 2110 3544 2.16 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 167 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 ARG A 167 NE - CZ - NH2 ANGL. DEV. = -3.4 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 GLU A 44 59.49 -58.70 REMARK 500 GLU A 44 57.47 -64.74 REMARK 500 GLU A 44 59.17 -58.67 REMARK 500 ASP A 45 -30.35 178.55 REMARK 500 ASP A 45 -30.35 -168.50 REMARK 500 ASP A 45 -30.35 -178.46 REMARK 500 ALA A 47 -110.41 54.73 REMARK 500 HIS A 159 -113.03 -87.47 REMARK 500 ARG A 175 -19.32 90.94 REMARK 500 ARG A 175 -18.84 110.65 REMARK 500 SER A 199 126.41 -37.61 REMARK 500 SER A 199 126.41 -33.24 REMARK 500 SER B 38 -158.94 -147.62 REMARK 500 ALA B 46 78.16 42.30 REMARK 500 HIS B 159 -112.09 -91.16 REMARK 500 ARG B 175 -16.53 77.07 REMARK 500 SER B 199 71.78 -11.15 REMARK 500 SER B 199 71.78 26.24 REMARK 500 VAL B 203 54.72 -115.85 REMARK 500 LYS B 209 78.15 -119.71 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 ASN A 174 -14.58 REMARK 500 REMARK 500 REMARK: NULL REMARK 700 REMARK 700 SHEET REMARK 700 DETERMINATION METHOD: DSSP REMARK 700 THE SHEETS PRESENTED AS "AA" IN EACH CHAIN ON SHEET RECORDS REMARK 700 BELOW IS ACTUALLY AN 7-STRANDED BARREL THIS IS REPRESENTED BY REMARK 700 A 8-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS REMARK 700 ARE IDENTICAL. REMARK 700 THE SHEETS PRESENTED AS "AB" IN EACH CHAIN ON SHEET RECORDS REMARK 700 BELOW IS ACTUALLY AN 6-STRANDED BARREL THIS IS REPRESENTED BY REMARK 700 A 7-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS REMARK 700 ARE IDENTICAL. REMARK 700 THE SHEETS PRESENTED AS "BA" IN EACH CHAIN ON SHEET RECORDS REMARK 700 BELOW IS ACTUALLY AN 7-STRANDED BARREL THIS IS REPRESENTED BY REMARK 700 A 8-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS REMARK 700 ARE IDENTICAL. REMARK 700 THE SHEETS PRESENTED AS "BB" IN EACH CHAIN ON SHEET RECORDS REMARK 700 BELOW IS ACTUALLY AN 6-STRANDED BARREL THIS IS REPRESENTED BY REMARK 700 A 7-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS REMARK 700 ARE IDENTICAL. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1229 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 1229 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 1230 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4CBO RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF COMPLEMENT FACTOR D MUTANT R202A AFTER REMARK 900 ENSEMBLE REFINEMENT DBREF 4CBN A 1 228 UNP P00746 CFAD_HUMAN 26 253 DBREF 4CBN B 1 228 UNP P00746 CFAD_HUMAN 26 253 SEQADV 4CBN ALA A 202 UNP P00746 ARG 227 ENGINEERED MUTATION SEQADV 4CBN ALA B 202 UNP P00746 ARG 227 ENGINEERED MUTATION SEQRES 1 A 228 ILE LEU GLY GLY ARG GLU ALA GLU ALA HIS ALA ARG PRO SEQRES 2 A 228 TYR MET ALA SER VAL GLN LEU ASN GLY ALA HIS LEU CYS SEQRES 3 A 228 GLY GLY VAL LEU VAL ALA GLU GLN TRP VAL LEU SER ALA SEQRES 4 A 228 ALA HIS CYS LEU GLU ASP ALA ALA ASP GLY LYS VAL GLN SEQRES 5 A 228 VAL LEU LEU GLY ALA HIS SER LEU SER GLN PRO GLU PRO SEQRES 6 A 228 SER LYS ARG LEU TYR ASP VAL LEU ARG ALA VAL PRO HIS SEQRES 7 A 228 PRO ASP SER GLN PRO ASP THR ILE ASP HIS ASP LEU LEU SEQRES 8 A 228 LEU LEU GLN LEU SER GLU LYS ALA THR LEU GLY PRO ALA SEQRES 9 A 228 VAL ARG PRO LEU PRO TRP GLN ARG VAL ASP ARG ASP VAL SEQRES 10 A 228 ALA PRO GLY THR LEU CYS ASP VAL ALA GLY TRP GLY ILE SEQRES 11 A 228 VAL ASN HIS ALA GLY ARG ARG PRO ASP SER LEU GLN HIS SEQRES 12 A 228 VAL LEU LEU PRO VAL LEU ASP ARG ALA THR CYS ASN ARG SEQRES 13 A 228 ARG THR HIS HIS ASP GLY ALA ILE THR GLU ARG LEU MET SEQRES 14 A 228 CYS ALA GLU SER ASN ARG ARG ASP SER CYS LYS GLY ASP SEQRES 15 A 228 SER GLY GLY PRO LEU VAL CYS GLY GLY VAL LEU GLU GLY SEQRES 16 A 228 VAL VAL THR SER GLY SER ALA VAL CYS GLY ASN ARG LYS SEQRES 17 A 228 LYS PRO GLY ILE TYR THR ARG VAL ALA SER TYR ALA ALA SEQRES 18 A 228 TRP ILE ASP SER VAL LEU ALA SEQRES 1 B 228 ILE LEU GLY GLY ARG GLU ALA GLU ALA HIS ALA ARG PRO SEQRES 2 B 228 TYR MET ALA SER VAL GLN LEU ASN GLY ALA HIS LEU CYS SEQRES 3 B 228 GLY GLY VAL LEU VAL ALA GLU GLN TRP VAL LEU SER ALA SEQRES 4 B 228 ALA HIS CYS LEU GLU ASP ALA ALA ASP GLY LYS VAL GLN SEQRES 5 B 228 VAL LEU LEU GLY ALA HIS SER LEU SER GLN PRO GLU PRO SEQRES 6 B 228 SER LYS ARG LEU TYR ASP VAL LEU ARG ALA VAL PRO HIS SEQRES 7 B 228 PRO ASP SER GLN PRO ASP THR ILE ASP HIS ASP LEU LEU SEQRES 8 B 228 LEU LEU GLN LEU SER GLU LYS ALA THR LEU GLY PRO ALA SEQRES 9 B 228 VAL ARG PRO LEU PRO TRP GLN ARG VAL ASP ARG ASP VAL SEQRES 10 B 228 ALA PRO GLY THR LEU CYS ASP VAL ALA GLY TRP GLY ILE SEQRES 11 B 228 VAL ASN HIS ALA GLY ARG ARG PRO ASP SER LEU GLN HIS SEQRES 12 B 228 VAL LEU LEU PRO VAL LEU ASP ARG ALA THR CYS ASN ARG SEQRES 13 B 228 ARG THR HIS HIS ASP GLY ALA ILE THR GLU ARG LEU MET SEQRES 14 B 228 CYS ALA GLU SER ASN ARG ARG ASP SER CYS LYS GLY ASP SEQRES 15 B 228 SER GLY GLY PRO LEU VAL CYS GLY GLY VAL LEU GLU GLY SEQRES 16 B 228 VAL VAL THR SER GLY SER ALA VAL CYS GLY ASN ARG LYS SEQRES 17 B 228 LYS PRO GLY ILE TYR THR ARG VAL ALA SER TYR ALA ALA SEQRES 18 B 228 TRP ILE ASP SER VAL LEU ALA HET GOL A1229 6 HET GOL B1229 6 HET GOL B1230 12 HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 GOL 3(C3 H8 O3) FORMUL 6 HOH *308(H2 O) HELIX 1 1 ALA A 39 LEU A 43 5 5 HELIX 2 2 ASP A 150 ASN A 155 1 6 HELIX 3 3 TYR A 219 ALA A 228 1 10 HELIX 4 4 ALA B 39 ASP B 45 1 7 HELIX 5 5 ASP B 150 ASN B 155 1 6 HELIX 6 6 TYR B 219 ALA B 228 1 10 SHEET 1 AA 8 ARG A 5 GLU A 6 0 SHEET 2 AA 8 GLN A 142 LEU A 149 -1 O HIS A 143 N ARG A 5 SHEET 3 AA 8 LEU A 168 ALA A 171 -1 O CYS A 170 N LEU A 149 SHEET 4 AA 8 GLY A 211 ARG A 215 -1 O GLY A 211 N ALA A 171 SHEET 5 AA 8 VAL A 192 VAL A 197 -1 O VAL A 196 N THR A 214 SHEET 6 AA 8 PRO A 186 CYS A 189 -1 O LEU A 187 N GLU A 194 SHEET 7 AA 8 LEU A 122 GLY A 127 -1 O ASP A 124 N VAL A 188 SHEET 8 AA 8 ARG A 5 GLU A 6 0 SHEET 1 AB 7 MET A 15 LEU A 20 0 SHEET 2 AB 7 ALA A 23 ALA A 32 -1 O ALA A 23 N LEU A 20 SHEET 3 AB 7 TRP A 35 SER A 38 -1 O TRP A 35 N VAL A 31 SHEET 4 AB 7 LEU A 91 LEU A 95 -1 O LEU A 91 N SER A 38 SHEET 5 AB 7 ARG A 68 PRO A 77 -1 N LEU A 73 O GLN A 94 SHEET 6 AB 7 VAL A 51 LEU A 55 -1 O VAL A 51 N VAL A 72 SHEET 7 AB 7 MET A 15 LEU A 20 -1 O SER A 17 N LEU A 54 SHEET 1 BA 8 ARG B 5 GLU B 6 0 SHEET 2 BA 8 GLN B 142 LEU B 149 -1 O HIS B 143 N ARG B 5 SHEET 3 BA 8 LEU B 168 ALA B 171 -1 O CYS B 170 N LEU B 149 SHEET 4 BA 8 GLY B 211 ARG B 215 -1 O GLY B 211 N ALA B 171 SHEET 5 BA 8 VAL B 192 VAL B 197 -1 O VAL B 196 N THR B 214 SHEET 6 BA 8 PRO B 186 CYS B 189 -1 O LEU B 187 N GLU B 194 SHEET 7 BA 8 LEU B 122 GLY B 127 -1 O ASP B 124 N VAL B 188 SHEET 8 BA 8 ARG B 5 GLU B 6 0 SHEET 1 BB 7 MET B 15 LEU B 20 0 SHEET 2 BB 7 ALA B 23 ALA B 32 -1 O ALA B 23 N LEU B 20 SHEET 3 BB 7 TRP B 35 SER B 38 -1 O TRP B 35 N VAL B 31 SHEET 4 BB 7 LEU B 91 LEU B 95 -1 O LEU B 91 N SER B 38 SHEET 5 BB 7 ARG B 68 PRO B 77 -1 N LEU B 73 O GLN B 94 SHEET 6 BB 7 VAL B 51 LEU B 55 -1 O VAL B 51 N VAL B 72 SHEET 7 BB 7 MET B 15 LEU B 20 -1 O SER B 17 N LEU B 54 SSBOND 1 CYS A 26 CYS A 42 1555 1555 2.04 SSBOND 2 CYS A 123 CYS A 189 1555 1555 2.04 SSBOND 3 CYS A 154 CYS A 170 1555 1555 2.04 SSBOND 4 CYS A 179 CYS A 204 1555 1555 2.03 SSBOND 5 CYS B 26 CYS B 42 1555 1555 2.04 SSBOND 6 CYS B 123 CYS B 189 1555 1555 2.05 SSBOND 7 CYS B 154 CYS B 170 1555 1555 2.03 SSBOND 8 CYS B 179 CYS B 204 1555 1555 2.03 CISPEP 1 CYS B 204 GLY B 205 0 -1.39 SITE 1 AC1 10 ASP A 116 VAL A 117 VAL A 148 LEU A 149 SITE 2 AC1 10 ASP A 150 ARG A 151 MET A 169 CYS A 170 SITE 3 AC1 10 HOH A2130 HOH A2171 SITE 1 AC2 10 VAL B 117 PRO B 119 VAL B 148 LEU B 149 SITE 2 AC2 10 ASP B 150 ARG B 151 MET B 169 CYS B 170 SITE 3 AC2 10 HOH B2092 HOH B2135 SITE 1 AC3 8 ARG A 167 SER A 218 ALA B 7 GLU B 8 SITE 2 AC3 8 ALA B 9 HOH B2013 HOH B2136 HOH B2137 CRYST1 44.140 67.310 133.140 90.00 90.00 90.00 P 21 21 21 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.022655 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014857 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007511 0.00000