HEADER HYDROLASE/DNA 07-MAY-10 3MX9 TITLE MOLECULAR BASIS OF ENGINEERED MEGANUCLEASE TARGETING OF THE ENDOGENOUS TITLE 2 HUMAN RAG1 LOCUS COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN SCV3V2(G19S); COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: DNA (5'- COMPND 8 D(*TP*TP*GP*TP*TP*CP*TP*CP*AP*GP*GP*TP*AP*CP*CP*TP*CP*AP*GP*CP*CP*AP* COMPND 9 GP*A)-3'); COMPND 10 CHAIN: C; COMPND 11 ENGINEERED: YES; COMPND 12 MOL_ID: 3; COMPND 13 MOLECULE: DNA (5'- COMPND 14 D(*TP*CP*TP*GP*GP*CP*TP*GP*AP*GP*GP*TP*AP*CP*CP*TP*GP*AP*GP*AP*AP*CP* COMPND 15 AP*A)-3'); COMPND 16 CHAIN: D; COMPND 17 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CHLAMYDOMONAS REINHARDTII; SOURCE 3 ORGANISM_TAXID: 3055; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: ROSETTA(DE3)PLYSS; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET24D(+); SOURCE 9 MOL_ID: 2; SOURCE 10 SYNTHETIC: YES; SOURCE 11 OTHER_DETAILS: THIS SEQUENCE OCCURS NATURALLY IN HUMANS.; SOURCE 12 MOL_ID: 3; SOURCE 13 SYNTHETIC: YES; SOURCE 14 OTHER_DETAILS: THIS SEQUENCE OCCURS NATURALLY IN HUMANS. KEYWDS PROTEIN-DNA COMPLEX, HYDROLASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR I.G.MUNOZ,J.PRIETO,S.SUBRAMANIAN,J.COLOMA,G.MONTOYA REVDAT 3 21-FEB-24 3MX9 1 REMARK LINK REVDAT 2 09-FEB-11 3MX9 1 JRNL REVDAT 1 06-OCT-10 3MX9 0 JRNL AUTH I.G.MUNOZ,J.PRIETO,S.SUBRAMANIAN,J.COLOMA,P.REDONDO, JRNL AUTH 2 M.VILLATE,N.MERINO,M.MARENCHINO,M.D'ABRAMO,F.L.GERVASIO, JRNL AUTH 3 S.GRIZOT,F.DABOUSSI,J.SMITH,I.CHION-SOTINEL,F.PAQUES, JRNL AUTH 4 P.DUCHATEAU,A.ALIBES,F.STRICHER,L.SERRANO,F.J.BLANCO, JRNL AUTH 5 G.MONTOYA JRNL TITL MOLECULAR BASIS OF ENGINEERED MEGANUCLEASE TARGETING OF THE JRNL TITL 2 ENDOGENOUS HUMAN RAG1 LOCUS. JRNL REF NUCLEIC ACIDS RES. V. 39 729 2011 JRNL REFN ISSN 0305-1048 JRNL PMID 20846960 JRNL DOI 10.1093/NAR/GKQ801 REMARK 2 REMARK 2 RESOLUTION. 2.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.5_2) 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) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.29 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 2.010 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 18505 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.184 REMARK 3 R VALUE (WORKING SET) : 0.181 REMARK 3 FREE R VALUE : 0.248 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 926 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 45.2931 - 4.9720 0.99 2668 142 0.1956 0.2480 REMARK 3 2 4.9720 - 3.9471 1.00 2518 132 0.1401 0.2057 REMARK 3 3 3.9471 - 3.4484 1.00 2506 132 0.1608 0.2162 REMARK 3 4 3.4484 - 3.1332 1.00 2480 131 0.1680 0.2407 REMARK 3 5 3.1332 - 2.9087 1.00 2504 131 0.2028 0.2951 REMARK 3 6 2.9087 - 2.7372 1.00 2468 130 0.2173 0.3035 REMARK 3 7 2.7372 - 2.6001 1.00 2435 128 0.2374 0.3477 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 : 0.39 REMARK 3 B_SOL : 69.96 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.360 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : NULL REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -3.62200 REMARK 3 B22 (A**2) : 4.18260 REMARK 3 B33 (A**2) : -0.56070 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 : 0.007 3477 REMARK 3 ANGLE : 1.224 4924 REMARK 3 CHIRALITY : 0.063 569 REMARK 3 PLANARITY : 0.004 462 REMARK 3 DIHEDRAL : 22.173 1319 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 10 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN A AND RESID 2:208) REMARK 3 ORIGIN FOR THE GROUP (A): 38.0374 -27.5650 -20.8049 REMARK 3 T TENSOR REMARK 3 T11: 0.2782 T22: 0.0716 REMARK 3 T33: 0.1281 T12: 0.0210 REMARK 3 T13: -0.0514 T23: -0.0490 REMARK 3 L TENSOR REMARK 3 L11: 1.7282 L22: 0.7028 REMARK 3 L33: 1.8781 L12: -0.5914 REMARK 3 L13: -0.8069 L23: 0.6765 REMARK 3 S TENSOR REMARK 3 S11: 0.0035 S12: 0.0131 S13: -0.0474 REMARK 3 S21: -0.0837 S22: 0.0528 S23: -0.0989 REMARK 3 S31: 0.0459 S32: 0.0862 S33: -0.0332 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN A AND RESID 209:252) REMARK 3 ORIGIN FOR THE GROUP (A): 16.4867 -13.8256 -5.5221 REMARK 3 T TENSOR REMARK 3 T11: 0.3315 T22: 0.2615 REMARK 3 T33: 0.0451 T12: 0.1398 REMARK 3 T13: -0.0059 T23: -0.0349 REMARK 3 L TENSOR REMARK 3 L11: 0.8301 L22: 1.2619 REMARK 3 L33: 1.3821 L12: -0.3388 REMARK 3 L13: -0.1724 L23: 0.3084 REMARK 3 S TENSOR REMARK 3 S11: -0.0050 S12: -0.1237 S13: 0.1342 REMARK 3 S21: 0.3994 S22: -0.0352 S23: -0.0896 REMARK 3 S31: -0.6425 S32: -0.5069 S33: 0.0025 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN A AND RESID 253:338) REMARK 3 ORIGIN FOR THE GROUP (A): 8.8310 -18.1286 -8.4978 REMARK 3 T TENSOR REMARK 3 T11: 0.2891 T22: 0.4398 REMARK 3 T33: 0.0713 T12: 0.1275 REMARK 3 T13: -0.0974 T23: -0.0130 REMARK 3 L TENSOR REMARK 3 L11: 0.7821 L22: 1.0520 REMARK 3 L33: 1.1056 L12: -0.2745 REMARK 3 L13: -0.6996 L23: 0.9186 REMARK 3 S TENSOR REMARK 3 S11: 0.0112 S12: -0.2026 S13: 0.0330 REMARK 3 S21: 0.0683 S22: -0.1462 S23: -0.0160 REMARK 3 S31: -0.2489 S32: -0.6139 S33: 0.1351 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN A AND RESID 339:344) REMARK 3 ORIGIN FOR THE GROUP (A): -5.1025 -24.0199 7.6114 REMARK 3 T TENSOR REMARK 3 T11: 0.2143 T22: 0.8732 REMARK 3 T33: 0.7495 T12: -0.1225 REMARK 3 T13: 0.2457 T23: -0.3484 REMARK 3 L TENSOR REMARK 3 L11: 0.4537 L22: 0.9610 REMARK 3 L33: 0.9243 L12: 0.6482 REMARK 3 L13: 0.6171 L23: 0.9264 REMARK 3 S TENSOR REMARK 3 S11: 0.6264 S12: 0.6481 S13: 0.0414 REMARK 3 S21: -0.0424 S22: -0.2640 S23: -0.1002 REMARK 3 S31: 0.0670 S32: -0.0260 S33: -0.2902 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN C AND RESID 501:509) REMARK 3 ORIGIN FOR THE GROUP (A): 12.1660 -8.5660 2.0641 REMARK 3 T TENSOR REMARK 3 T11: 0.3665 T22: 0.6979 REMARK 3 T33: 0.1909 T12: 0.4656 REMARK 3 T13: -0.0656 T23: -0.1841 REMARK 3 L TENSOR REMARK 3 L11: 4.6473 L22: 0.2757 REMARK 3 L33: 1.9198 L12: -0.2147 REMARK 3 L13: 1.9379 L23: -0.5858 REMARK 3 S TENSOR REMARK 3 S11: 0.0147 S12: 0.0840 S13: -0.4387 REMARK 3 S21: 0.1383 S22: 0.1204 S23: 0.1263 REMARK 3 S31: -0.8627 S32: -1.0166 S33: -0.0333 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: (CHAIN C AND RESID 510:515) REMARK 3 ORIGIN FOR THE GROUP (A): 26.4171 -27.8510 -1.5250 REMARK 3 T TENSOR REMARK 3 T11: 0.3248 T22: 0.2511 REMARK 3 T33: 0.1559 T12: 0.0650 REMARK 3 T13: 0.0449 T23: 0.0499 REMARK 3 L TENSOR REMARK 3 L11: 1.0807 L22: 0.1584 REMARK 3 L33: 0.0893 L12: 0.1038 REMARK 3 L13: -0.2937 L23: -0.0041 REMARK 3 S TENSOR REMARK 3 S11: -0.1903 S12: -0.0576 S13: -0.1493 REMARK 3 S21: 0.0244 S22: 0.1616 S23: -0.1750 REMARK 3 S31: 0.4269 S32: 0.0273 S33: 0.0287 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: (CHAIN C AND RESID 516:524) REMARK 3 ORIGIN FOR THE GROUP (A): 45.5382 -41.7330 -15.4660 REMARK 3 T TENSOR REMARK 3 T11: 0.3513 T22: 0.3060 REMARK 3 T33: 0.3202 T12: 0.2026 REMARK 3 T13: 0.0940 T23: -0.1838 REMARK 3 L TENSOR REMARK 3 L11: 0.2783 L22: 0.1220 REMARK 3 L33: 0.6441 L12: 0.1058 REMARK 3 L13: -0.0855 L23: 0.1326 REMARK 3 S TENSOR REMARK 3 S11: -0.0203 S12: 0.1311 S13: -0.1526 REMARK 3 S21: 0.1508 S22: -0.0065 S23: 0.1669 REMARK 3 S31: 0.1854 S32: 0.2380 S33: -0.0007 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: (CHAIN D AND RESID 601:611) REMARK 3 ORIGIN FOR THE GROUP (A): 42.3610 -39.3807 -13.9049 REMARK 3 T TENSOR REMARK 3 T11: 0.3765 T22: 0.4006 REMARK 3 T33: 0.2297 T12: 0.2264 REMARK 3 T13: 0.0768 T23: -0.0992 REMARK 3 L TENSOR REMARK 3 L11: 2.3727 L22: 0.7928 REMARK 3 L33: 0.6635 L12: -0.4872 REMARK 3 L13: 0.9980 L23: -0.6109 REMARK 3 S TENSOR REMARK 3 S11: -0.1739 S12: 0.0264 S13: -0.5248 REMARK 3 S21: 0.1671 S22: 0.0251 S23: -0.1952 REMARK 3 S31: 0.2142 S32: -0.0908 S33: -0.0002 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: (CHAIN D AND RESID 612:619) REMARK 3 ORIGIN FOR THE GROUP (A): 21.9772 -20.6100 -0.3474 REMARK 3 T TENSOR REMARK 3 T11: 0.2533 T22: 0.2727 REMARK 3 T33: 0.1810 T12: 0.1778 REMARK 3 T13: -0.0437 T23: -0.0175 REMARK 3 L TENSOR REMARK 3 L11: 2.0923 L22: 0.8004 REMARK 3 L33: 1.0855 L12: -1.2963 REMARK 3 L13: -1.0499 L23: 0.7279 REMARK 3 S TENSOR REMARK 3 S11: -0.4476 S12: -0.5730 S13: 0.1798 REMARK 3 S21: 0.1589 S22: 0.4960 S23: 0.1057 REMARK 3 S31: 0.0434 S32: 0.2418 S33: -0.0213 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: (CHAIN D AND RESID 620:624) REMARK 3 ORIGIN FOR THE GROUP (A): 9.5939 -2.5633 6.2889 REMARK 3 T TENSOR REMARK 3 T11: 0.6902 T22: 0.8183 REMARK 3 T33: 0.2294 T12: 0.7439 REMARK 3 T13: -0.0643 T23: -0.0851 REMARK 3 L TENSOR REMARK 3 L11: 1.5218 L22: 0.4331 REMARK 3 L33: 0.4115 L12: -0.3676 REMARK 3 L13: 0.7894 L23: -0.1715 REMARK 3 S TENSOR REMARK 3 S11: 0.4421 S12: 0.9168 S13: 0.2892 REMARK 3 S21: -0.1347 S22: -0.5184 S23: 0.0907 REMARK 3 S31: -0.9476 S32: -0.7984 S33: -0.1442 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 3MX9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-MAY-10. REMARK 100 THE DEPOSITION ID IS D_1000059108. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-FEB-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID23-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 REMARK 200 MONOCHROMATOR : SI (111) MONOCHROMATOR REMARK 200 OPTICS : BENT CYLINDRICAL MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 26884 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.290 REMARK 200 RESOLUTION RANGE LOW (A) : 66.330 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 6.800 REMARK 200 R MERGE (I) : 0.05800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.29 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.41 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.40 REMARK 200 R MERGE FOR SHELL (I) : 0.01100 REMARK 200 R SYM FOR SHELL (I) : 0.05900 REMARK 200 FOR SHELL : 1.600 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.50 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.59 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG 400, 0.1M MES PH 6.5, 5% REMARK 280 ETHANOL, 10% ETHYLENE GLYCOL, VAPOR DIFFUSION, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+1/2,Y+1/2,-Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 36.08500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 85.09500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 36.08500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 85.09500 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 9090 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17110 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -84.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 MET A 0 REMARK 465 ALA A 1 REMARK 465 VAL A 152 REMARK 465 LEU A 153 REMARK 465 ASP A 154 REMARK 465 SER A 155 REMARK 465 LEU A 156 REMARK 465 SER A 157 REMARK 465 GLY A 158 REMARK 465 LYS A 159 REMARK 465 LYS A 160 REMARK 465 LYS A 161 REMARK 465 SER A 162 REMARK 465 SER A 163 REMARK 465 PRO A 164 REMARK 465 ALA A 165 REMARK 465 ALA A 166 REMARK 465 GLY A 167 REMARK 465 GLY A 168 REMARK 465 SER A 169 REMARK 465 ASP A 170 REMARK 465 LYS A 171 REMARK 465 TYR A 172 REMARK 465 ASN A 173 REMARK 465 GLN A 174 REMARK 465 ALA A 175 REMARK 465 LEU A 176 REMARK 465 SER A 177 REMARK 465 LYS A 178 REMARK 465 TYR A 179 REMARK 465 ASN A 180 REMARK 465 GLN A 181 REMARK 465 ALA A 182 REMARK 465 LEU A 183 REMARK 465 SER A 184 REMARK 465 LYS A 185 REMARK 465 TYR A 186 REMARK 465 ASN A 187 REMARK 465 GLN A 188 REMARK 465 ALA A 189 REMARK 465 LEU A 190 REMARK 465 SER A 191 REMARK 465 GLY A 192 REMARK 465 GLY A 193 REMARK 465 GLY A 194 REMARK 465 GLY A 195 REMARK 465 SER A 345 REMARK 465 LEU A 346 REMARK 465 SER A 347 REMARK 465 GLU A 348 REMARK 465 LYS A 349 REMARK 465 LYS A 350 REMARK 465 LYS A 351 REMARK 465 SER A 352 REMARK 465 SER A 353 REMARK 465 PRO A 354 REMARK 465 LEU A 355 REMARK 465 GLU A 356 REMARK 465 HIS A 357 REMARK 465 HIS A 358 REMARK 465 HIS A 359 REMARK 465 HIS A 360 REMARK 465 HIS A 361 REMARK 465 HIS A 362 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 36 CG CD CE NZ REMARK 470 LYS A 82 CG CD CE NZ REMARK 470 LYS A 107 CG CD CE NZ REMARK 470 LYS A 116 CG CD CE NZ REMARK 470 GLU A 117 CG CD OE1 OE2 REMARK 470 LYS A 121 CG CD CE NZ REMARK 470 LEU A 123 CG CD1 CD2 REMARK 470 LYS A 139 CG CD CE NZ REMARK 470 LYS A 142 CG CD CE NZ REMARK 470 LYS A 225 CG CD CE NZ REMARK 470 LYS A 227 CG CD CE NZ REMARK 470 LYS A 248 CG CD CE NZ REMARK 470 LYS A 273 CG CD CE NZ REMARK 470 LYS A 307 CG CD CE NZ REMARK 470 GLU A 308 CG CD OE1 OE2 REMARK 470 LYS A 312 CG CD CE NZ REMARK 470 LYS A 333 CG CD CE NZ REMARK 470 GLU A 337 CG CD OE1 OE2 REMARK 470 LEU A 343 CG CD1 CD2 REMARK 470 ASP A 344 CG OD1 OD2 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 OP2 DC D 615 O HOH D 10 2.14 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 DA C 513 O4' - C1' - N9 ANGL. DEV. = -6.6 DEGREES REMARK 500 DC C 517 O4' - C1' - N1 ANGL. DEV. = 2.2 DEGREES REMARK 500 DG C 519 O4' - C1' - N9 ANGL. DEV. = 2.3 DEGREES REMARK 500 DC C 520 O4' - C1' - N1 ANGL. DEV. = 2.9 DEGREES REMARK 500 DT D 601 O4' - C1' - N1 ANGL. DEV. = 3.4 DEGREES REMARK 500 DG D 604 O4' - C1' - N9 ANGL. DEV. = 4.1 DEGREES REMARK 500 DG D 605 C3' - C2' - C1' ANGL. DEV. = -5.0 DEGREES REMARK 500 DA D 609 C3' - C2' - C1' ANGL. DEV. = -6.1 DEGREES REMARK 500 DA D 609 O4' - C1' - N9 ANGL. DEV. = 2.0 DEGREES REMARK 500 DG D 610 O4' - C4' - C3' ANGL. DEV. = -2.9 DEGREES REMARK 500 DG D 619 O4' - C1' - N9 ANGL. DEV. = 4.4 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 ASN A 30 114.47 -160.87 REMARK 500 LYS A 36 14.28 59.27 REMARK 500 SER A 70 57.35 -142.08 REMARK 500 SER A 118 133.14 179.46 REMARK 500 ASP A 137 59.64 -69.35 REMARK 500 LYS A 139 -16.57 -147.92 REMARK 500 ARG A 149 76.96 -65.29 REMARK 500 SER A 210 -71.53 -89.34 REMARK 500 LYS A 239 138.49 -39.59 REMARK 500 SER A 261 127.23 -174.41 REMARK 500 LYS A 273 -73.20 -74.77 REMARK 500 LYS A 330 -24.04 -142.63 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 A 364 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY A 19 O REMARK 620 2 ASP A 211 OD2 84.9 REMARK 620 3 ASP A 211 OD1 75.0 46.7 REMARK 620 4 HOH A 372 O 90.9 69.2 114.8 REMARK 620 5 HOH C 4 O 103.2 155.8 157.2 87.8 REMARK 620 6 DC C 515 OP2 84.7 118.8 72.4 170.3 84.8 REMARK 620 7 DC D 614 OP1 159.2 75.8 86.0 89.5 97.5 97.7 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 363 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 20 OD2 REMARK 620 2 ASP A 20 OD1 48.2 REMARK 620 3 SER A 210 O 95.9 92.2 REMARK 620 4 HOH A 393 O 70.2 117.6 84.3 REMARK 620 5 DC C 514 OP1 79.5 96.2 163.5 79.2 REMARK 620 6 HOH D 30 O 149.4 162.4 87.3 79.9 88.9 REMARK 620 7 DC D 615 OP2 130.1 81.9 85.9 158.4 109.3 80.4 REMARK 620 N 1 2 3 4 5 6 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 363 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 364 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3MXA RELATED DB: PDB REMARK 900 RELATED ID: 3MXB RELATED DB: PDB DBREF 3MX9 A 0 362 PDB 3MX9 3MX9 0 362 DBREF 3MX9 C 501 524 PDB 3MX9 3MX9 501 524 DBREF 3MX9 D 601 624 PDB 3MX9 3MX9 601 624 SEQRES 1 A 362 MET ALA ASN THR LYS TYR ASN LYS GLU PHE LEU LEU TYR SEQRES 2 A 362 LEU ALA GLY PHE VAL ASP GLY ASP GLY SER ILE ILE ALA SEQRES 3 A 362 GLN ILE ASN PRO ASN GLN SER SER LYS PHE LYS HIS ARG SEQRES 4 A 362 LEU ARG LEU THR PHE TYR VAL THR GLN LYS THR GLN ARG SEQRES 5 A 362 ARG TRP PHE LEU ASP LYS LEU VAL ASP GLU ILE GLY VAL SEQRES 6 A 362 GLY TYR VAL ARG ASP SER GLY SER VAL SER GLN TYR VAL SEQRES 7 A 362 LEU SER GLU ILE LYS PRO LEU HIS ASN PHE LEU THR GLN SEQRES 8 A 362 LEU GLN PRO PHE LEU LYS LEU LYS GLN LYS GLN ALA ASN SEQRES 9 A 362 LEU VAL LEU LYS ILE ILE GLU GLN LEU PRO SER ALA LYS SEQRES 10 A 362 GLU SER PRO ASP LYS PHE LEU GLU VAL CYS THR TRP VAL SEQRES 11 A 362 ASP GLN ILE ALA ALA LEU ASN ASP SER LYS THR ARG LYS SEQRES 12 A 362 THR THR SER GLU THR VAL ARG ALA VAL LEU ASP SER LEU SEQRES 13 A 362 SER GLY LYS LYS LYS SER SER PRO ALA ALA GLY GLY SER SEQRES 14 A 362 ASP LYS TYR ASN GLN ALA LEU SER LYS TYR ASN GLN ALA SEQRES 15 A 362 LEU SER LYS TYR ASN GLN ALA LEU SER GLY GLY GLY GLY SEQRES 16 A 362 SER ASN LYS GLU PHE LEU LEU TYR LEU ALA GLY PHE VAL SEQRES 17 A 362 ASP SER ASP GLY SER ILE ILE ALA GLN ILE LYS PRO ARG SEQRES 18 A 362 GLN SER ASN LYS PHE LYS HIS GLN LEU SER LEU THR PHE SEQRES 19 A 362 ALA VAL THR GLN LYS THR GLN ARG ARG TRP PHE LEU ASP SEQRES 20 A 362 LYS LEU VAL ASP GLU ILE GLY VAL GLY TYR VAL TYR ASP SEQRES 21 A 362 SER GLY SER VAL SER ASP TYR ARG LEU SER GLU ILE LYS SEQRES 22 A 362 PRO LEU HIS ASN PHE LEU THR GLN LEU GLN PRO PHE LEU SEQRES 23 A 362 LYS LEU LYS GLN LYS GLN ALA ASN LEU VAL LEU LYS ILE SEQRES 24 A 362 ILE GLU GLN LEU PRO SER ALA LYS GLU SER PRO ASP LYS SEQRES 25 A 362 PHE LEU GLU VAL CYS THR TRP VAL ASP GLN ILE ALA ALA SEQRES 26 A 362 LEU ASN ASP SER LYS THR ARG LYS THR THR SER GLU THR SEQRES 27 A 362 VAL ARG ALA VAL LEU ASP SER LEU SER GLU LYS LYS LYS SEQRES 28 A 362 SER SER PRO LEU GLU HIS HIS HIS HIS HIS HIS SEQRES 1 C 24 DT DT DG DT DT DC DT DC DA DG DG DT DA SEQRES 2 C 24 DC DC DT DC DA DG DC DC DA DG DA SEQRES 1 D 24 DT DC DT DG DG DC DT DG DA DG DG DT DA SEQRES 2 D 24 DC DC DT DG DA DG DA DA DC DA DA HET CA A 363 1 HET CA A 364 1 HETNAM CA CALCIUM ION FORMUL 4 CA 2(CA 2+) FORMUL 6 HOH *58(H2 O) HELIX 1 1 ASN A 6 ASP A 20 1 15 HELIX 2 2 ARG A 51 GLY A 63 1 13 HELIX 3 3 GLU A 80 GLN A 92 1 13 HELIX 4 4 PRO A 93 LEU A 95 5 3 HELIX 5 5 LYS A 98 GLN A 111 1 14 HELIX 6 6 GLN A 111 LYS A 116 1 6 HELIX 7 7 SER A 118 ASN A 136 1 19 HELIX 8 8 THR A 144 ARG A 149 1 6 HELIX 9 9 SER A 196 ASP A 211 1 16 HELIX 10 10 ARG A 242 GLY A 254 1 13 HELIX 11 11 GLU A 271 GLN A 283 1 13 HELIX 12 12 PRO A 284 LEU A 286 5 3 HELIX 13 13 LYS A 289 GLN A 302 1 14 HELIX 14 14 GLN A 302 LYS A 307 1 6 HELIX 15 15 SER A 309 ASN A 327 1 19 HELIX 16 16 THR A 335 ARG A 340 1 6 HELIX 17 17 ALA A 341 ASP A 344 5 4 SHEET 1 A 4 GLY A 21 PRO A 29 0 SHEET 2 A 4 HIS A 37 LYS A 48 -1 O ARG A 38 N ASN A 28 SHEET 3 A 4 VAL A 73 LEU A 78 -1 O SER A 74 N GLN A 47 SHEET 4 A 4 TYR A 66 SER A 70 -1 N TYR A 66 O VAL A 77 SHEET 1 B 4 GLY A 212 PRO A 220 0 SHEET 2 B 4 HIS A 228 LYS A 239 -1 O SER A 231 N GLN A 217 SHEET 3 B 4 VAL A 264 LEU A 269 -1 O TYR A 267 N VAL A 236 SHEET 4 B 4 TYR A 257 SER A 261 -1 N TYR A 259 O ASP A 266 LINK O GLY A 19 CA CA A 364 1555 1555 2.54 LINK OD2 ASP A 20 CA CA A 363 1555 1555 2.65 LINK OD1 ASP A 20 CA CA A 363 1555 1555 2.69 LINK O SER A 210 CA CA A 363 1555 1555 2.47 LINK OD2 ASP A 211 CA CA A 364 1555 1555 2.58 LINK OD1 ASP A 211 CA CA A 364 1555 1555 2.90 LINK CA CA A 363 O HOH A 393 1555 1555 2.55 LINK CA CA A 363 OP1 DC C 514 1555 1555 2.36 LINK CA CA A 363 O HOH D 30 1555 1555 2.50 LINK CA CA A 363 OP2 DC D 615 1555 1555 2.36 LINK CA CA A 364 O HOH A 372 1555 1555 2.70 LINK CA CA A 364 O HOH C 4 1555 1555 2.64 LINK CA CA A 364 OP2 DC C 515 1555 1555 2.39 LINK CA CA A 364 OP1 DC D 614 1555 1555 2.37 SITE 1 AC1 6 ASP A 20 SER A 210 HOH A 393 DC C 514 SITE 2 AC1 6 HOH D 30 DC D 615 SITE 1 AC2 6 GLY A 19 ASP A 211 HOH A 372 HOH C 4 SITE 2 AC2 6 DC C 515 DC D 614 CRYST1 72.170 170.190 46.980 90.00 90.00 90.00 P 21 21 2 4 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 0.013856 0.000000 0.000000 0.00000 SCALE2 0.000000 0.005876 0.000000 0.00000 SCALE3 0.000000 0.000000 0.021286 0.00000