HEADER TRANSFERASE/DNA 22-NOV-10 3PO5 TITLE STRUCTURE OF A MUTANT OF THE LARGE FRAGMENT OF DNA POLYMERASE I FROM TITLE 2 THERMUS AUQATICUS IN COMPLEX WITH AN ABASIC SITE AND DDATP COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA POLYMERASE I; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: KLENOW FRAGMENT; COMPND 5 SYNONYM: TAQ POLYMERASE 1; COMPND 6 EC: 2.7.7.7; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: DNA (5'-D(*GP*AP*CP*CP*AP*CP*GP*GP*CP*GP*CP*(2DA))-3'); COMPND 11 CHAIN: B; COMPND 12 FRAGMENT: DNA PRIMER; COMPND 13 ENGINEERED: YES; COMPND 14 MOL_ID: 3; COMPND 15 MOLECULE: DNA (5'-D(P*(3DR)P*TP*GP*CP*GP*CP*CP*GP*TP*GP*GP*TP*C)-3'); COMPND 16 CHAIN: C; COMPND 17 FRAGMENT: DNA TEMPLATE; COMPND 18 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMUS AQUATICUS; SOURCE 3 ORGANISM_TAXID: 271; SOURCE 4 GENE: POL1, POLA, POLI; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21DE3; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET21-B; SOURCE 10 MOL_ID: 2; SOURCE 11 SYNTHETIC: YES; SOURCE 12 MOL_ID: 3; SOURCE 13 SYNTHETIC: YES KEYWDS DNA POLYMERASE, LESION BYPASS, APSITE, ABASIC SITE, TRANSFERASE-DNA KEYWDS 2 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR A.MARX,K.DIEDERICHS,S.OBEID REVDAT 4 06-SEP-23 3PO5 1 REMARK SEQADV LINK REVDAT 3 08-NOV-17 3PO5 1 REMARK REVDAT 2 13-JUL-11 3PO5 1 JRNL REVDAT 1 15-JUN-11 3PO5 0 JRNL AUTH S.OBEID,A.SCHNUR,C.GLOECKNER,N.BLATTER,W.WELTE,K.DIEDERICHS, JRNL AUTH 2 A.MARX JRNL TITL LEARNING FROM DIRECTED EVOLUTION: THERMUS AQUATICUS DNA JRNL TITL 2 POLYMERASE MUTANTS WITH TRANSLESION SYNTHESIS ACTIVITY. JRNL REF CHEMBIOCHEM V. 12 1574 2011 JRNL REFN ISSN 1439-4227 JRNL PMID 21480455 JRNL DOI 10.1002/CBIC.201000783 REMARK 2 REMARK 2 RESOLUTION. 2.39 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: DEV_572) 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) : 2.39 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.33 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.990 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 24927 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.212 REMARK 3 R VALUE (WORKING SET) : 0.210 REMARK 3 FREE R VALUE : 0.266 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.160 REMARK 3 FREE R VALUE TEST SET COUNT : 1287 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 47.3380 - 4.9739 1.00 2762 157 0.1850 0.2306 REMARK 3 2 4.9739 - 3.9485 1.00 2658 140 0.1575 0.2171 REMARK 3 3 3.9485 - 3.4496 1.00 2627 156 0.1926 0.2448 REMARK 3 4 3.4496 - 3.1342 1.00 2629 148 0.2220 0.2390 REMARK 3 5 3.1342 - 2.9096 1.00 2617 130 0.2426 0.3315 REMARK 3 6 2.9096 - 2.7381 1.00 2604 137 0.2675 0.3617 REMARK 3 7 2.7381 - 2.6010 1.00 2609 149 0.2707 0.3462 REMARK 3 8 2.6010 - 2.4878 1.00 2565 147 0.2796 0.3790 REMARK 3 9 2.4878 - 2.3900 0.97 2569 123 0.2849 0.3284 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 : 0.40 REMARK 3 B_SOL : 40.00 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.350 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) : 2.85070 REMARK 3 B22 (A**2) : 2.85070 REMARK 3 B33 (A**2) : -11.63630 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 : 0.006 4886 REMARK 3 ANGLE : 0.921 6709 REMARK 3 CHIRALITY : 0.048 735 REMARK 3 PLANARITY : 0.004 783 REMARK 3 DIHEDRAL : 18.508 1914 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 7 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN A AND RESID 295:419) REMARK 3 ORIGIN FOR THE GROUP (A): 42.3601 -43.1566 -17.6372 REMARK 3 T TENSOR REMARK 3 T11: 0.3120 T22: 0.3133 REMARK 3 T33: 0.6694 T12: -0.1426 REMARK 3 T13: 0.1623 T23: -0.1399 REMARK 3 L TENSOR REMARK 3 L11: 0.2529 L22: 0.0677 REMARK 3 L33: 0.1349 L12: 0.0855 REMARK 3 L13: -0.1151 L23: -0.0828 REMARK 3 S TENSOR REMARK 3 S11: -0.0209 S12: 0.0335 S13: -0.2138 REMARK 3 S21: -0.1127 S22: 0.0451 S23: -0.2229 REMARK 3 S31: 0.0635 S32: 0.0399 S33: 0.0018 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN A AND RESID 420:635) REMARK 3 ORIGIN FOR THE GROUP (A): 31.1094 -16.0637 -4.8274 REMARK 3 T TENSOR REMARK 3 T11: 0.3675 T22: 0.2803 REMARK 3 T33: 0.2491 T12: -0.0869 REMARK 3 T13: 0.0658 T23: -0.0104 REMARK 3 L TENSOR REMARK 3 L11: 0.2421 L22: 0.4298 REMARK 3 L33: 0.6446 L12: 0.0000 REMARK 3 L13: -0.2072 L23: -0.3121 REMARK 3 S TENSOR REMARK 3 S11: 0.0192 S12: 0.1285 S13: 0.0300 REMARK 3 S21: 0.1138 S22: 0.0375 S23: -0.0559 REMARK 3 S31: -0.2991 S32: -0.1730 S33: -0.0717 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN A AND RESID 636:678) REMARK 3 ORIGIN FOR THE GROUP (A): 9.1077 -13.6834 -3.7696 REMARK 3 T TENSOR REMARK 3 T11: 0.9335 T22: 0.9792 REMARK 3 T33: 0.5550 T12: 0.2848 REMARK 3 T13: -0.0862 T23: -0.0846 REMARK 3 L TENSOR REMARK 3 L11: 0.8581 L22: 0.4018 REMARK 3 L33: 0.2285 L12: -0.4455 REMARK 3 L13: -0.4379 L23: 0.2517 REMARK 3 S TENSOR REMARK 3 S11: 0.0745 S12: -0.0445 S13: -0.0467 REMARK 3 S21: 0.0513 S22: 0.1143 S23: -0.0065 REMARK 3 S31: -0.2032 S32: 0.0729 S33: -0.1901 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN A AND RESID 679:693) REMARK 3 ORIGIN FOR THE GROUP (A): 7.8890 -12.5508 7.5615 REMARK 3 T TENSOR REMARK 3 T11: 1.4844 T22: 1.1945 REMARK 3 T33: 0.4268 T12: 0.1777 REMARK 3 T13: 0.0859 T23: -0.0789 REMARK 3 L TENSOR REMARK 3 L11: 0.8500 L22: 0.6856 REMARK 3 L33: 0.0828 L12: 0.2492 REMARK 3 L13: -0.1133 L23: 0.1061 REMARK 3 S TENSOR REMARK 3 S11: -0.0076 S12: 0.1555 S13: -0.0685 REMARK 3 S21: -0.0544 S22: 0.0228 S23: -0.0277 REMARK 3 S31: 0.3160 S32: 0.1247 S33: -0.0162 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN A AND RESID 694:832) REMARK 3 ORIGIN FOR THE GROUP (A): 18.2030 -25.7815 -14.3715 REMARK 3 T TENSOR REMARK 3 T11: 0.0561 T22: 0.3435 REMARK 3 T33: 0.0019 T12: -0.1669 REMARK 3 T13: 0.0575 T23: 0.0307 REMARK 3 L TENSOR REMARK 3 L11: 0.0400 L22: 0.0885 REMARK 3 L33: 0.0462 L12: 0.0342 REMARK 3 L13: 0.0039 L23: 0.0307 REMARK 3 S TENSOR REMARK 3 S11: -0.0534 S12: 0.0117 S13: -0.0411 REMARK 3 S21: -0.1058 S22: 0.0681 S23: 0.0148 REMARK 3 S31: -0.0632 S32: -0.0898 S33: -0.0483 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: (CHAIN B) REMARK 3 ORIGIN FOR THE GROUP (A): 36.9828 -23.1593 4.1028 REMARK 3 T TENSOR REMARK 3 T11: 0.1838 T22: 0.3455 REMARK 3 T33: 0.3493 T12: 0.0689 REMARK 3 T13: -0.0099 T23: 0.0481 REMARK 3 L TENSOR REMARK 3 L11: 0.4441 L22: 0.5813 REMARK 3 L33: 0.0656 L12: 0.2177 REMARK 3 L13: -0.1659 L23: -0.0730 REMARK 3 S TENSOR REMARK 3 S11: 0.0501 S12: 0.3718 S13: -0.1876 REMARK 3 S21: 0.0798 S22: -0.1872 S23: -0.0894 REMARK 3 S31: 0.0121 S32: 0.2749 S33: 0.0860 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: (CHAIN C) REMARK 3 ORIGIN FOR THE GROUP (A): 37.0625 -24.2057 5.4082 REMARK 3 T TENSOR REMARK 3 T11: 0.2002 T22: 0.3365 REMARK 3 T33: 0.3268 T12: 0.0413 REMARK 3 T13: -0.0154 T23: 0.0149 REMARK 3 L TENSOR REMARK 3 L11: 0.0024 L22: 0.0502 REMARK 3 L33: 0.3071 L12: 0.0118 REMARK 3 L13: -0.0209 L23: -0.1024 REMARK 3 S TENSOR REMARK 3 S11: -0.2758 S12: 0.0143 S13: -0.1086 REMARK 3 S21: 0.0351 S22: 0.1322 S23: -0.1562 REMARK 3 S31: 0.0434 S32: 0.0256 S33: 0.1387 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 3PO5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-DEC-10. REMARK 100 THE DEPOSITION ID IS D_1000062612. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-APR-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : LN2 COOLED FIXED-EXIT, SI(111) REMARK 200 MONOCHROMATOR REMARK 200 OPTICS : DYNAMICALLY BENDABLE MIRROR, LN2 REMARK 200 COOLED FIXED-EXIT, SI(111) REMARK 200 MONOCHROMATOR REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : PSI PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24927 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 9.040 REMARK 200 R MERGE (I) : 0.14500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.8200 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.43 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 5.61 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.240 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX DEV_572 REMARK 200 STARTING MODEL: PDB ENTRY 3LWL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.95 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.28 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.05M TRIS HCL, 0.2M NH4CL, 0.01M REMARK 280 CACL2, 28% PEG 4000, PH 8.8, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 30.10600 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 60.21200 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 60.21200 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 30.10600 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: 5890 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 24680 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -14.0 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 A 95 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 130 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 131 LIES ON A SPECIAL POSITION. 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 ALA A 293 REMARK 465 LEU A 294 REMARK 465 MET A 646 REMARK 465 PHE A 647 REMARK 465 GLY A 648 REMARK 465 VAL A 649 REMARK 465 PRO A 650 REMARK 465 ARG A 651 REMARK 465 GLU A 652 REMARK 465 ALA A 653 REMARK 465 VAL A 654 REMARK 465 ASP A 655 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 659 CG CD NE CZ NH1 NH2 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 DG B 101 O4' - C1' - N9 ANGL. DEV. = 2.4 DEGREES REMARK 500 DC B 103 O4' - C1' - N1 ANGL. DEV. = 2.5 DEGREES REMARK 500 DG B 108 O4' - C1' - N9 ANGL. DEV. = 3.3 DEGREES REMARK 500 2DA B 112 O3' - P - OP2 ANGL. DEV. = 17.3 DEGREES REMARK 500 2DA B 112 O3' - P - OP1 ANGL. DEV. = -19.9 DEGREES REMARK 500 DG C 214 C1' - O4' - C4' ANGL. DEV. = -6.7 DEGREES REMARK 500 DG C 214 O4' - C1' - N9 ANGL. DEV. = 4.3 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 VAL A 433 -69.11 -126.53 REMARK 500 ASP A 496 -73.38 -86.51 REMARK 500 ILE A 503 -70.09 -55.43 REMARK 500 HIS A 526 140.90 -172.74 REMARK 500 TYR A 545 -62.77 -123.62 REMARK 500 VAL A 586 -29.94 -162.57 REMARK 500 HIS A 639 30.72 -90.30 REMARK 500 THR A 640 -47.32 -142.84 REMARK 500 SER A 644 61.01 -113.58 REMARK 500 MET A 658 45.55 -72.43 REMARK 500 ARG A 659 -30.04 -140.09 REMARK 500 ARG A 677 -34.41 -38.89 REMARK 500 VAL A 753 -70.46 -62.86 REMARK 500 HIS A 784 -59.67 69.13 REMARK 500 TYR A 811 89.89 -165.29 REMARK 500 LEU A 813 -168.31 -114.31 REMARK 500 LYS A 831 40.99 -106.54 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 PGE A 833 REMARK 610 PGE A 834 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 MG A 1 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 122 O REMARK 620 2 DDS A 835 O2B 129.3 REMARK 620 3 DDS A 835 O2A 155.0 68.3 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PGE A 833 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PGE A 834 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DDS A 835 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 1 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3LWL RELATED DB: PDB REMARK 900 RELATED ID: 3LWM RELATED DB: PDB REMARK 900 RELATED ID: 3PO4 RELATED DB: PDB DBREF 3PO5 A 293 832 UNP P19821 DPO1_THEAQ 293 832 DBREF 3PO5 B 101 112 PDB 3PO5 3PO5 101 112 DBREF 3PO5 C 204 216 PDB 3PO5 3PO5 204 216 SEQADV 3PO5 LYS A 614 UNP P19821 ILE 614 ENGINEERED MUTATION SEQADV 3PO5 LYS A 747 UNP P19821 MET 747 ENGINEERED MUTATION SEQRES 1 A 540 ALA LEU GLU GLU ALA PRO TRP PRO PRO PRO GLU GLY ALA SEQRES 2 A 540 PHE VAL GLY PHE VAL LEU SER ARG LYS GLU PRO MET TRP SEQRES 3 A 540 ALA ASP LEU LEU ALA LEU ALA ALA ALA ARG GLY GLY ARG SEQRES 4 A 540 VAL HIS ARG ALA PRO GLU PRO TYR LYS ALA LEU ARG ASP SEQRES 5 A 540 LEU LYS GLU ALA ARG GLY LEU LEU ALA LYS ASP LEU SER SEQRES 6 A 540 VAL LEU ALA LEU ARG GLU GLY LEU GLY LEU PRO PRO GLY SEQRES 7 A 540 ASP ASP PRO MET LEU LEU ALA TYR LEU LEU ASP PRO SER SEQRES 8 A 540 ASN THR THR PRO GLU GLY VAL ALA ARG ARG TYR GLY GLY SEQRES 9 A 540 GLU TRP THR GLU GLU ALA GLY GLU ARG ALA ALA LEU SER SEQRES 10 A 540 GLU ARG LEU PHE ALA ASN LEU TRP GLY ARG LEU GLU GLY SEQRES 11 A 540 GLU GLU ARG LEU LEU TRP LEU TYR ARG GLU VAL GLU ARG SEQRES 12 A 540 PRO LEU SER ALA VAL LEU ALA HIS MET GLU ALA THR GLY SEQRES 13 A 540 VAL ARG LEU ASP VAL ALA TYR LEU ARG ALA LEU SER LEU SEQRES 14 A 540 GLU VAL ALA GLU GLU ILE ALA ARG LEU GLU ALA GLU VAL SEQRES 15 A 540 PHE ARG LEU ALA GLY HIS PRO PHE ASN LEU ASN SER ARG SEQRES 16 A 540 ASP GLN LEU GLU ARG VAL LEU PHE ASP GLU LEU GLY LEU SEQRES 17 A 540 PRO ALA ILE GLY LYS THR GLU LYS THR GLY LYS ARG SER SEQRES 18 A 540 THR SER ALA ALA VAL LEU GLU ALA LEU ARG GLU ALA HIS SEQRES 19 A 540 PRO ILE VAL GLU LYS ILE LEU GLN TYR ARG GLU LEU THR SEQRES 20 A 540 LYS LEU LYS SER THR TYR ILE ASP PRO LEU PRO ASP LEU SEQRES 21 A 540 ILE HIS PRO ARG THR GLY ARG LEU HIS THR ARG PHE ASN SEQRES 22 A 540 GLN THR ALA THR ALA THR GLY ARG LEU SER SER SER ASP SEQRES 23 A 540 PRO ASN LEU GLN ASN ILE PRO VAL ARG THR PRO LEU GLY SEQRES 24 A 540 GLN ARG ILE ARG ARG ALA PHE ILE ALA GLU GLU GLY TRP SEQRES 25 A 540 LEU LEU VAL ALA LEU ASP TYR SER GLN LYS GLU LEU ARG SEQRES 26 A 540 VAL LEU ALA HIS LEU SER GLY ASP GLU ASN LEU ILE ARG SEQRES 27 A 540 VAL PHE GLN GLU GLY ARG ASP ILE HIS THR GLU THR ALA SEQRES 28 A 540 SER TRP MET PHE GLY VAL PRO ARG GLU ALA VAL ASP PRO SEQRES 29 A 540 LEU MET ARG ARG ALA ALA LYS THR ILE ASN PHE GLY VAL SEQRES 30 A 540 LEU TYR GLY MET SER ALA HIS ARG LEU SER GLN GLU LEU SEQRES 31 A 540 ALA ILE PRO TYR GLU GLU ALA GLN ALA PHE ILE GLU ARG SEQRES 32 A 540 TYR PHE GLN SER PHE PRO LYS VAL ARG ALA TRP ILE GLU SEQRES 33 A 540 LYS THR LEU GLU GLU GLY ARG ARG ARG GLY TYR VAL GLU SEQRES 34 A 540 THR LEU PHE GLY ARG ARG ARG TYR VAL PRO ASP LEU GLU SEQRES 35 A 540 ALA ARG VAL LYS SER VAL ARG GLU ALA ALA GLU ARG LYS SEQRES 36 A 540 ALA PHE ASN MET PRO VAL GLN GLY THR ALA ALA ASP LEU SEQRES 37 A 540 MET LYS LEU ALA MET VAL LYS LEU PHE PRO ARG LEU GLU SEQRES 38 A 540 GLU MET GLY ALA ARG MET LEU LEU GLN VAL HIS ASP GLU SEQRES 39 A 540 LEU VAL LEU GLU ALA PRO LYS GLU ARG ALA GLU ALA VAL SEQRES 40 A 540 ALA ARG LEU ALA LYS GLU VAL MET GLU GLY VAL TYR PRO SEQRES 41 A 540 LEU ALA VAL PRO LEU GLU VAL GLU VAL GLY ILE GLY GLU SEQRES 42 A 540 ASP TRP LEU SER ALA LYS GLU SEQRES 1 B 12 DG DA DC DC DA DC DG DG DC DG DC 2DA SEQRES 1 C 13 3DR DT DG DC DG DC DC DG DT DG DG DT DC MODRES 3PO5 2DA B 112 DA 2',3'-DIDEOXYADENOSINE-5'-MONOPHOSPHATE HET 2DA B 112 20 HET 3DR C 204 11 HET MG A 1 1 HET PGE A 833 4 HET PGE A 834 4 HET DDS A 835 29 HET GOL B 1 6 HETNAM 2DA 2',3'-DIDEOXYADENOSINE-5'-MONOPHOSPHATE HETNAM 3DR 1',2'-DIDEOXYRIBOFURANOSE-5'-PHOSPHATE HETNAM MG MAGNESIUM ION HETNAM PGE TRIETHYLENE GLYCOL HETNAM DDS 2',3'-DIDEOXYADENOSINE TRIPHOSPHATE HETNAM GOL GLYCEROL HETSYN 3DR ABASIC DIDEOXYRIBOSE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 2DA C10 H14 N5 O5 P FORMUL 3 3DR C5 H11 O6 P FORMUL 4 MG MG 2+ FORMUL 5 PGE 2(C6 H14 O4) FORMUL 7 DDS C10 H16 N5 O11 P3 FORMUL 8 GOL C3 H8 O3 FORMUL 9 HOH *131(H2 O) HELIX 1 1 GLU A 337 ARG A 343 1 7 HELIX 2 2 LEU A 352 GLU A 363 1 12 HELIX 3 3 ASP A 372 ASP A 381 1 10 HELIX 4 4 THR A 386 TYR A 394 1 9 HELIX 5 5 GLU A 401 LEU A 420 1 20 HELIX 6 6 GLU A 423 VAL A 433 1 11 HELIX 7 7 VAL A 433 GLY A 448 1 16 HELIX 8 8 ASP A 452 GLY A 479 1 28 HELIX 9 9 SER A 486 ASP A 496 1 11 HELIX 10 10 SER A 515 LEU A 522 1 8 HELIX 11 11 HIS A 526 TYR A 545 1 20 HELIX 12 12 PRO A 548 ILE A 553 5 6 HELIX 13 13 THR A 588 ARG A 596 1 9 HELIX 14 14 GLN A 613 GLY A 624 1 12 HELIX 15 15 ASP A 625 GLN A 633 1 9 HELIX 16 16 ASP A 637 THR A 642 1 6 HELIX 17 17 ARG A 659 TYR A 671 1 13 HELIX 18 18 SER A 674 LEU A 682 1 9 HELIX 19 19 PRO A 685 PHE A 700 1 16 HELIX 20 20 PHE A 700 GLY A 718 1 19 HELIX 21 21 PRO A 731 ALA A 735 5 5 HELIX 22 22 VAL A 737 MET A 775 1 39 HELIX 23 23 ARG A 795 GLY A 809 1 15 HELIX 24 24 LEU A 828 GLU A 832 5 5 SHEET 1 A 4 GLU A 296 PRO A 298 0 SHEET 2 A 4 ARG A 331 ARG A 334 1 N VAL A 332 O ALA A 297 SHEET 3 A 4 LEU A 321 ARG A 328 -1 N ALA A 326 O HIS A 333 SHEET 4 A 4 PHE A 306 LEU A 311 -1 N PHE A 306 O ALA A 327 SHEET 1 B 2 ARG A 450 LEU A 451 0 SHEET 2 B 2 PHE A 598 ILE A 599 -1 O ILE A 599 N ARG A 450 SHEET 1 C 2 ARG A 563 ASN A 565 0 SHEET 2 C 2 SER A 575 SER A 577 -1 O SER A 575 N ASN A 565 SHEET 1 D 4 ARG A 778 GLN A 782 0 SHEET 2 D 4 GLU A 786 PRO A 792 -1 O VAL A 788 N LEU A 780 SHEET 3 D 4 TRP A 604 TYR A 611 -1 N VAL A 607 O LEU A 789 SHEET 4 D 4 VAL A 819 GLY A 824 -1 O GLY A 824 N LEU A 606 SHEET 1 E 2 TYR A 719 GLU A 721 0 SHEET 2 E 2 ARG A 727 TYR A 729 -1 O ARG A 728 N VAL A 720 LINK O3' DC B 111 P 2DA B 112 1555 1555 1.61 LINK O3' 3DR C 204 P DT C 205 1555 1555 1.61 LINK MG MG A 1 O HOH A 122 1555 1555 2.14 LINK MG MG A 1 O2B DDS A 835 1555 1555 2.37 LINK MG MG A 1 O2A DDS A 835 1555 1555 2.82 CISPEP 1 TRP A 299 PRO A 300 0 5.83 CISPEP 2 ASP A 578 PRO A 579 0 -0.86 SITE 1 AC1 3 HOH A 122 ASP A 610 DDS A 835 SITE 1 AC2 3 ARG A 313 TRP A 318 LEU A 552 SITE 1 AC3 5 THR A 544 PRO A 579 ASN A 580 DC C 209 SITE 2 AC3 5 DC C 210 SITE 1 AC4 10 MG A 1 HOH A 124 HOH A 128 ARG A 587 SITE 2 AC4 10 GLN A 613 HIS A 639 LYS A 663 PHE A 667 SITE 3 AC4 10 TYR A 671 2DA B 112 SITE 1 AC5 4 DC B 106 DG B 107 DG B 108 DC C 209 CRYST1 109.301 109.301 90.318 90.00 90.00 120.00 P 31 2 1 6 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 0.009149 0.005282 0.000000 0.00000 SCALE2 0.000000 0.010564 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011072 0.00000