HEADER HYDROLASE/DNA/ANTIBIOTIC 03-MAR-21 7LXH TITLE BACILLUS CEREUS DNA GLYCOSYLASE ALKD BOUND TO A CC1065-ADENINE TITLE 2 NUCLEOBASE ADDUCT AND DNA CONTAINING AN ABASIC SITE COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA-7-METHYLGUANINE GLYCOSYLASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: ALKD; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: DNA (5'-D(*AP*GP*CP*AP*AP*(ORP)P*GP*GP*C)-3'); COMPND 8 CHAIN: B; COMPND 9 ENGINEERED: YES; COMPND 10 MOL_ID: 3; COMPND 11 MOLECULE: DNA (5'-D(*TP*GP*CP*CP*TP*TP*TP*GP*C)-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: BCERE0015_46090; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI K-12; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 83333; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: HMS174(DE3); 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 REPAIR, BASE EXCISION REPAIR, ANTIBIOTIC SELF-RESISTANCE, BULKY KEYWDS 2 DNA ADDUCT, SECONDARY METABOLITE, DNA BINDING PROTEIN, HYDROLASE- KEYWDS 3 DNA-ANTIBIOTIC COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR E.A.MULLINS,B.F.EICHMAN REVDAT 3 18-OCT-23 7LXH 1 REMARK REVDAT 2 08-DEC-21 7LXH 1 JRNL REVDAT 1 17-NOV-21 7LXH 0 JRNL AUTH E.A.MULLINS,J.DORIVAL,G.L.TANG,D.L.BOGER,B.F.EICHMAN JRNL TITL STRUCTURAL EVOLUTION OF A DNA REPAIR SELF-RESISTANCE JRNL TITL 2 MECHANISM TARGETING GENOTOXIC SECONDARY METABOLITES. JRNL REF NAT COMMUN V. 12 6942 2021 JRNL REFN ESSN 2041-1723 JRNL PMID 34836957 JRNL DOI 10.1038/S41467-021-27284-7 REMARK 2 REMARK 2 RESOLUTION. 1.67 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.14_3260 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) : 1.67 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 31.84 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 3 NUMBER OF REFLECTIONS : 35843 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.150 REMARK 3 R VALUE (WORKING SET) : 0.149 REMARK 3 FREE R VALUE : 0.183 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1793 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 31.8400 - 3.9174 0.98 2692 144 0.1381 0.1657 REMARK 3 2 3.9174 - 3.1102 0.95 2547 130 0.1300 0.1708 REMARK 3 3 3.1102 - 2.7173 1.00 2675 140 0.1393 0.1532 REMARK 3 4 2.7173 - 2.4689 1.00 2673 141 0.1394 0.1763 REMARK 3 5 2.4689 - 2.2920 1.00 2640 140 0.1417 0.1798 REMARK 3 6 2.2920 - 2.1569 0.99 2644 139 0.1512 0.1836 REMARK 3 7 2.1569 - 2.0489 1.00 2633 142 0.1600 0.2163 REMARK 3 8 2.0489 - 1.9597 1.00 2641 140 0.1656 0.2036 REMARK 3 9 1.9597 - 1.8843 1.00 2625 136 0.1889 0.2375 REMARK 3 10 1.8843 - 1.8193 1.00 2686 138 0.1691 0.2213 REMARK 3 11 1.8193 - 1.7624 1.00 2618 145 0.1778 0.2065 REMARK 3 12 1.7624 - 1.7120 0.99 2598 140 0.1988 0.2304 REMARK 3 13 1.7120 - 1.6670 0.90 2378 118 0.2187 0.2646 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) : 0.160 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.520 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 31.89 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 : 0.010 2456 REMARK 3 ANGLE : 1.067 3419 REMARK 3 CHIRALITY : 0.059 358 REMARK 3 PLANARITY : 0.008 364 REMARK 3 DIHEDRAL : 16.732 1378 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 9 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID -1 THROUGH 15 ) REMARK 3 ORIGIN FOR THE GROUP (A): -18.6867 -5.1563 37.6725 REMARK 3 T TENSOR REMARK 3 T11: 0.3094 T22: 0.6749 REMARK 3 T33: 0.2096 T12: 0.0675 REMARK 3 T13: -0.0958 T23: -0.0056 REMARK 3 L TENSOR REMARK 3 L11: 3.9218 L22: 4.4427 REMARK 3 L33: 3.8768 L12: 1.9184 REMARK 3 L13: 2.5311 L23: 0.2144 REMARK 3 S TENSOR REMARK 3 S11: -0.0874 S12: -0.7245 S13: -0.1092 REMARK 3 S21: 0.5999 S22: -0.0804 S23: -0.3691 REMARK 3 S31: -0.1507 S32: 0.1359 S33: -0.0227 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 16 THROUGH 53 ) REMARK 3 ORIGIN FOR THE GROUP (A): -28.5068 -10.4410 30.3262 REMARK 3 T TENSOR REMARK 3 T11: 0.1982 T22: 0.4008 REMARK 3 T33: 0.1868 T12: 0.0509 REMARK 3 T13: -0.0010 T23: 0.0469 REMARK 3 L TENSOR REMARK 3 L11: 2.2147 L22: 2.4386 REMARK 3 L33: 3.7651 L12: 0.1585 REMARK 3 L13: -0.2819 L23: 0.8353 REMARK 3 S TENSOR REMARK 3 S11: -0.0894 S12: -0.7016 S13: -0.0380 REMARK 3 S21: 0.2583 S22: -0.0986 S23: -0.0731 REMARK 3 S31: 0.1095 S32: 0.0342 S33: 0.1417 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 54 THROUGH 73 ) REMARK 3 ORIGIN FOR THE GROUP (A): -16.3535 2.0832 29.3899 REMARK 3 T TENSOR REMARK 3 T11: 0.4016 T22: 0.5165 REMARK 3 T33: 0.2414 T12: -0.0989 REMARK 3 T13: -0.1000 T23: -0.0817 REMARK 3 L TENSOR REMARK 3 L11: 3.9344 L22: 7.8132 REMARK 3 L33: 2.9523 L12: 0.2701 REMARK 3 L13: -0.0448 L23: 3.1791 REMARK 3 S TENSOR REMARK 3 S11: -0.2636 S12: -0.8709 S13: 0.4980 REMARK 3 S21: 0.0523 S22: 0.2487 S23: -0.3659 REMARK 3 S31: -0.7341 S32: 0.7692 S33: -0.1010 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 74 THROUGH 90 ) REMARK 3 ORIGIN FOR THE GROUP (A): -24.2622 2.3572 26.5162 REMARK 3 T TENSOR REMARK 3 T11: 0.4428 T22: 0.3466 REMARK 3 T33: 0.1924 T12: 0.0356 REMARK 3 T13: -0.0182 T23: -0.1019 REMARK 3 L TENSOR REMARK 3 L11: 4.2171 L22: 7.3457 REMARK 3 L33: 1.1502 L12: 0.8569 REMARK 3 L13: -0.3348 L23: 0.7592 REMARK 3 S TENSOR REMARK 3 S11: 0.0421 S12: -0.6788 S13: 0.4781 REMARK 3 S21: 0.1393 S22: 0.0136 S23: 0.1951 REMARK 3 S31: -0.7084 S32: 0.0973 S33: -0.0198 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 91 THROUGH 118 ) REMARK 3 ORIGIN FOR THE GROUP (A): -20.5544 0.8651 16.5927 REMARK 3 T TENSOR REMARK 3 T11: 0.2216 T22: 0.1908 REMARK 3 T33: 0.1311 T12: 0.0137 REMARK 3 T13: -0.0308 T23: -0.0266 REMARK 3 L TENSOR REMARK 3 L11: 3.2748 L22: 4.7807 REMARK 3 L33: 1.6263 L12: 1.4045 REMARK 3 L13: -0.0887 L23: -1.0466 REMARK 3 S TENSOR REMARK 3 S11: -0.0193 S12: -0.2588 S13: 0.1954 REMARK 3 S21: 0.3430 S22: -0.0463 S23: -0.1035 REMARK 3 S31: -0.2224 S32: 0.1865 S33: 0.0650 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 119 THROUGH 162 ) REMARK 3 ORIGIN FOR THE GROUP (A): -23.4114 5.8411 7.3301 REMARK 3 T TENSOR REMARK 3 T11: 0.1541 T22: 0.1006 REMARK 3 T33: 0.1338 T12: -0.0056 REMARK 3 T13: -0.0117 T23: -0.0202 REMARK 3 L TENSOR REMARK 3 L11: 2.2347 L22: 2.7016 REMARK 3 L33: 1.4439 L12: -0.9311 REMARK 3 L13: 0.1107 L23: -1.0152 REMARK 3 S TENSOR REMARK 3 S11: -0.0513 S12: -0.1624 S13: 0.2165 REMARK 3 S21: 0.1551 S22: 0.0381 S23: -0.1141 REMARK 3 S31: -0.0870 S32: 0.0820 S33: -0.0022 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 163 THROUGH 225 ) REMARK 3 ORIGIN FOR THE GROUP (A): -34.6509 -1.7213 -1.7375 REMARK 3 T TENSOR REMARK 3 T11: 0.1669 T22: 0.1068 REMARK 3 T33: 0.1555 T12: -0.0120 REMARK 3 T13: -0.0017 T23: -0.0068 REMARK 3 L TENSOR REMARK 3 L11: 1.6945 L22: 2.9555 REMARK 3 L33: 1.1899 L12: -1.0764 REMARK 3 L13: -0.1787 L23: 0.2133 REMARK 3 S TENSOR REMARK 3 S11: 0.0264 S12: 0.0753 S13: -0.0889 REMARK 3 S21: -0.1174 S22: -0.0513 S23: 0.1439 REMARK 3 S31: 0.0254 S32: -0.0832 S33: 0.0159 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 1 THROUGH 9 ) REMARK 3 ORIGIN FOR THE GROUP (A): -41.8222 -7.9927 16.2361 REMARK 3 T TENSOR REMARK 3 T11: 0.2067 T22: 0.1704 REMARK 3 T33: 0.1480 T12: -0.0177 REMARK 3 T13: 0.0510 T23: -0.0016 REMARK 3 L TENSOR REMARK 3 L11: 3.5339 L22: 3.0824 REMARK 3 L33: 4.2707 L12: 0.3241 REMARK 3 L13: -0.3476 L23: 0.2033 REMARK 3 S TENSOR REMARK 3 S11: -0.1486 S12: -0.1705 S13: -0.1064 REMARK 3 S21: 0.4559 S22: -0.0284 S23: 0.2477 REMARK 3 S31: 0.1978 S32: -0.3588 S33: 0.1626 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 1 THROUGH 9 ) REMARK 3 ORIGIN FOR THE GROUP (A): -41.6076 -11.1405 16.8095 REMARK 3 T TENSOR REMARK 3 T11: 0.2276 T22: 0.2265 REMARK 3 T33: 0.2085 T12: 0.0096 REMARK 3 T13: 0.0251 T23: 0.0212 REMARK 3 L TENSOR REMARK 3 L11: 1.7992 L22: 4.1753 REMARK 3 L33: 6.4626 L12: 0.0837 REMARK 3 L13: 0.3540 L23: 4.0065 REMARK 3 S TENSOR REMARK 3 S11: -0.0446 S12: -0.1771 S13: -0.0622 REMARK 3 S21: 0.1675 S22: -0.2424 S23: 0.2723 REMARK 3 S31: 0.1012 S32: -0.1715 S33: 0.2938 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 7LXH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-MAR-21. REMARK 100 THE DEPOSITION ID IS D_1000255145. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-OCT-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 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-G REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97857 REMARK 200 MONOCHROMATOR : C(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000, DENZO REMARK 200 DATA SCALING SOFTWARE : HKL-2000, SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 35848 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.667 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 (%) : 98.8 REMARK 200 DATA REDUNDANCY : 6.300 REMARK 200 R MERGE (I) : 0.06800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.67 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.70 REMARK 200 COMPLETENESS FOR SHELL (%) : 91.9 REMARK 200 DATA REDUNDANCY IN SHELL : 4.90 REMARK 200 R MERGE FOR SHELL (I) : 0.46000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX, PHASER REMARK 200 STARTING MODEL: 3BVS REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.93 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.32 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 21% (W/V) PEG 8000, 50 MM HEPES PH REMARK 280 7.0, AND 50 MM CALCIUM CHLORIDE, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 294K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 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 62.28600 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 27.80450 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 62.28600 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 27.80450 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 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 GLY A 226 REMARK 465 ILE A 227 REMARK 465 ASN A 228 REMARK 465 ASN A 229 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 HIS A 53 HG1 THR A 54 1.59 REMARK 500 HZ3 LYS A 156 O HOH A 403 1.59 REMARK 500 O PRO A 56 HH TYR A 87 1.60 REMARK 500 O HOH A 443 O HOH A 615 2.01 REMARK 500 O HOH A 538 O HOH A 593 2.10 REMARK 500 O HOH B 216 O HOH B 241 2.15 REMARK 500 O HOH A 574 O HOH A 584 2.17 REMARK 500 O HOH A 538 O HOH A 644 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 DG B 8 O3' DG B 8 C3' -0.057 REMARK 500 DG C 2 O3' DG C 2 C3' -0.038 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 B 3 O4' - C4' - C3' 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 MET A 28 30.75 -96.15 REMARK 500 THR A 54 146.08 72.62 REMARK 500 LYS A 158 -122.34 52.18 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 301 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 142 OD1 REMARK 620 2 ASP A 142 OD2 46.3 REMARK 620 3 HOH A 501 O 83.6 128.3 REMARK 620 4 HOH A 502 O 84.0 76.2 88.6 REMARK 620 5 HOH A 512 O 113.8 71.0 160.2 102.0 REMARK 620 6 HOH A 558 O 150.9 133.6 82.5 70.3 85.4 REMARK 620 7 HOH A 624 O 126.7 138.2 77.4 143.5 84.3 74.5 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 101 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 559 O REMARK 620 2 HOH A 588 O 63.7 REMARK 620 3 HOH B 205 O 98.5 125.6 REMARK 620 4 HOH B 207 O 132.8 69.5 103.4 REMARK 620 5 HOH B 214 O 71.2 124.3 90.8 148.0 REMARK 620 6 HOH B 218 O 91.7 73.0 161.4 80.4 77.7 REMARK 620 7 HOH B 237 O 64.3 61.2 64.8 88.3 123.7 133.8 REMARK 620 N 1 2 3 4 5 6 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5UUG RELATED DB: PDB REMARK 900 RELATED ID: 7LXJ RELATED DB: PDB DBREF 7LXH A 1 237 UNP C2T7T7 C2T7T7_BACCE 1 237 DBREF 7LXH B 1 9 PDB 7LXH 7LXH 1 9 DBREF 7LXH C 1 9 PDB 7LXH 7LXH 1 9 SEQADV 7LXH GLY A -3 UNP C2T7T7 EXPRESSION TAG SEQADV 7LXH PRO A -2 UNP C2T7T7 EXPRESSION TAG SEQADV 7LXH VAL A -1 UNP C2T7T7 EXPRESSION TAG SEQADV 7LXH PRO A 0 UNP C2T7T7 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 9 DA DG DC DA DA ORP DG DG DC SEQRES 1 C 9 DT DG DC DC DT DT DT DG DC HET ORP B 6 20 HET CA A 301 1 HET CA B 101 1 HET YNG B 102 100 HETNAM ORP 2-DEOXY-5-PHOSPHONO-RIBOSE HETNAM CA CALCIUM ION HETNAM YNG 7-{7-[(1R)-1-{[(4P)-6-AMINO-3H-PURIN-3-YL]METHYL}-5- HETNAM 2 YNG HYDROXY-8-METHYL-1,6-DIHYDROPYRROLO[3,2-E]INDOLE- HETNAM 3 YNG 3(2H)-CARBONYL]-4-HYDROXY-5-METHOXY-1,6- HETNAM 4 YNG DIHYDROPYRROLO[3,2-E]INDOLE-3(2H)-CARBONYL}-4-HYDROXY- HETNAM 5 YNG 5-METHOXY-1,6-DIHYDROPYRROLO[3,2-E]INDOLE-3(2H)- HETNAM 6 YNG CARBOXAMIDE FORMUL 2 ORP C5 H11 O7 P FORMUL 4 CA 2(CA 2+) FORMUL 6 YNG C42 H38 N12 O8 FORMUL 7 HOH *357(H2 O) HELIX 1 AA1 HIS A 2 HIS A 15 1 14 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 LEU A 71 1 12 HELIX 6 AA6 GLU A 73 LYS A 88 1 16 HELIX 7 AA7 LYS A 89 ILE A 91 5 3 HELIX 8 AA8 ASN A 92 THR A 94 5 3 HELIX 9 AA9 HIS A 95 THR A 105 1 11 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 LYS A 194 1 17 HELIX 18 AB9 ASN A 196 ASN A 207 1 12 HELIX 19 AC1 ALA A 210 LYS A 219 1 10 HELIX 20 AC2 ILE A 221 TYR A 225 5 5 LINK O3' DA B 5 P ORP B 6 1555 1555 1.62 LINK O3 ORP B 6 P DG B 7 1555 1555 1.61 LINK OD1 ASP A 142 CA CA A 301 1555 1555 2.49 LINK OD2 ASP A 142 CA CA A 301 1555 1555 2.97 LINK CA CA A 301 O HOH A 501 1555 1555 2.39 LINK CA CA A 301 O HOH A 502 1555 1554 2.65 LINK CA CA A 301 O HOH A 512 1555 1554 2.36 LINK CA CA A 301 O HOH A 558 1555 1554 2.41 LINK CA CA A 301 O HOH A 624 1555 1554 2.39 LINK O HOH A 559 CA CA B 101 1555 1555 2.38 LINK O HOH A 588 CA CA B 101 1555 1555 2.56 LINK CA CA B 101 O HOH B 205 1555 1555 2.43 LINK CA CA B 101 O HOH B 207 1555 1555 2.25 LINK CA CA B 101 O HOH B 214 1555 1555 2.28 LINK CA CA B 101 O HOH B 218 1555 1555 2.43 LINK CA CA B 101 O HOH B 237 1555 1555 2.48 CRYST1 124.572 55.609 48.557 90.00 110.73 90.00 C 1 2 1 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 0.008027 0.000000 0.003037 0.00000 SCALE2 0.000000 0.017983 0.000000 0.00000 SCALE3 0.000000 0.000000 0.022019 0.00000