HEADER HYDROLASE/DNA 16-JUL-15 5CLA TITLE ALKYLPURINE DNA GLYCOSYLASE ALKD BOUND TO DNA CONTAINING AN ABASIC TITLE 2 SITE AND A FREE NUCLEOBASE (100% PRODUCT AT 360 HOURS) COMPND MOL_ID: 1; COMPND 2 MOLECULE: ALKD; COMPND 3 CHAIN: A; COMPND 4 EC: 3.2.2.-; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: DNA (5'-D(*CP*CP*CP*GP*AP*(ORP)P*AP*GP*TP*CP*CP*G)-3'); COMPND 8 CHAIN: B; COMPND 9 ENGINEERED: YES; COMPND 10 MOL_ID: 3; COMPND 11 MOLECULE: DNA (5'-D(*CP*GP*GP*AP*CP*TP*TP*TP*CP*GP*GP*G)-3'); COMPND 12 CHAIN: C; COMPND 13 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS CEREUS; SOURCE 3 ORGANISM_TAXID: 1396; SOURCE 4 ATCC: 14579; SOURCE 5 GENE: IKE_03968; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: HMS174; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PBG103; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 14 ORGANISM_TAXID: 32630; SOURCE 15 MOL_ID: 3; SOURCE 16 SYNTHETIC: YES; SOURCE 17 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 18 ORGANISM_TAXID: 32630 KEYWDS DNA GLYCOSYLASE, HEAT-LIKE REPEAT, PROTEIN-DNA COMPLEX, HYDROLASE-DNA KEYWDS 2 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR E.A.MULLINS,B.F.EICHMAN REVDAT 6 27-SEP-23 5CLA 1 REMARK REVDAT 5 27-NOV-19 5CLA 1 REMARK REVDAT 4 13-SEP-17 5CLA 1 JRNL REMARK REVDAT 3 25-NOV-15 5CLA 1 JRNL REVDAT 2 18-NOV-15 5CLA 1 JRNL REVDAT 1 28-OCT-15 5CLA 0 JRNL AUTH E.A.MULLINS,R.SHI,Z.D.PARSONS,P.K.YUEN,S.S.DAVID,Y.IGARASHI, JRNL AUTH 2 B.F.EICHMAN JRNL TITL THE DNA GLYCOSYLASE ALKD USES A NON-BASE-FLIPPING MECHANISM JRNL TITL 2 TO EXCISE BULKY LESIONS. JRNL REF NATURE V. 527 254 2015 JRNL REFN ESSN 1476-4687 JRNL PMID 26524531 JRNL DOI 10.1038/NATURE15728 REMARK 2 REMARK 2 RESOLUTION. 1.54 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 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) : 1.54 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.04 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.370 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.1 REMARK 3 NUMBER OF REFLECTIONS : 44651 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.149 REMARK 3 R VALUE (WORKING SET) : 0.148 REMARK 3 FREE R VALUE : 0.169 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.470 REMARK 3 FREE R VALUE TEST SET COUNT : 1997 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 35.0519 - 3.7120 0.97 3101 139 0.1321 0.1395 REMARK 3 2 3.7120 - 2.9468 0.99 3125 149 0.1465 0.1752 REMARK 3 3 2.9468 - 2.5744 0.99 3089 145 0.1638 0.1723 REMARK 3 4 2.5744 - 2.3391 0.98 3109 144 0.1592 0.1929 REMARK 3 5 2.3391 - 2.1715 0.98 3067 149 0.1508 0.1583 REMARK 3 6 2.1715 - 2.0434 0.98 3054 141 0.1519 0.1695 REMARK 3 7 2.0434 - 1.9411 0.97 3042 144 0.1546 0.1935 REMARK 3 8 1.9411 - 1.8566 0.97 3059 149 0.1509 0.1839 REMARK 3 9 1.8566 - 1.7852 0.97 3045 136 0.1511 0.1671 REMARK 3 10 1.7852 - 1.7236 0.96 3005 147 0.1464 0.1842 REMARK 3 11 1.7236 - 1.6697 0.97 2995 141 0.1404 0.1922 REMARK 3 12 1.6697 - 1.6219 0.96 3034 138 0.1419 0.1477 REMARK 3 13 1.6219 - 1.5792 0.96 3024 143 0.1474 0.1614 REMARK 3 14 1.5792 - 1.5407 0.94 2905 132 0.1472 0.1935 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) : 0.100 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 16.920 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 13.69 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.90 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 : 0.006 2587 REMARK 3 ANGLE : 1.041 3614 REMARK 3 CHIRALITY : 0.043 390 REMARK 3 PLANARITY : 0.006 376 REMARK 3 DIHEDRAL : 17.986 1001 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 11 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID -1 THROUGH 15 ) REMARK 3 ORIGIN FOR THE GROUP (A): 45.5997 21.1052 65.9670 REMARK 3 T TENSOR REMARK 3 T11: 0.1962 T22: 0.1229 REMARK 3 T33: 0.1677 T12: 0.0032 REMARK 3 T13: 0.0390 T23: -0.0005 REMARK 3 L TENSOR REMARK 3 L11: 1.3727 L22: 4.5034 REMARK 3 L33: 4.5896 L12: -0.7783 REMARK 3 L13: 0.6217 L23: -3.5847 REMARK 3 S TENSOR REMARK 3 S11: 0.0525 S12: 0.0134 S13: 0.3379 REMARK 3 S21: 0.1450 S22: -0.0736 S23: -0.0486 REMARK 3 S31: -0.5475 S32: 0.0450 S33: -0.0059 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 16 THROUGH 38 ) REMARK 3 ORIGIN FOR THE GROUP (A): 58.1096 7.1395 70.5412 REMARK 3 T TENSOR REMARK 3 T11: 0.0943 T22: 0.1451 REMARK 3 T33: 0.1017 T12: 0.0048 REMARK 3 T13: -0.0178 T23: 0.0010 REMARK 3 L TENSOR REMARK 3 L11: 2.5292 L22: 1.7865 REMARK 3 L33: 3.5394 L12: -0.2961 REMARK 3 L13: -2.0990 L23: 0.9152 REMARK 3 S TENSOR REMARK 3 S11: -0.0723 S12: -0.2636 S13: -0.0639 REMARK 3 S21: 0.0562 S22: 0.0860 S23: -0.1012 REMARK 3 S31: 0.0399 S32: 0.3705 S33: -0.0041 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 39 THROUGH 57 ) REMARK 3 ORIGIN FOR THE GROUP (A): 40.0298 12.8938 62.2583 REMARK 3 T TENSOR REMARK 3 T11: 0.1273 T22: 0.1398 REMARK 3 T33: 0.1396 T12: 0.0022 REMARK 3 T13: -0.0137 T23: 0.0023 REMARK 3 L TENSOR REMARK 3 L11: 2.8221 L22: 3.6261 REMARK 3 L33: 3.9659 L12: -0.9015 REMARK 3 L13: 0.5812 L23: -2.1996 REMARK 3 S TENSOR REMARK 3 S11: 0.1331 S12: 0.0856 S13: 0.0529 REMARK 3 S21: -0.0992 S22: 0.1012 S23: 0.4318 REMARK 3 S31: -0.1169 S32: -0.2654 S33: -0.2298 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 58 THROUGH 73 ) REMARK 3 ORIGIN FOR THE GROUP (A): 50.5401 20.4520 55.6502 REMARK 3 T TENSOR REMARK 3 T11: 0.1351 T22: 0.0866 REMARK 3 T33: 0.1190 T12: -0.0067 REMARK 3 T13: 0.0212 T23: 0.0107 REMARK 3 L TENSOR REMARK 3 L11: 3.1663 L22: 3.0982 REMARK 3 L33: 6.3508 L12: -1.2278 REMARK 3 L13: 2.6734 L23: -2.1559 REMARK 3 S TENSOR REMARK 3 S11: -0.0747 S12: 0.1148 S13: 0.2230 REMARK 3 S21: 0.0633 S22: 0.0148 S23: 0.0122 REMARK 3 S31: -0.4918 S32: 0.0888 S33: 0.0925 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 74 THROUGH 143 ) REMARK 3 ORIGIN FOR THE GROUP (A): 55.4860 10.4341 47.1408 REMARK 3 T TENSOR REMARK 3 T11: 0.1043 T22: 0.1057 REMARK 3 T33: 0.1028 T12: -0.0127 REMARK 3 T13: -0.0016 T23: 0.0056 REMARK 3 L TENSOR REMARK 3 L11: 0.4178 L22: 0.5953 REMARK 3 L33: 1.5747 L12: -0.2849 REMARK 3 L13: -0.4027 L23: 0.3025 REMARK 3 S TENSOR REMARK 3 S11: 0.0250 S12: 0.0504 S13: 0.0096 REMARK 3 S21: -0.0479 S22: 0.0075 S23: 0.0379 REMARK 3 S31: -0.0603 S32: -0.0971 S33: -0.0340 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 144 THROUGH 162 ) REMARK 3 ORIGIN FOR THE GROUP (A): 59.3213 0.2253 43.1597 REMARK 3 T TENSOR REMARK 3 T11: 0.0855 T22: 0.0734 REMARK 3 T33: 0.0780 T12: -0.0100 REMARK 3 T13: -0.0037 T23: 0.0156 REMARK 3 L TENSOR REMARK 3 L11: 2.2782 L22: 3.4087 REMARK 3 L33: 4.1811 L12: 0.5532 REMARK 3 L13: 0.8498 L23: 1.5360 REMARK 3 S TENSOR REMARK 3 S11: 0.0364 S12: 0.0063 S13: -0.0953 REMARK 3 S21: -0.1259 S22: -0.0164 S23: 0.1493 REMARK 3 S31: 0.1398 S32: -0.1429 S33: -0.0143 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 163 THROUGH 178 ) REMARK 3 ORIGIN FOR THE GROUP (A): 69.8903 -1.7896 41.1275 REMARK 3 T TENSOR REMARK 3 T11: 0.0822 T22: 0.0520 REMARK 3 T33: 0.0649 T12: 0.0087 REMARK 3 T13: 0.0047 T23: -0.0062 REMARK 3 L TENSOR REMARK 3 L11: 3.1026 L22: 2.6085 REMARK 3 L33: 2.7579 L12: 0.1930 REMARK 3 L13: 0.0429 L23: 0.2418 REMARK 3 S TENSOR REMARK 3 S11: 0.0907 S12: 0.1696 S13: -0.0694 REMARK 3 S21: -0.1741 S22: 0.0068 S23: -0.0507 REMARK 3 S31: 0.1951 S32: 0.1904 S33: -0.1156 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 179 THROUGH 229 ) REMARK 3 ORIGIN FOR THE GROUP (A): 65.5130 -13.0163 46.0382 REMARK 3 T TENSOR REMARK 3 T11: 0.1491 T22: 0.0984 REMARK 3 T33: 0.1150 T12: -0.0111 REMARK 3 T13: 0.0049 T23: -0.0032 REMARK 3 L TENSOR REMARK 3 L11: 0.9078 L22: 2.1230 REMARK 3 L33: 1.0622 L12: -0.0857 REMARK 3 L13: -0.1420 L23: 0.5955 REMARK 3 S TENSOR REMARK 3 S11: -0.0524 S12: -0.0387 S13: -0.1592 REMARK 3 S21: -0.0025 S22: 0.0284 S23: 0.0244 REMARK 3 S31: 0.1845 S32: 0.0210 S33: 0.0215 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 1 THROUGH 12 ) REMARK 3 ORIGIN FOR THE GROUP (A): 60.3588 -9.9495 63.2229 REMARK 3 T TENSOR REMARK 3 T11: 0.1619 T22: 0.2736 REMARK 3 T33: 0.2484 T12: 0.0358 REMARK 3 T13: 0.0266 T23: 0.0820 REMARK 3 L TENSOR REMARK 3 L11: 0.1100 L22: 2.0543 REMARK 3 L33: 1.5732 L12: -0.3293 REMARK 3 L13: -0.2916 L23: -0.0519 REMARK 3 S TENSOR REMARK 3 S11: -0.2456 S12: -0.5044 S13: -0.4994 REMARK 3 S21: 0.2033 S22: 0.1302 S23: -0.0803 REMARK 3 S31: 0.1628 S32: -0.1287 S33: -0.0465 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 1 THROUGH 6 ) REMARK 3 ORIGIN FOR THE GROUP (A): 67.5415 -14.3806 63.7519 REMARK 3 T TENSOR REMARK 3 T11: 0.2263 T22: 0.5721 REMARK 3 T33: 0.5809 T12: 0.0735 REMARK 3 T13: 0.0765 T23: 0.2529 REMARK 3 L TENSOR REMARK 3 L11: 4.4537 L22: 1.4625 REMARK 3 L33: 0.2763 L12: -0.7421 REMARK 3 L13: -0.5075 L23: 0.6252 REMARK 3 S TENSOR REMARK 3 S11: -0.1593 S12: 0.2275 S13: -0.5791 REMARK 3 S21: 0.0905 S22: 0.1268 S23: 0.0185 REMARK 3 S31: 0.0955 S32: 0.1452 S33: -0.0379 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 7 THROUGH 12 ) REMARK 3 ORIGIN FOR THE GROUP (A): 48.9857 -5.6900 60.6956 REMARK 3 T TENSOR REMARK 3 T11: 0.2293 T22: 0.3813 REMARK 3 T33: 0.3266 T12: 0.1108 REMARK 3 T13: -0.0299 T23: -0.0279 REMARK 3 L TENSOR REMARK 3 L11: 3.4463 L22: 5.6597 REMARK 3 L33: 2.1859 L12: 1.8899 REMARK 3 L13: -0.7331 L23: -0.0831 REMARK 3 S TENSOR REMARK 3 S11: -0.3945 S12: 0.0737 S13: -0.5606 REMARK 3 S21: -0.3045 S22: 0.1950 S23: 1.0278 REMARK 3 S31: -0.4532 S32: -0.6437 S33: 0.1640 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 5CLA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 23-JUL-15. REMARK 100 THE DEPOSITION ID IS D_1000211809. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-AUG-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-F REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97872 REMARK 200 MONOCHROMATOR : DIAMOND(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 44689 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.540 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.9 REMARK 200 DATA REDUNDANCY : 7.700 REMARK 200 R MERGE (I) : 0.04900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 20.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.54 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.60 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.3 REMARK 200 DATA REDUNDANCY IN SHELL : 7.40 REMARK 200 R MERGE FOR SHELL (I) : 0.13800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 16.59 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 3BVS REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.51 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.22 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 15% W/V PEG4000, 42 MM SODIUM ACETATE, REMARK 280 PH 4.6, 85 MM AMMONIUM ACETATE, 5% V/V GLYCEROL, PH 5.7, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 294K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 46.54100 REMARK 290 SMTRY3 2 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: 3090 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14990 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -19.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 GLY A -3 REMARK 465 PRO A -2 REMARK 465 GLU A 230 REMARK 465 LYS A 231 REMARK 465 ILE A 232 REMARK 465 GLY A 233 REMARK 465 GLU A 234 REMARK 465 THR A 235 REMARK 465 LEU A 236 REMARK 465 SER A 237 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 438 O HOH A 517 2.18 REMARK 500 O HOH A 476 O HOH A 509 2.19 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 DC C 17 O4' - C1' - N1 ANGL. DEV. = 2.5 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 THR A 54 153.85 72.51 REMARK 500 THR A 118 -72.66 -99.01 REMARK 500 TYR A 134 -46.27 -132.19 REMARK 500 LYS A 158 -122.25 51.59 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 643 DISTANCE = 5.84 ANGSTROMS REMARK 525 HOH A 644 DISTANCE = 6.20 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 54K B 101 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5CL3 RELATED DB: PDB REMARK 900 RELATED ID: 5CL4 RELATED DB: PDB REMARK 900 RELATED ID: 5CL5 RELATED DB: PDB REMARK 900 RELATED ID: 5CL6 RELATED DB: PDB REMARK 900 RELATED ID: 5CL7 RELATED DB: PDB REMARK 900 RELATED ID: 5CL8 RELATED DB: PDB REMARK 900 RELATED ID: 5CL9 RELATED DB: PDB REMARK 900 RELATED ID: 5CLB RELATED DB: PDB REMARK 900 RELATED ID: 5CLC RELATED DB: PDB REMARK 900 RELATED ID: 5CLD RELATED DB: PDB REMARK 900 RELATED ID: 5CLE RELATED DB: PDB DBREF 5CLA A 1 237 UNP R8GWR7 R8GWR7_BACCE 1 237 DBREF 5CLA B 1 12 PDB 5CLA 5CLA 1 12 DBREF 5CLA C 13 24 PDB 5CLA 5CLA 13 24 SEQADV 5CLA GLY A -3 UNP R8GWR7 EXPRESSION TAG SEQADV 5CLA PRO A -2 UNP R8GWR7 EXPRESSION TAG SEQADV 5CLA VAL A -1 UNP R8GWR7 EXPRESSION TAG SEQADV 5CLA PRO A 0 UNP R8GWR7 EXPRESSION TAG SEQRES 1 A 241 GLY PRO VAL PRO MET HIS PRO PHE VAL LYS ALA LEU GLN SEQRES 2 A 241 GLU HIS PHE THR ALA HIS GLN ASN PRO GLU LYS ALA GLU SEQRES 3 A 241 PRO MET ALA ARG TYR MET LYS ASN HIS PHE LEU PHE LEU SEQRES 4 A 241 GLY ILE GLN THR PRO GLU ARG ARG GLN LEU LEU LYS ASP SEQRES 5 A 241 ILE ILE GLN ILE HIS THR LEU PRO ASP GLN LYS ASP PHE SEQRES 6 A 241 GLN ILE ILE ILE ARG GLU LEU TRP ASP LEU PRO GLU ARG SEQRES 7 A 241 GLU PHE GLN ALA ALA ALA LEU ASP ILE MET GLN LYS TYR SEQRES 8 A 241 LYS LYS HIS ILE ASN GLU THR HIS ILE PRO PHE LEU GLU SEQRES 9 A 241 GLU LEU ILE VAL THR LYS SER TRP TRP ASP SER VAL ASP SEQRES 10 A 241 SER ILE VAL PRO THR PHE LEU GLY ASP ILE PHE LEU LYS SEQRES 11 A 241 HIS PRO GLU LEU ILE SER ALA TYR ILE PRO LYS TRP ILE SEQRES 12 A 241 ALA SER ASP ASN ILE TRP LEU GLN ARG ALA ALA ILE LEU SEQRES 13 A 241 PHE GLN LEU LYS TYR LYS GLN LYS MET ASP GLU GLU LEU SEQRES 14 A 241 LEU PHE TRP ILE ILE GLY GLN LEU HIS SER SER LYS GLU SEQRES 15 A 241 PHE PHE ILE GLN LYS ALA ILE GLY TRP VAL LEU ARG GLU SEQRES 16 A 241 TYR ALA LYS THR ASN PRO ASP VAL VAL TRP GLU TYR VAL SEQRES 17 A 241 GLN ASN ASN GLU LEU ALA PRO LEU SER LYS ARG GLU ALA SEQRES 18 A 241 ILE LYS HIS ILE LYS GLN ASN TYR GLY ILE ASN ASN GLU SEQRES 19 A 241 LYS ILE GLY GLU THR LEU SER SEQRES 1 B 12 DC DC DC DG DA ORP DA DG DT DC DC DG SEQRES 1 C 12 DC DG DG DA DC DT DT DT DC DG DG DG HET ORP B 6 12 HET 54K B 101 11 HETNAM ORP 2-DEOXY-5-PHOSPHONO-RIBOSE HETNAM 54K 7-METHYL-3H-IMIDAZO[4,5-C]PYRIDIN-4-AMINE HETSYN 54K 3-DEAZA-3-METHYLADENINE FORMUL 2 ORP C5 H11 O7 P FORMUL 4 54K C7 H8 N4 FORMUL 5 HOH *400(H2 O) HELIX 1 AA1 HIS A 2 ALA A 14 1 13 HELIX 2 AA2 ASN A 17 MET A 28 1 12 HELIX 3 AA3 GLN A 38 THR A 54 1 17 HELIX 4 AA4 ASP A 57 LYS A 59 5 3 HELIX 5 AA5 ASP A 60 ASP A 70 1 11 HELIX 6 AA6 GLU A 73 TYR A 87 1 15 HELIX 7 AA7 LYS A 88 ILE A 91 5 4 HELIX 8 AA8 ASN A 92 THR A 94 5 3 HELIX 9 AA9 HIS A 95 VAL A 104 1 10 HELIX 10 AB1 TRP A 108 VAL A 116 1 9 HELIX 11 AB2 THR A 118 HIS A 127 1 10 HELIX 12 AB3 PRO A 128 ALA A 133 5 6 HELIX 13 AB4 TYR A 134 SER A 141 1 8 HELIX 14 AB5 ASN A 143 PHE A 153 1 11 HELIX 15 AB6 TYR A 157 MET A 161 5 5 HELIX 16 AB7 ASP A 162 HIS A 174 1 13 HELIX 17 AB8 GLU A 178 ALA A 193 1 16 HELIX 18 AB9 ASN A 196 ASN A 207 1 12 HELIX 19 AC1 ALA A 210 ILE A 218 1 9 HELIX 20 AC2 ILE A 221 GLY A 226 1 6 LINK O3' DA B 5 P ORP B 6 1555 1555 1.61 LINK O3 ORP B 6 P DA B 7 1555 1555 1.61 SITE 1 AC1 9 TYR A 27 DA B 5 DA B 7 HOH B 214 SITE 2 AC1 9 HOH B 217 DT C 18 DT C 19 DT C 20 SITE 3 AC1 9 HOH C 103 CRYST1 38.427 93.082 48.045 90.00 112.61 90.00 P 1 21 1 2 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 0.026023 0.000000 0.010837 0.00000 SCALE2 0.000000 0.010743 0.000000 0.00000 SCALE3 0.000000 0.000000 0.022546 0.00000