PDB Short entry for 6ROK HEADER HYDROLASE 13-MAY-19 6ROK TITLE THE CRYSTAL STRUCTURE OF A COMPLEX BETWEEN THE LLFPG PROTEIN, A THF- TITLE 2 DNA AND AN INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: FORMAMIDOPYRIMIDINE-DNA GLYCOSYLASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: FAPY-DNA GLYCOSYLASE,DNA-(APURINIC OR APYRIMIDINIC SITE) COMPND 5 LYASE MUTM,AP LYASE MUTM; COMPND 6 EC: 3.2.2.23,4.2.99.18; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: DNA (5'-D(*CP*TP*CP*TP*TP*TP*(3DR)P*TP*TP*TP*CP*TP*CP*G)- COMPND 10 3'); COMPND 11 CHAIN: D; COMPND 12 ENGINEERED: YES; COMPND 13 MOL_ID: 3; COMPND 14 MOLECULE: DNA (5'-D(*GP*CP*GP*AP*GP*AP*AP*AP*CP*AP*AP*AP*GP*A)-3'); COMPND 15 CHAIN: E; COMPND 16 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LACTOCOCCUS LACTIS SUBSP. CREMORIS; SOURCE 3 ORGANISM_TAXID: 1359; SOURCE 4 GENE: MUTM, FPG, NCDO763_0992; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 MOL_ID: 2; SOURCE 8 SYNTHETIC: YES; SOURCE 9 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 10 ORGANISM_TAXID: 32630; SOURCE 11 MOL_ID: 3; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 14 ORGANISM_TAXID: 32630 KEYWDS DNA GLYCOSYLASE COMPLEX, INHIBITOR, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR F.COSTE,S.GOFFINONT,B.CASTAING REVDAT 2 24-JAN-24 6ROK 1 REMARK REVDAT 1 15-APR-20 6ROK 0 JRNL AUTH C.RIEUX,S.GOFFINONT,F.COSTE,Z.TBER,J.CROS,V.ROY,M.GUERIN, JRNL AUTH 2 V.GAUDON,S.BOURG,A.BIELA,V.AUCAGNE,L.AGROFOGLIO,N.GARNIER, JRNL AUTH 3 B.CASTAING JRNL TITL THIOPURINE DERIVATIVE-INDUCED FPG/NEI DNA GLYCOSYLASE JRNL TITL 2 INHIBITION: STRUCTURAL, DYNAMIC AND FUNCTIONAL INSIGHTS. JRNL REF INT J MOL SCI V. 21 2020 JRNL REFN ESSN 1422-0067 JRNL PMID 32192183 JRNL DOI 10.3390/IJMS21062058 REMARK 2 REMARK 2 RESOLUTION. 1.95 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.10_2142 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) : 1.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.84 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.020 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 3 NUMBER OF REFLECTIONS : 83203 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.169 REMARK 3 R VALUE (WORKING SET) : 0.168 REMARK 3 FREE R VALUE : 0.196 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.830 REMARK 3 FREE R VALUE TEST SET COUNT : 4015 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 47.8529 - 5.9881 0.95 2616 150 0.1432 0.1714 REMARK 3 2 5.9881 - 4.7543 0.99 2718 141 0.1325 0.1489 REMARK 3 3 4.7543 - 4.1537 0.98 2705 136 0.1096 0.1497 REMARK 3 4 4.1537 - 3.7741 0.99 2759 116 0.1249 0.1460 REMARK 3 5 3.7741 - 3.5037 1.00 2744 134 0.1387 0.1630 REMARK 3 6 3.5037 - 3.2972 1.00 2771 141 0.1373 0.1431 REMARK 3 7 3.2972 - 3.1321 1.00 2766 124 0.1628 0.1890 REMARK 3 8 3.1321 - 2.9958 1.00 2776 118 0.1667 0.2091 REMARK 3 9 2.9958 - 2.8805 1.00 2758 124 0.1850 0.2036 REMARK 3 10 2.8805 - 2.7811 1.00 2735 149 0.1804 0.2376 REMARK 3 11 2.7811 - 2.6941 0.99 2734 149 0.1841 0.2215 REMARK 3 12 2.6941 - 2.6171 0.99 2745 145 0.1824 0.2034 REMARK 3 13 2.6171 - 2.5482 1.00 2736 170 0.1802 0.2178 REMARK 3 14 2.5482 - 2.4861 0.99 2677 165 0.1764 0.1983 REMARK 3 15 2.4861 - 2.4295 0.99 2784 140 0.1709 0.2059 REMARK 3 16 2.4295 - 2.3778 0.99 2737 128 0.1684 0.2195 REMARK 3 17 2.3778 - 2.3303 0.99 2742 136 0.1788 0.2154 REMARK 3 18 2.3303 - 2.2863 0.99 2733 119 0.1828 0.1982 REMARK 3 19 2.2863 - 2.2455 0.99 2729 174 0.1940 0.2328 REMARK 3 20 2.2455 - 2.2074 0.99 2733 145 0.2018 0.2763 REMARK 3 21 2.2074 - 2.1718 0.99 2744 134 0.2170 0.2396 REMARK 3 22 2.1718 - 2.1384 0.99 2726 136 0.2342 0.2239 REMARK 3 23 2.1384 - 2.1069 0.99 2735 129 0.2508 0.2750 REMARK 3 24 2.1069 - 2.0773 0.99 2694 175 0.2820 0.2878 REMARK 3 25 2.0773 - 2.0492 0.98 2710 126 0.3026 0.3362 REMARK 3 26 2.0492 - 2.0226 0.99 2774 126 0.3011 0.3727 REMARK 3 27 2.0226 - 1.9973 0.99 2669 128 0.3180 0.2838 REMARK 3 28 1.9973 - 1.9732 0.99 2797 141 0.3284 0.3392 REMARK 3 29 1.9732 - 1.9503 0.96 2641 116 0.3532 0.3492 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) : 0.230 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.240 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 31.71 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 37.35 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 : 0.016 2856 REMARK 3 ANGLE : 1.477 3953 REMARK 3 CHIRALITY : 0.079 441 REMARK 3 PLANARITY : 0.009 404 REMARK 3 DIHEDRAL : 17.347 1630 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'D' AND (RESID 1 THROUGH 14 ) REMARK 3 ORIGIN FOR THE GROUP (A): -30.9041 3.1555 11.9361 REMARK 3 T TENSOR REMARK 3 T11: 0.3022 T22: 0.3591 REMARK 3 T33: 0.3505 T12: 0.0052 REMARK 3 T13: -0.0446 T23: -0.0138 REMARK 3 L TENSOR REMARK 3 L11: 0.7335 L22: 1.1085 REMARK 3 L33: 3.0055 L12: 0.0227 REMARK 3 L13: -0.2899 L23: -0.4902 REMARK 3 S TENSOR REMARK 3 S11: 0.0711 S12: 0.0178 S13: 0.2300 REMARK 3 S21: -0.2298 S22: -0.0298 S23: 0.2792 REMARK 3 S31: -0.0512 S32: -0.6553 S33: -0.0075 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'E' AND (RESID 15 THROUGH 28 ) REMARK 3 ORIGIN FOR THE GROUP (A): -30.0684 2.4171 11.4007 REMARK 3 T TENSOR REMARK 3 T11: 0.2591 T22: 0.3687 REMARK 3 T33: 0.2328 T12: -0.0065 REMARK 3 T13: -0.0192 T23: -0.0140 REMARK 3 L TENSOR REMARK 3 L11: 4.2671 L22: 1.9092 REMARK 3 L33: 3.8744 L12: 0.3939 REMARK 3 L13: -0.9437 L23: 0.3023 REMARK 3 S TENSOR REMARK 3 S11: -0.1681 S12: -0.0052 S13: -0.2074 REMARK 3 S21: 0.0270 S22: 0.0647 S23: 0.0188 REMARK 3 S31: 0.4921 S32: -0.7032 S33: 0.1407 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 1 THROUGH 91 ) REMARK 3 ORIGIN FOR THE GROUP (A): -5.0906 11.0659 12.0337 REMARK 3 T TENSOR REMARK 3 T11: 0.2523 T22: 0.1826 REMARK 3 T33: 0.2533 T12: -0.0178 REMARK 3 T13: 0.0007 T23: -0.0198 REMARK 3 L TENSOR REMARK 3 L11: 2.0494 L22: 1.0368 REMARK 3 L33: 2.5583 L12: -0.0182 REMARK 3 L13: -0.6133 L23: -0.2408 REMARK 3 S TENSOR REMARK 3 S11: 0.0538 S12: -0.0327 S13: 0.0894 REMARK 3 S21: -0.0073 S22: -0.0268 S23: -0.1232 REMARK 3 S31: -0.1976 S32: 0.0556 S33: -0.0243 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 92 THROUGH 193 ) REMARK 3 ORIGIN FOR THE GROUP (A): -16.4682 1.6169 24.5690 REMARK 3 T TENSOR REMARK 3 T11: 0.1961 T22: 0.2006 REMARK 3 T33: 0.2483 T12: 0.0157 REMARK 3 T13: -0.0152 T23: -0.0199 REMARK 3 L TENSOR REMARK 3 L11: 1.0057 L22: 1.2956 REMARK 3 L33: 2.2208 L12: 0.6278 REMARK 3 L13: -0.4536 L23: -0.7249 REMARK 3 S TENSOR REMARK 3 S11: 0.0514 S12: -0.1424 S13: -0.0625 REMARK 3 S21: 0.0796 S22: -0.0482 S23: -0.0060 REMARK 3 S31: 0.0216 S32: -0.0862 S33: -0.0084 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 194 THROUGH 234 ) REMARK 3 ORIGIN FOR THE GROUP (A): -9.9634 -9.6350 22.1390 REMARK 3 T TENSOR REMARK 3 T11: 0.3445 T22: 0.2065 REMARK 3 T33: 0.3513 T12: 0.0237 REMARK 3 T13: 0.0059 T23: 0.0080 REMARK 3 L TENSOR REMARK 3 L11: 5.0612 L22: 3.3569 REMARK 3 L33: 2.6802 L12: 1.5968 REMARK 3 L13: -2.9125 L23: -1.3060 REMARK 3 S TENSOR REMARK 3 S11: -0.2198 S12: 0.1502 S13: -0.4232 REMARK 3 S21: -0.3514 S22: -0.1245 S23: -0.3954 REMARK 3 S31: 0.2003 S32: 0.1717 S33: 0.3495 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 235 THROUGH 271 ) REMARK 3 ORIGIN FOR THE GROUP (A): -24.4482 -17.4156 19.4810 REMARK 3 T TENSOR REMARK 3 T11: 0.4203 T22: 0.2782 REMARK 3 T33: 0.2802 T12: -0.1236 REMARK 3 T13: 0.0050 T23: -0.0191 REMARK 3 L TENSOR REMARK 3 L11: 2.6079 L22: 4.9095 REMARK 3 L33: 2.0401 L12: 0.9630 REMARK 3 L13: 0.4213 L23: -0.3717 REMARK 3 S TENSOR REMARK 3 S11: -0.2285 S12: 0.0672 S13: -0.2449 REMARK 3 S21: -0.3702 S22: 0.2826 S23: -0.0268 REMARK 3 S31: 0.5820 S32: -0.3571 S33: -0.0444 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 6ROK COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 13-MAY-19. REMARK 100 THE DEPOSITION ID IS D_1292102307. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-JUL-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SOLEIL REMARK 200 BEAMLINE : PROXIMA 2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.98010 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 44101 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 REMARK 200 RESOLUTION RANGE LOW (A) : 47.840 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 4.800 REMARK 200 R MERGE (I) : 0.06400 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 14.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.3 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.500 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: 1PM5 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 67.35 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.77 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: HEPES, CITRATE, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 70.92900 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 45.81650 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 45.81650 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 35.46450 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 45.81650 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 45.81650 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 106.39350 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 45.81650 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 45.81650 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 35.46450 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 45.81650 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 45.81650 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 106.39350 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 70.92900 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: 4200 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16050 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -21.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, D, E 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 477 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 621 LIES ON A SPECIAL POSITION. 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 ARG A 88 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 213 CE NZ REMARK 470 ARG A 220 CG CD NE CZ NH1 NH2 REMARK 470 THR A 221 OG1 CG2 REMARK 470 TYR A 222 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 SER A 223 OG REMARK 470 LYS A 230 CE NZ REMARK 470 LYS A 271 CE NZ 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 OE2 GLU A 26 O HOH A 401 2.15 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 DT D 2 O3' DT D 2 C3' -0.043 REMARK 500 DC D 13 O3' DC D 13 C3' -0.043 REMARK 500 DC E 23 O3' DC E 23 C3' -0.048 REMARK 500 DA E 24 O3' DA E 24 C3' -0.047 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 E 23 O5' - P - OP2 ANGL. DEV. = -6.0 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 ARG A 74 -126.91 49.46 REMARK 500 ASP A 107 101.50 -166.86 REMARK 500 VAL A 166 141.29 -175.18 REMARK 500 ARG A 220 -164.13 63.81 REMARK 500 THR A 221 -78.38 -151.05 REMARK 500 TYR A 222 -179.23 68.51 REMARK 500 VAL A 237 -37.45 -132.92 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 670 DISTANCE = 5.98 ANGSTROMS REMARK 525 HOH A 671 DISTANCE = 6.19 ANGSTROMS REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 301 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 245 SG REMARK 620 2 CYS A 248 SG 111.1 REMARK 620 3 CYS A 265 SG 110.9 97.2 REMARK 620 4 CYS A 268 SG 106.2 116.7 114.7 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 5JL A 304 DBREF1 6ROK A 1 271 UNP A0A165FVI1_LACLC DBREF2 6ROK A A0A165FVI1 2 272 DBREF 6ROK D 1 14 PDB 6ROK 6ROK 1 14 DBREF 6ROK E 15 28 PDB 6ROK 6ROK 15 28 SEQRES 1 A 271 PRO GLU LEU PRO GLU VAL GLU THR VAL ARG ARG GLU LEU SEQRES 2 A 271 GLU LYS ARG ILE VAL GLY GLN LYS ILE ILE SER ILE GLU SEQRES 3 A 271 ALA THR TYR PRO ARG MET VAL LEU THR GLY PHE GLU GLN SEQRES 4 A 271 LEU LYS LYS GLU LEU THR GLY LYS THR ILE GLN GLY ILE SEQRES 5 A 271 SER ARG ARG GLY LYS TYR LEU ILE PHE GLU ILE GLY ASP SEQRES 6 A 271 ASP PHE ARG LEU ILE SER HIS LEU ARG MET GLU GLY LYS SEQRES 7 A 271 TYR ARG LEU ALA THR LEU ASP ALA PRO ARG GLU LYS HIS SEQRES 8 A 271 ASP HIS LEU THR MET LYS PHE ALA ASP GLY GLN LEU ILE SEQRES 9 A 271 TYR ALA ASP VAL ARG LYS PHE GLY THR TRP GLU LEU ILE SEQRES 10 A 271 SER THR ASP GLN VAL LEU PRO TYR PHE LEU LYS LYS LYS SEQRES 11 A 271 ILE GLY PRO GLU PRO THR TYR GLU ASP PHE ASP GLU LYS SEQRES 12 A 271 LEU PHE ARG GLU LYS LEU ARG LYS SER THR LYS LYS ILE SEQRES 13 A 271 LYS PRO TYR LEU LEU GLU GLN THR LEU VAL ALA GLY LEU SEQRES 14 A 271 GLY ASN ILE TYR VAL ASP GLU VAL LEU TRP LEU ALA LYS SEQRES 15 A 271 ILE HIS PRO GLU LYS GLU THR ASN GLN LEU ILE GLU SER SEQRES 16 A 271 SER ILE HIS LEU LEU HIS ASP SER ILE ILE GLU ILE LEU SEQRES 17 A 271 GLN LYS ALA ILE LYS LEU GLY GLY SER SER ILE ARG THR SEQRES 18 A 271 TYR SER ALA LEU GLY SER THR GLY LYS MET GLN ASN GLU SEQRES 19 A 271 LEU GLN VAL TYR GLY LYS THR GLY GLU LYS CYS SER ARG SEQRES 20 A 271 CYS GLY ALA GLU ILE GLN LYS ILE LYS VAL ALA GLY ARG SEQRES 21 A 271 GLY THR HIS PHE CYS PRO VAL CYS GLN GLN LYS SEQRES 1 D 14 DC DT DC DT DT DT 3DR DT DT DT DC DT DC SEQRES 2 D 14 DG SEQRES 1 E 14 DG DC DG DA DG DA DA DA DC DA DA DA DG SEQRES 2 E 14 DA HET 3DR D 7 11 HET ZN A 301 1 HET GOL A 302 6 HET GOL A 303 6 HET 5JL A 304 12 HETNAM 3DR 1',2'-DIDEOXYRIBOFURANOSE-5'-PHOSPHATE HETNAM ZN ZINC ION HETNAM GOL GLYCEROL HETNAM 5JL 2,8-DITHIOXO-1,2,3,7,8,9-HEXAHYDRO-6H-PURIN-6-ONE HETSYN 3DR ABASIC DIDEOXYRIBOSE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 3DR C5 H11 O6 P FORMUL 4 ZN ZN 2+ FORMUL 5 GOL 2(C3 H8 O3) FORMUL 7 5JL C5 H4 N4 O S2 FORMUL 8 HOH *312(H2 O) HELIX 1 AA1 GLU A 2 VAL A 18 1 17 HELIX 2 AA2 TYR A 29 VAL A 33 5 5 HELIX 3 AA3 GLY A 36 THR A 45 1 10 HELIX 4 AA4 GLN A 121 LYS A 130 1 10 HELIX 5 AA5 ASP A 141 SER A 152 1 12 HELIX 6 AA6 LYS A 155 GLU A 162 1 8 HELIX 7 AA7 GLY A 170 LYS A 182 1 13 HELIX 8 AA8 GLU A 188 LEU A 192 5 5 HELIX 9 AA9 ILE A 193 LEU A 214 1 22 HELIX 10 AB1 LYS A 230 LEU A 235 5 6 SHEET 1 AA1 4 SER A 24 ALA A 27 0 SHEET 2 AA1 4 ASP A 92 LYS A 97 -1 O LYS A 97 N SER A 24 SHEET 3 AA1 4 GLN A 102 ALA A 106 -1 O TYR A 105 N HIS A 93 SHEET 4 AA1 4 LYS A 78 ALA A 82 -1 N ALA A 82 O GLN A 102 SHEET 1 AA2 4 ILE A 49 ARG A 55 0 SHEET 2 AA2 4 TYR A 58 ILE A 63 -1 O ILE A 60 N SER A 53 SHEET 3 AA2 4 PHE A 67 HIS A 72 -1 O SER A 71 N LEU A 59 SHEET 4 AA2 4 THR A 113 SER A 118 -1 O GLU A 115 N ILE A 70 SHEET 1 AA3 2 GLN A 253 VAL A 257 0 SHEET 2 AA3 2 ARG A 260 PHE A 264 -1 O THR A 262 N ILE A 255 LINK O3' DT D 6 P 3DR D 7 1555 1555 1.61 LINK O3' 3DR D 7 P DT D 8 1555 1555 1.60 LINK SG CYS A 245 ZN ZN A 301 1555 1555 2.39 LINK SG CYS A 248 ZN ZN A 301 1555 1555 2.38 LINK SG CYS A 265 ZN ZN A 301 1555 1555 2.11 LINK SG CYS A 268 ZN ZN A 301 1555 1555 2.29 SITE 1 AC1 4 CYS A 245 CYS A 248 CYS A 265 CYS A 268 SITE 1 AC2 10 TYR A 58 HIS A 72 ARG A 74 THR A 113 SITE 2 AC2 10 GLU A 115 TYR A 125 LYS A 129 HOH A 493 SITE 3 AC2 10 DT D 9 DT D 10 SITE 1 AC3 8 ARG A 16 GLN A 20 LEU A 81 THR A 83 SITE 2 AC3 8 ASP A 85 PHE A 98 ASP A 100 GLY A 101 SITE 1 AC4 10 LYS A 57 LEU A 161 GLU A 162 ARG A 260 SITE 2 AC4 10 HOH A 466 HOH A 533 HOH A 575 DT D 8 SITE 3 AC4 10 DT D 9 DT D 10 CRYST1 91.633 91.633 141.858 90.00 90.00 90.00 P 41 21 2 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 0.010913 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010913 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007049 0.00000