HEADER TRANSFERASE/DNA 17-SEP-20 7K5R TITLE BST DNA POLYMERASE I TIME-RESOLVED STRUCTURE, 120 MIN POST DATP TITLE 2 ADDITION COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'-D(P*GP*CP*GP*AP*TP*CP*AP*CP*GP*TP*A)-3'); COMPND 3 CHAIN: P; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: DNA (5'-D(P*GP*TP*AP*CP*GP*TP*GP*AP*TP*CP*GP*CP*A)-3'); COMPND 7 CHAIN: T; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: DNA POLYMERASE I; COMPND 11 CHAIN: A; COMPND 12 SYNONYM: BST DNA POLYMERASE I; COMPND 13 EC: 2.7.7.7; COMPND 14 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 4 ORGANISM_TAXID: 32630; SOURCE 5 MOL_ID: 2; SOURCE 6 SYNTHETIC: YES; SOURCE 7 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 8 ORGANISM_TAXID: 32630; SOURCE 9 MOL_ID: 3; SOURCE 10 ORGANISM_SCIENTIFIC: GEOBACILLUS STEAROTHERMOPHILUS; SOURCE 11 ORGANISM_TAXID: 1422; SOURCE 12 GENE: POLA; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS DNA POLYMERASE, TRANSFERASE, TRANSFERASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR N.CHIM,R.A.MEZA,A.M.TRINH,J.C.CHAPUT REVDAT 3 18-OCT-23 7K5R 1 REMARK REVDAT 2 19-MAY-21 7K5R 1 JRNL REVDAT 1 03-MAR-21 7K5R 0 JRNL AUTH N.CHIM,R.A.MEZA,A.M.TRINH,K.YANG,J.C.CHAPUT JRNL TITL FOLLOWING REPLICATIVE DNA SYNTHESIS BY TIME-RESOLVED X-RAY JRNL TITL 2 CRYSTALLOGRAPHY. JRNL REF NAT COMMUN V. 12 2641 2021 JRNL REFN ESSN 2041-1723 JRNL PMID 33976175 JRNL DOI 10.1038/S41467-021-22937-Z REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.13_2998 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 : GEOSTD + MONOMER LIBRARY REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.72 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 38794 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.191 REMARK 3 R VALUE (WORKING SET) : 0.188 REMARK 3 FREE R VALUE : 0.238 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.150 REMARK 3 FREE R VALUE TEST SET COUNT : 1998 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 45.7200 - 5.5400 1.00 2808 153 0.1660 0.2060 REMARK 3 2 5.5400 - 4.4000 1.00 2684 151 0.1516 0.1843 REMARK 3 3 4.4000 - 3.8400 0.99 2636 141 0.1521 0.1848 REMARK 3 4 3.8400 - 3.4900 0.99 2628 144 0.1773 0.2328 REMARK 3 5 3.4900 - 3.2400 0.99 2608 143 0.1947 0.2438 REMARK 3 6 3.2400 - 3.0500 1.00 2623 145 0.2040 0.3117 REMARK 3 7 3.0500 - 2.9000 1.00 2633 140 0.2038 0.2863 REMARK 3 8 2.9000 - 2.7700 1.00 2613 142 0.2161 0.2513 REMARK 3 9 2.7700 - 2.6600 1.00 2591 137 0.2242 0.2403 REMARK 3 10 2.6600 - 2.5700 0.99 2595 141 0.2466 0.3049 REMARK 3 11 2.5700 - 2.4900 1.00 2587 140 0.2273 0.3092 REMARK 3 12 2.4900 - 2.4200 1.00 2622 139 0.2357 0.2914 REMARK 3 13 2.4200 - 2.3600 1.00 2580 157 0.2492 0.3115 REMARK 3 14 2.3600 - 2.3000 1.00 2588 125 0.2738 0.3124 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) : 0.286 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 25.923 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 37.12 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 52.53 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 : 0.008 5289 REMARK 3 ANGLE : 0.901 7253 REMARK 3 CHIRALITY : 0.051 815 REMARK 3 PLANARITY : 0.005 857 REMARK 3 DIHEDRAL : 8.407 4317 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 9 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'P' AND (RESID 1 THROUGH 10 ) REMARK 3 ORIGIN FOR THE GROUP (A): 29.1257 28.1117 32.7644 REMARK 3 T TENSOR REMARK 3 T11: 0.9621 T22: 0.8709 REMARK 3 T33: 0.5912 T12: 0.0796 REMARK 3 T13: 0.0541 T23: -0.1418 REMARK 3 L TENSOR REMARK 3 L11: 8.1896 L22: 4.9702 REMARK 3 L33: 5.3476 L12: -3.9680 REMARK 3 L13: -4.1522 L23: 5.1277 REMARK 3 S TENSOR REMARK 3 S11: 0.2966 S12: 1.4994 S13: -0.6639 REMARK 3 S21: -0.1316 S22: -1.2244 S23: 0.1965 REMARK 3 S31: 1.5194 S32: -1.3023 S33: 0.8398 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'P' AND (RESID 11 THROUGH 11 ) REMARK 3 ORIGIN FOR THE GROUP (A): 15.7936 43.3591 35.2659 REMARK 3 T TENSOR REMARK 3 T11: 1.2180 T22: 0.7871 REMARK 3 T33: 1.4324 T12: 0.3269 REMARK 3 T13: 0.4428 T23: -0.1094 REMARK 3 L TENSOR REMARK 3 L11: 6.2454 L22: 9.3136 REMARK 3 L33: 9.5412 L12: 6.6346 REMARK 3 L13: 4.4683 L23: 0.9555 REMARK 3 S TENSOR REMARK 3 S11: -1.8321 S12: -1.3029 S13: -1.6509 REMARK 3 S21: -1.0538 S22: -0.5729 S23: 1.3724 REMARK 3 S31: 1.1622 S32: -0.7380 S33: 2.1496 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'T' AND (RESID 5 THROUGH 16 ) REMARK 3 ORIGIN FOR THE GROUP (A): 29.3475 27.6531 31.6290 REMARK 3 T TENSOR REMARK 3 T11: 1.2445 T22: 0.6532 REMARK 3 T33: 0.6870 T12: 0.2273 REMARK 3 T13: -0.0079 T23: -0.1039 REMARK 3 L TENSOR REMARK 3 L11: 8.0501 L22: 2.3404 REMARK 3 L33: 1.0941 L12: -0.5410 REMARK 3 L13: 2.0776 L23: -0.6488 REMARK 3 S TENSOR REMARK 3 S11: 0.1012 S12: -0.0226 S13: -1.6835 REMARK 3 S21: 0.9073 S22: 0.0037 S23: 0.4736 REMARK 3 S31: 1.9811 S32: 0.0138 S33: 0.0231 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 300 THROUGH 467 ) REMARK 3 ORIGIN FOR THE GROUP (A): 9.7819 26.2675 5.6630 REMARK 3 T TENSOR REMARK 3 T11: 0.2840 T22: 0.2191 REMARK 3 T33: 0.2184 T12: -0.0124 REMARK 3 T13: 0.0009 T23: -0.0074 REMARK 3 L TENSOR REMARK 3 L11: 2.5013 L22: 3.2087 REMARK 3 L33: 2.1696 L12: 0.6719 REMARK 3 L13: -0.3837 L23: 0.0162 REMARK 3 S TENSOR REMARK 3 S11: -0.0860 S12: 0.2863 S13: -0.1285 REMARK 3 S21: -0.3534 S22: 0.1087 S23: -0.0151 REMARK 3 S31: 0.1221 S32: 0.0239 S33: -0.0078 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 468 THROUGH 522 ) REMARK 3 ORIGIN FOR THE GROUP (A): 24.4684 43.7312 25.2338 REMARK 3 T TENSOR REMARK 3 T11: 0.4515 T22: 0.1877 REMARK 3 T33: 0.2405 T12: 0.0211 REMARK 3 T13: 0.0375 T23: -0.0700 REMARK 3 L TENSOR REMARK 3 L11: 0.0713 L22: 1.4701 REMARK 3 L33: 2.4095 L12: -0.1246 REMARK 3 L13: -0.2195 L23: -1.0915 REMARK 3 S TENSOR REMARK 3 S11: -0.1045 S12: 0.3025 S13: 0.4066 REMARK 3 S21: 0.2138 S22: -0.1045 S23: -0.1546 REMARK 3 S31: -0.2686 S32: 0.5737 S33: 0.2248 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 523 THROUGH 604 ) REMARK 3 ORIGIN FOR THE GROUP (A): 35.7333 36.8930 39.8382 REMARK 3 T TENSOR REMARK 3 T11: 0.4977 T22: 0.3166 REMARK 3 T33: 0.3938 T12: 0.0520 REMARK 3 T13: -0.0222 T23: -0.0017 REMARK 3 L TENSOR REMARK 3 L11: 1.2980 L22: 1.7580 REMARK 3 L33: 8.6115 L12: -0.4436 REMARK 3 L13: 3.2199 L23: -1.1640 REMARK 3 S TENSOR REMARK 3 S11: 0.1483 S12: -0.0063 S13: -0.0449 REMARK 3 S21: 0.5059 S22: 0.0177 S23: -0.1927 REMARK 3 S31: 0.5430 S32: 0.2571 S33: -0.1282 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 605 THROUGH 676 ) REMARK 3 ORIGIN FOR THE GROUP (A): 12.6179 47.2315 30.5552 REMARK 3 T TENSOR REMARK 3 T11: 0.3027 T22: 0.2166 REMARK 3 T33: 0.1843 T12: -0.0021 REMARK 3 T13: -0.0520 T23: 0.0129 REMARK 3 L TENSOR REMARK 3 L11: 3.0761 L22: 2.0292 REMARK 3 L33: 2.3483 L12: -0.1502 REMARK 3 L13: -2.1860 L23: -0.1086 REMARK 3 S TENSOR REMARK 3 S11: 0.0057 S12: -0.1943 S13: 0.1295 REMARK 3 S21: 0.0224 S22: 0.0155 S23: -0.1189 REMARK 3 S31: 0.0379 S32: 0.1936 S33: -0.0105 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 677 THROUGH 743 ) REMARK 3 ORIGIN FOR THE GROUP (A): 8.8264 44.5903 52.7197 REMARK 3 T TENSOR REMARK 3 T11: 0.4650 T22: 0.2863 REMARK 3 T33: 0.2958 T12: 0.0345 REMARK 3 T13: -0.1098 T23: -0.0192 REMARK 3 L TENSOR REMARK 3 L11: 7.7371 L22: 5.9129 REMARK 3 L33: 4.7311 L12: -0.8295 REMARK 3 L13: 2.7908 L23: -2.6826 REMARK 3 S TENSOR REMARK 3 S11: 0.4207 S12: -0.3116 S13: -0.6216 REMARK 3 S21: 0.4083 S22: -0.1232 S23: -0.0512 REMARK 3 S31: 0.4391 S32: 0.2176 S33: -0.2245 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 744 THROUGH 876 ) REMARK 3 ORIGIN FOR THE GROUP (A): 4.6411 43.6624 30.1405 REMARK 3 T TENSOR REMARK 3 T11: 0.2818 T22: 0.1883 REMARK 3 T33: 0.1851 T12: -0.0064 REMARK 3 T13: -0.0031 T23: -0.0292 REMARK 3 L TENSOR REMARK 3 L11: 1.5197 L22: 3.0768 REMARK 3 L33: 2.1311 L12: 1.0525 REMARK 3 L13: -0.9734 L23: -1.7611 REMARK 3 S TENSOR REMARK 3 S11: 0.1283 S12: -0.0698 S13: 0.0222 REMARK 3 S21: 0.0903 S22: -0.0998 S23: -0.0318 REMARK 3 S31: -0.0716 S32: 0.0012 S33: -0.0175 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 7K5R COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-SEP-20. REMARK 100 THE DEPOSITION ID IS D_1000251878. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-APR-19 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 : ALS REMARK 200 BEAMLINE : 8.2.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 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 : AUTOXDS REMARK 200 DATA SCALING SOFTWARE : AUTOXDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 38829 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 45.720 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 6.600 REMARK 200 R MERGE (I) : 0.14150 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.7300 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) : 2.38 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.99300 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: PHASER REMARK 200 STARTING MODEL: 6DSY REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.30 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.88 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 50% AMMONIUM SULFATE, 0.1M MES, 2% REMARK 280 MPD, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 43.90050 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 52.46200 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 46.59400 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 52.46200 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 43.90050 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 46.59400 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5350 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28050 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -61.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: P, T, A 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 DG T 1 REMARK 465 DA T 2 REMARK 465 DC T 3 REMARK 465 ALA A 297 REMARK 465 LYS A 298 REMARK 465 MET A 299 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 OP2 DT P 5 O HOH P 101 2.09 REMARK 500 OE2 GLU A 321 OH TYR A 429 2.14 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 P 8 O4' - C1' - N1 ANGL. DEV. = 2.2 DEGREES REMARK 500 DT P 10 C3' - O3' - P ANGL. DEV. = 9.3 DEGREES REMARK 500 DC T 7 O4' - C1' - N1 ANGL. DEV. = 2.0 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 ASP A 372 62.73 60.61 REMARK 500 ASP A 402 90.10 -162.35 REMARK 500 ALA A 421 35.44 -83.24 REMARK 500 ALA A 436 147.48 -173.84 REMARK 500 LEU A 477 -71.48 -124.92 REMARK 500 GLN A 524 149.47 177.26 REMARK 500 ASP A 559 -72.37 -43.17 REMARK 500 ILE A 628 -24.85 -146.40 REMARK 500 HIS A 829 -58.77 55.15 REMARK 500 LYS A 838 -49.59 -29.97 REMARK 500 REMARK 500 REMARK: NULL DBREF 7K5R P 1 11 PDB 7K5R 7K5R 1 11 DBREF 7K5R T 1 16 PDB 7K5R 7K5R 1 16 DBREF 7K5R A 297 876 UNP E1C9K5 E1C9K5_GEOSE 1 580 SEQADV 7K5R THR A 550 UNP E1C9K5 SER 254 VARIANT SEQRES 1 P 11 DG DC DG DA DT DC DA DC DG DT DA SEQRES 1 T 16 DG DA DC DG DT DA DC DG DT DG DA DT DC SEQRES 2 T 16 DG DC DA SEQRES 1 A 580 ALA LYS MET ALA PHE THR LEU ALA ASP ARG VAL THR GLU SEQRES 2 A 580 GLU MET LEU ALA ASP LYS ALA ALA LEU VAL VAL GLU VAL SEQRES 3 A 580 VAL GLU GLU ASN TYR HIS ASP ALA PRO ILE VAL GLY ILE SEQRES 4 A 580 ALA VAL VAL ASN GLU HIS GLY ARG PHE PHE LEU ARG PRO SEQRES 5 A 580 GLU THR ALA LEU ALA ASP PRO GLN PHE VAL ALA TRP LEU SEQRES 6 A 580 GLY ASP GLU THR LYS LYS LYS SER MET PHE ASP SER LYS SEQRES 7 A 580 ARG ALA ALA VAL ALA LEU LYS TRP LYS GLY ILE GLU LEU SEQRES 8 A 580 CYS GLY VAL SER PHE ASP LEU LEU LEU ALA ALA TYR LEU SEQRES 9 A 580 LEU ASP PRO ALA GLN GLY VAL ASP ASP VAL ALA ALA ALA SEQRES 10 A 580 ALA LYS MET LYS GLN TYR GLU ALA VAL ARG PRO ASP GLU SEQRES 11 A 580 ALA VAL TYR GLY LYS GLY ALA LYS ARG ALA VAL PRO ASP SEQRES 12 A 580 GLU PRO VAL LEU ALA GLU HIS LEU VAL ARG LYS ALA ALA SEQRES 13 A 580 ALA ILE TRP ALA LEU GLU ARG PRO PHE LEU ASP GLU LEU SEQRES 14 A 580 ARG ARG ASN GLU GLN ASP ARG LEU LEU VAL GLU LEU GLU SEQRES 15 A 580 GLN PRO LEU SER SER ILE LEU ALA GLU MET GLU PHE ALA SEQRES 16 A 580 GLY VAL LYS VAL ASP THR LYS ARG LEU GLU GLN MET GLY SEQRES 17 A 580 GLU GLU LEU ALA GLU GLN LEU ARG THR VAL GLU GLN ARG SEQRES 18 A 580 ILE TYR GLU LEU ALA GLY GLN GLU PHE ASN ILE ASN SER SEQRES 19 A 580 PRO LYS GLN LEU GLY VAL ILE LEU PHE GLU LYS LEU GLN SEQRES 20 A 580 LEU PRO VAL LEU LYS LYS THR LYS THR GLY TYR SER THR SEQRES 21 A 580 SER ALA ASP VAL LEU GLU LYS LEU ALA PRO TYR HIS GLU SEQRES 22 A 580 ILE VAL GLU ASN ILE LEU HIS TYR ARG GLN LEU GLY LYS SEQRES 23 A 580 LEU GLN SER THR TYR ILE GLU GLY LEU LEU LYS VAL VAL SEQRES 24 A 580 ARG PRO ASP THR LYS LYS VAL HIS THR ILE PHE ASN GLN SEQRES 25 A 580 ALA LEU THR GLN THR GLY ARG LEU SER SER THR GLU PRO SEQRES 26 A 580 ASN LEU GLN ASN ILE PRO ILE ARG LEU GLU GLU GLY ARG SEQRES 27 A 580 LYS ILE ARG GLN ALA PHE VAL PRO SER GLU SER ASP TRP SEQRES 28 A 580 LEU ILE PHE ALA ALA ASP TYR SER GLN ILE GLU LEU ARG SEQRES 29 A 580 VAL LEU ALA HIS ILE ALA GLU ASP ASP ASN LEU MET GLU SEQRES 30 A 580 ALA PHE ARG ARG ASP LEU ASP ILE HIS THR LYS THR ALA SEQRES 31 A 580 MET ASP ILE PHE GLN VAL SER GLU ASP GLU VAL THR PRO SEQRES 32 A 580 ASN MET ARG ARG GLN ALA LYS ALA VAL ASN PHE GLY ILE SEQRES 33 A 580 VAL TYR GLY ILE SER ASP TYR GLY LEU ALA GLN ASN LEU SEQRES 34 A 580 ASN ILE SER ARG LYS GLU ALA ALA GLU PHE ILE GLU ARG SEQRES 35 A 580 TYR PHE GLU SER PHE PRO GLY VAL LYS ARG TYR MET GLU SEQRES 36 A 580 ASN ILE VAL GLN GLU ALA LYS GLN LYS GLY TYR VAL THR SEQRES 37 A 580 THR LEU LEU HIS ARG ARG ARG TYR LEU PRO ASP ILE THR SEQRES 38 A 580 SER ARG ASN PHE ASN VAL ARG SER PHE ALA GLU ARG MET SEQRES 39 A 580 ALA MET ASN THR PRO ILE GLN GLY SER ALA ALA ASP ILE SEQRES 40 A 580 ILE LYS LYS ALA MET ILE ASP LEU ASN ALA ARG LEU LYS SEQRES 41 A 580 GLU GLU ARG LEU GLN ALA ARG LEU LEU LEU GLN VAL HIS SEQRES 42 A 580 ASP GLU LEU ILE LEU GLU ALA PRO LYS GLU GLU MET GLU SEQRES 43 A 580 ARG LEU CYS ARG LEU VAL PRO GLU VAL MET GLU GLN ALA SEQRES 44 A 580 VAL THR LEU ARG VAL PRO LEU LYS VAL ASP TYR HIS TYR SEQRES 45 A 580 GLY SER THR TRP TYR ASP ALA LYS HET SO4 A 901 5 HET SO4 A 902 5 HET SO4 A 903 5 HETNAM SO4 SULFATE ION FORMUL 4 SO4 3(O4 S 2-) FORMUL 7 HOH *167(H2 O) HELIX 1 AA1 THR A 308 ALA A 313 5 6 HELIX 2 AA2 ARG A 347 LEU A 352 1 6 HELIX 3 AA3 ASP A 354 GLY A 362 1 9 HELIX 4 AA4 ASP A 372 LYS A 383 1 12 HELIX 5 AA5 LEU A 394 ASP A 402 1 9 HELIX 6 AA6 PRO A 403 GLY A 406 5 4 HELIX 7 AA7 ASP A 409 MET A 416 1 8 HELIX 8 AA8 PRO A 424 GLY A 430 1 7 HELIX 9 AA9 LYS A 431 ARG A 435 5 5 HELIX 10 AB1 ASP A 439 ASN A 468 1 30 HELIX 11 AB2 GLN A 470 LEU A 477 1 8 HELIX 12 AB3 LEU A 477 GLY A 492 1 16 HELIX 13 AB4 ASP A 496 GLY A 523 1 28 HELIX 14 AB5 SER A 530 GLU A 540 1 11 HELIX 15 AB6 SER A 557 ALA A 565 1 9 HELIX 16 AB7 PRO A 566 HIS A 568 5 3 HELIX 17 AB8 GLU A 569 TYR A 587 1 19 HELIX 18 AB9 TYR A 587 VAL A 595 1 9 HELIX 19 AC1 ASN A 622 ILE A 626 5 5 HELIX 20 AC2 LEU A 630 LYS A 635 1 6 HELIX 21 AC3 ILE A 636 GLN A 638 5 3 HELIX 22 AC4 GLN A 656 GLU A 667 1 12 HELIX 23 AC5 ASP A 668 ARG A 677 1 10 HELIX 24 AC6 ASP A 680 GLN A 691 1 12 HELIX 25 AC7 SER A 693 VAL A 697 5 5 HELIX 26 AC8 THR A 698 TYR A 714 1 17 HELIX 27 AC9 SER A 717 LEU A 725 1 9 HELIX 28 AD1 SER A 728 PHE A 743 1 16 HELIX 29 AD2 PHE A 743 GLY A 761 1 19 HELIX 30 AD3 PRO A 774 SER A 778 5 5 HELIX 31 AD4 ASN A 780 ARG A 819 1 40 HELIX 32 AD5 GLU A 840 GLN A 854 1 15 SHEET 1 AA1 6 THR A 302 ALA A 304 0 SHEET 2 AA1 6 GLY A 342 LEU A 346 1 O PHE A 345 N THR A 302 SHEET 3 AA1 6 GLY A 334 ASN A 339 -1 N ILE A 335 O LEU A 346 SHEET 4 AA1 6 LYS A 315 GLU A 321 -1 N ALA A 317 O VAL A 338 SHEET 5 AA1 6 LYS A 367 MET A 370 1 O SER A 369 N LEU A 318 SHEET 6 AA1 6 VAL A 390 ASP A 393 1 O PHE A 392 N MET A 370 SHEET 1 AA2 3 LYS A 601 VAL A 602 0 SHEET 2 AA2 3 VAL A 493 VAL A 495 -1 N VAL A 493 O VAL A 602 SHEET 3 AA2 3 PHE A 640 VAL A 641 -1 O VAL A 641 N LYS A 494 SHEET 1 AA3 2 ILE A 605 ASN A 607 0 SHEET 2 AA3 2 SER A 617 THR A 619 -1 O SER A 617 N ASN A 607 SHEET 1 AA4 4 ARG A 823 VAL A 828 0 SHEET 2 AA4 4 GLU A 831 PRO A 837 -1 O ILE A 833 N LEU A 825 SHEET 3 AA4 4 TRP A 647 TYR A 654 -1 N ALA A 652 O LEU A 832 SHEET 4 AA4 4 VAL A 864 GLY A 869 -1 O ASP A 865 N ASP A 653 SHEET 1 AA5 2 TYR A 762 THR A 764 0 SHEET 2 AA5 2 ARG A 770 TYR A 772 -1 O ARG A 771 N VAL A 763 CISPEP 1 GLU A 620 PRO A 621 0 -3.68 CRYST1 87.801 93.188 104.924 90.00 90.00 90.00 P 21 21 21 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 0.011389 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010731 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009531 0.00000