HEADER HYDROLASE 10-JUL-18 6H0S TITLE CRYSTAL STRUCTURE OF THE COMPLEX BETWEEN THE LACTOCOCCUS LACTIS FPG TITLE 2 MUTANT G226P AND A FAPY-DG CONTAINING DNA 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 MUTATION: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: DNA (5'-D(*CP*TP*CP*TP*TP*TP*(FOX)P*TP*TP*TP*CP*TP*CP*G)- COMPND 11 3'); COMPND 12 CHAIN: B; COMPND 13 ENGINEERED: YES; COMPND 14 MOL_ID: 3; COMPND 15 MOLECULE: DNA (5'-D(*GP*CP*GP*AP*GP*AP*AP*AP*CP*AP*AP*AP*GP*A)-3'); COMPND 16 CHAIN: C; COMPND 17 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 EXPRESSION_SYSTEM_PLASMID: PMAL-C; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 11 ORGANISM_TAXID: 32630; SOURCE 12 MOL_ID: 3; SOURCE 13 SYNTHETIC: YES; SOURCE 14 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 15 ORGANISM_TAXID: 32630 KEYWDS PROTEIN-DNA COMPLEX, GLYCOSYLASE, HYDANTOIN LESION, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR F.COSTE,B.CASTAING,T.CARELL REVDAT 2 17-JAN-24 6H0S 1 REMARK REVDAT 1 31-JUL-19 6H0S 0 JRNL AUTH F.COSTE,B.CASTAING,T.CARELL JRNL TITL CRYSTAL STRUCTURE OF THE COMPLEX BETWEEN THE LACTOCOCCUS JRNL TITL 2 LACTIS FPG MUTANT G226P AND A FAPY-DG CONTAINING DNA JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.75 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.12_2829: ???) 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.75 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.03 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.980 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 61792 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.158 REMARK 3 R VALUE (WORKING SET) : 0.157 REMARK 3 FREE R VALUE : 0.177 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.060 REMARK 3 FREE R VALUE TEST SET COUNT : 5908 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 42.0378 - 5.4257 0.99 3723 155 0.1492 0.1706 REMARK 3 2 5.4257 - 4.3079 1.00 3697 223 0.1084 0.1159 REMARK 3 3 4.3079 - 3.7638 1.00 3651 242 0.1187 0.1348 REMARK 3 4 3.7638 - 3.4198 1.00 3708 190 0.1301 0.1531 REMARK 3 5 3.4198 - 3.1748 1.00 3719 186 0.1519 0.1531 REMARK 3 6 3.1748 - 2.9877 1.00 3710 204 0.1689 0.1755 REMARK 3 7 2.9877 - 2.8381 1.00 3726 173 0.1766 0.1940 REMARK 3 8 2.8381 - 2.7146 1.00 3704 187 0.1822 0.2042 REMARK 3 9 2.7146 - 2.6101 1.00 3705 204 0.1769 0.2218 REMARK 3 10 2.6101 - 2.5200 1.00 3692 193 0.1646 0.2015 REMARK 3 11 2.5200 - 2.4412 1.00 3686 206 0.1613 0.1899 REMARK 3 12 2.4412 - 2.3715 1.00 3756 166 0.1583 0.2010 REMARK 3 13 2.3715 - 2.3090 1.00 3679 218 0.1596 0.1761 REMARK 3 14 2.3090 - 2.2527 1.00 3711 210 0.1554 0.1763 REMARK 3 15 2.2527 - 2.2015 1.00 3697 214 0.1503 0.1771 REMARK 3 16 2.2015 - 2.1546 1.00 3722 179 0.1566 0.2005 REMARK 3 17 2.1546 - 2.1116 1.00 3680 187 0.1584 0.2153 REMARK 3 18 2.1116 - 2.0717 1.00 3692 225 0.1723 0.2039 REMARK 3 19 2.0717 - 2.0347 1.00 3702 205 0.1736 0.1877 REMARK 3 20 2.0347 - 2.0002 1.00 3693 197 0.1680 0.2019 REMARK 3 21 2.0002 - 1.9680 1.00 3656 250 0.1713 0.2154 REMARK 3 22 1.9680 - 1.9377 1.00 3728 171 0.1740 0.1854 REMARK 3 23 1.9377 - 1.9092 1.00 3718 184 0.1855 0.1841 REMARK 3 24 1.9092 - 1.8823 1.00 3746 172 0.1966 0.2578 REMARK 3 25 1.8823 - 1.8569 1.00 3714 198 0.2191 0.2340 REMARK 3 26 1.8569 - 1.8327 1.00 3661 184 0.2357 0.2499 REMARK 3 27 1.8327 - 1.8098 1.00 3790 164 0.2210 0.2798 REMARK 3 28 1.8098 - 1.7880 1.00 3726 198 0.2256 0.2466 REMARK 3 29 1.7880 - 1.7672 1.00 3679 202 0.2365 0.2631 REMARK 3 30 1.7672 - 1.7474 0.95 3464 221 0.2509 0.2989 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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) : 0.170 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 17.530 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) : 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 : 0.014 2884 REMARK 3 ANGLE : 1.410 4007 REMARK 3 CHIRALITY : 0.090 451 REMARK 3 PLANARITY : 0.009 415 REMARK 3 DIHEDRAL : 11.934 2208 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 1 THROUGH 14 ) REMARK 3 ORIGIN FOR THE GROUP (A): -2.8099 30.1462 -11.7049 REMARK 3 T TENSOR REMARK 3 T11: 0.3016 T22: 0.2797 REMARK 3 T33: 0.2527 T12: -0.0110 REMARK 3 T13: -0.0099 T23: -0.0636 REMARK 3 L TENSOR REMARK 3 L11: 0.3221 L22: 0.1001 REMARK 3 L33: 0.1735 L12: 0.0429 REMARK 3 L13: -0.1905 L23: 0.0147 REMARK 3 S TENSOR REMARK 3 S11: -0.0029 S12: -0.1601 S13: 0.1751 REMARK 3 S21: -0.0597 S22: 0.0825 S23: 0.0600 REMARK 3 S31: -0.4006 S32: 0.0111 S33: 0.0068 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 15 THROUGH 28 ) REMARK 3 ORIGIN FOR THE GROUP (A): -2.4739 29.9580 -11.2637 REMARK 3 T TENSOR REMARK 3 T11: 0.3823 T22: 0.2855 REMARK 3 T33: 0.2333 T12: -0.0395 REMARK 3 T13: -0.0362 T23: -0.0069 REMARK 3 L TENSOR REMARK 3 L11: 0.0786 L22: 0.1421 REMARK 3 L33: 0.1233 L12: 0.0651 REMARK 3 L13: 0.0342 L23: 0.1205 REMARK 3 S TENSOR REMARK 3 S11: 0.0768 S12: 0.0057 S13: 0.1268 REMARK 3 S21: 0.0997 S22: -0.0112 S23: 0.0806 REMARK 3 S31: -0.5323 S32: 0.1294 S33: 0.1052 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 1 THROUGH 213 ) REMARK 3 ORIGIN FOR THE GROUP (A): -4.6566 11.0179 -19.6765 REMARK 3 T TENSOR REMARK 3 T11: 0.0960 T22: 0.1385 REMARK 3 T33: 0.1482 T12: -0.0070 REMARK 3 T13: -0.0095 T23: -0.0157 REMARK 3 L TENSOR REMARK 3 L11: 0.5785 L22: 0.5032 REMARK 3 L33: 1.1639 L12: 0.1449 REMARK 3 L13: -0.2495 L23: -0.2956 REMARK 3 S TENSOR REMARK 3 S11: -0.0307 S12: -0.0022 S13: -0.0727 REMARK 3 S21: -0.0423 S22: 0.0257 S23: -0.0203 REMARK 3 S31: -0.0002 S32: -0.0161 S33: 0.0000 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 214 THROUGH 271 ) REMARK 3 ORIGIN FOR THE GROUP (A): 14.7357 18.7798 -16.4833 REMARK 3 T TENSOR REMARK 3 T11: 0.1722 T22: 0.3710 REMARK 3 T33: 0.2177 T12: -0.0875 REMARK 3 T13: -0.0063 T23: 0.0198 REMARK 3 L TENSOR REMARK 3 L11: 0.3235 L22: 0.3451 REMARK 3 L33: 0.2766 L12: 0.1892 REMARK 3 L13: -0.2433 L23: -0.2889 REMARK 3 S TENSOR REMARK 3 S11: 0.1560 S12: -0.3831 S13: -0.1033 REMARK 3 S21: 0.2142 S22: -0.2381 S23: -0.0734 REMARK 3 S31: -0.1810 S32: 0.4320 S33: -0.0720 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 6H0S COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 11-JUL-18. REMARK 100 THE DEPOSITION ID IS D_1200010855. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-FEB-13 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 : ESRF REMARK 200 BEAMLINE : BM14 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.954 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 61879 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.750 REMARK 200 RESOLUTION RANGE LOW (A) : 47.860 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 7.300 REMARK 200 R MERGE (I) : 0.05600 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) : 1.75 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.84 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.1 REMARK 200 DATA REDUNDANCY IN SHELL : 7.30 REMARK 200 R MERGE FOR SHELL (I) : 0.65200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.100 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: 1XC8 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): NULL REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): NULL REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: HEPES, SODIUM CITRATE, PH 7.0, VAPOR REMARK 280 DIFFUSION, 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 70.92450 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 45.85200 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 45.85200 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 35.46225 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 45.85200 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 45.85200 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 106.38675 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 45.85200 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 45.85200 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 35.46225 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 45.85200 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 45.85200 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 106.38675 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 70.92450 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: 4260 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15870 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -20.0 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 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 A5215 LIES ON A SPECIAL POSITION. REMARK 375 HOH A5376 LIES ON A SPECIAL POSITION. REMARK 375 HOH A5410 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 LYS A 15 CE NZ REMARK 470 ARG A 31 CZ NH1 NH2 REMARK 470 LYS A 42 CE NZ REMARK 470 ARG A 88 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 130 CE NZ REMARK 470 ARG A 150 CD NE CZ NH1 NH2 REMARK 470 LYS A 187 NZ REMARK 470 LYS A 213 CD CE NZ REMARK 470 ARG A 220 CG CD NE CZ NH1 NH2 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 OE1 GLU A 12 O HOH A 5101 2.12 REMARK 500 O HOH A 5154 O HOH A 5348 2.13 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 DA C 21 O3' DA C 21 C3' -0.056 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 FOX B 7 C3' - O3' - P ANGL. DEV. = -7.5 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 ARG A 74 -127.50 50.11 REMARK 500 ASP A 107 102.35 -163.70 REMARK 500 VAL A 166 142.29 -172.43 REMARK 500 SER A 223 53.12 -90.12 REMARK 500 VAL A 237 -39.00 -136.51 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 A5457 DISTANCE = 6.11 ANGSTROMS REMARK 525 HOH A5458 DISTANCE = 6.21 ANGSTROMS REMARK 525 HOH A5459 DISTANCE = 6.50 ANGSTROMS REMARK 525 HOH A5460 DISTANCE = 6.51 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 A5001 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 245 SG REMARK 620 2 CYS A 248 SG 112.5 REMARK 620 3 CYS A 265 SG 108.9 96.7 REMARK 620 4 CYS A 268 SG 108.0 114.3 116.0 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 5001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 5002 DBREF1 6H0S A 1 271 UNP A0A165FVI1_LACLC DBREF2 6H0S A A0A165FVI1 2 272 DBREF 6H0S B 1 14 PDB 6H0S 6H0S 1 14 DBREF 6H0S C 15 28 PDB 6H0S 6H0S 15 28 SEQADV 6H0S PRO A 226 UNP A0A165FVI GLY 227 ENGINEERED MUTATION 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 PRO 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 B 14 DC DT DC DT DT DT FOX DT DT DT DC DT DC SEQRES 2 B 14 DG SEQRES 1 C 14 DG DC DG DA DG DA DA DA DC DA DA DA DG SEQRES 2 C 14 DA HET FOX B 7 23 HET ZN A5001 1 HET GOL A5002 6 HETNAM FOX ((1R,2S,4R)-4-{[2-AMINO-5-(FORMYLAMINO)-6-OXO-3,6- HETNAM 2 FOX DIHYDROPYRIMIDIN-4-YL]AMINO}-2-HYDROXYCYCLOPENTYL) HETNAM 3 FOX METHYL 5'-PHOSPHATE HETNAM ZN ZINC ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 FOX C11 H18 N5 O7 P FORMUL 4 ZN ZN 2+ FORMUL 5 GOL C3 H8 O3 FORMUL 6 HOH *422(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 LYS A 151 1 11 HELIX 6 AA6 LYS A 155 GLU A 162 1 8 HELIX 7 AA7 GLY A 170 ALA A 181 1 12 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 GLU A 62 N GLN A 50 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 ILE A 117 N ARG A 68 SHEET 1 AA3 2 GLN A 253 VAL A 257 0 SHEET 2 AA3 2 ARG A 260 PHE A 264 -1 O PHE A 264 N GLN A 253 LINK O3' DT B 6 P FOX B 7 1555 1555 1.60 LINK O3' FOX B 7 P DT B 8 1555 1555 1.58 LINK SG CYS A 245 ZN ZN A5001 1555 1555 2.31 LINK SG CYS A 248 ZN ZN A5001 1555 1555 2.32 LINK SG CYS A 265 ZN ZN A5001 1555 1555 2.32 LINK SG CYS A 268 ZN ZN A5001 1555 1555 2.31 CISPEP 1 LEU A 225 PRO A 226 0 3.49 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 A5189 SITE 3 AC2 10 DT B 9 DT B 10 CRYST1 91.704 91.704 141.849 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 0.010905 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010905 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007050 0.00000