HEADER TRANSFERASE/DNA 17-SEP-20 7K5S TITLE BST DNA POLYMERASE I TIME-RESOLVED STRUCTURE, 4 HR POST DATP AND DCTP TITLE 2 ADDITION COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'-D(*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*AP*CP*GP*TP*AP*CP*GP*TP*GP*AP*TP*CP*GP*C)-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 7K5S 1 REMARK REVDAT 2 19-MAY-21 7K5S 1 JRNL REVDAT 1 03-MAR-21 7K5S 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. 1.67 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) : 1.67 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.05 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.1 REMARK 3 NUMBER OF REFLECTIONS : 98180 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.187 REMARK 3 R VALUE (WORKING SET) : 0.187 REMARK 3 FREE R VALUE : 0.210 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 2.010 REMARK 3 FREE R VALUE TEST SET COUNT : 1978 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 46.0500 - 4.0200 0.99 7325 154 0.1588 0.1600 REMARK 3 2 4.0200 - 3.1900 0.99 7068 147 0.1602 0.1889 REMARK 3 3 3.1900 - 2.7900 1.00 7009 146 0.1889 0.2108 REMARK 3 4 2.7900 - 2.5400 1.00 7004 137 0.1936 0.2037 REMARK 3 5 2.5400 - 2.3500 0.99 6947 142 0.1879 0.2303 REMARK 3 6 2.3500 - 2.2100 0.94 6545 142 0.2330 0.2718 REMARK 3 7 2.2100 - 2.1000 0.99 6897 143 0.1811 0.2081 REMARK 3 8 2.1000 - 2.0100 0.99 6889 136 0.1801 0.2039 REMARK 3 9 2.0100 - 1.9400 0.99 6914 134 0.1986 0.2185 REMARK 3 10 1.9400 - 1.8700 0.91 6281 133 0.3560 0.4568 REMARK 3 11 1.8700 - 1.8100 0.99 6852 130 0.2188 0.2626 REMARK 3 12 1.8100 - 1.7600 0.99 6838 151 0.2141 0.2237 REMARK 3 13 1.7600 - 1.7100 0.98 6832 137 0.2206 0.2337 REMARK 3 14 1.7100 - 1.6700 0.99 6801 146 0.2568 0.3053 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) : 0.171 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 23.584 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 24.69 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 38.15 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 : 0.006 5277 REMARK 3 ANGLE : 0.815 7236 REMARK 3 CHIRALITY : 0.050 813 REMARK 3 PLANARITY : 0.005 855 REMARK 3 DIHEDRAL : 9.958 3145 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 8 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'P' AND (RESID 2 THROUGH 11 ) REMARK 3 ORIGIN FOR THE GROUP (A): 26.3541 30.9982 34.4824 REMARK 3 T TENSOR REMARK 3 T11: 0.5424 T22: 0.5134 REMARK 3 T33: 0.5182 T12: 0.1595 REMARK 3 T13: -0.0299 T23: -0.1398 REMARK 3 L TENSOR REMARK 3 L11: 2.9734 L22: 3.2824 REMARK 3 L33: 1.9521 L12: -0.6372 REMARK 3 L13: -0.1334 L23: -0.0405 REMARK 3 S TENSOR REMARK 3 S11: 0.0927 S12: 0.8674 S13: -0.7088 REMARK 3 S21: 0.2312 S22: -0.3367 S23: -0.1650 REMARK 3 S31: 0.7664 S32: 0.3891 S33: 0.1601 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'T' AND (RESID 2 THROUGH 15 ) REMARK 3 ORIGIN FOR THE GROUP (A): 25.0648 28.7358 36.0372 REMARK 3 T TENSOR REMARK 3 T11: 0.6266 T22: 0.4281 REMARK 3 T33: 0.4817 T12: 0.2572 REMARK 3 T13: -0.0194 T23: -0.0311 REMARK 3 L TENSOR REMARK 3 L11: 4.6291 L22: 0.3914 REMARK 3 L33: 1.2927 L12: -0.3769 REMARK 3 L13: -0.1813 L23: 0.7020 REMARK 3 S TENSOR REMARK 3 S11: -0.3476 S12: -0.4859 S13: -0.4224 REMARK 3 S21: 0.5059 S22: 0.3395 S23: -0.3290 REMARK 3 S31: 1.3796 S32: 0.6009 S33: 0.1792 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 300 THROUGH 467 ) REMARK 3 ORIGIN FOR THE GROUP (A): 9.6874 26.1120 5.7621 REMARK 3 T TENSOR REMARK 3 T11: 0.2184 T22: 0.2024 REMARK 3 T33: 0.1851 T12: -0.0140 REMARK 3 T13: 0.0146 T23: -0.0111 REMARK 3 L TENSOR REMARK 3 L11: 1.4469 L22: 1.8308 REMARK 3 L33: 1.0139 L12: 0.6772 REMARK 3 L13: -0.3205 L23: -0.1591 REMARK 3 S TENSOR REMARK 3 S11: -0.0581 S12: 0.1498 S13: -0.1093 REMARK 3 S21: -0.2550 S22: 0.0435 S23: -0.0978 REMARK 3 S31: 0.0818 S32: 0.0085 S33: 0.0090 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 468 THROUGH 522 ) REMARK 3 ORIGIN FOR THE GROUP (A): 24.3400 43.5544 25.4713 REMARK 3 T TENSOR REMARK 3 T11: 0.2121 T22: 0.2420 REMARK 3 T33: 0.1826 T12: 0.0158 REMARK 3 T13: 0.0208 T23: -0.0355 REMARK 3 L TENSOR REMARK 3 L11: 0.2848 L22: 1.3872 REMARK 3 L33: 1.4096 L12: 0.0358 REMARK 3 L13: -0.1590 L23: -0.6267 REMARK 3 S TENSOR REMARK 3 S11: -0.0986 S12: 0.0516 S13: 0.2540 REMARK 3 S21: 0.0968 S22: -0.0538 S23: -0.1722 REMARK 3 S31: -0.1033 S32: 0.3996 S33: 0.1763 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 523 THROUGH 604 ) REMARK 3 ORIGIN FOR THE GROUP (A): 35.3884 36.8824 40.2349 REMARK 3 T TENSOR REMARK 3 T11: 0.4986 T22: 0.3972 REMARK 3 T33: 0.3041 T12: 0.0931 REMARK 3 T13: -0.0416 T23: 0.0242 REMARK 3 L TENSOR REMARK 3 L11: 0.8354 L22: 1.3842 REMARK 3 L33: 4.2193 L12: -0.6686 REMARK 3 L13: 2.2143 L23: -0.7225 REMARK 3 S TENSOR REMARK 3 S11: -0.0169 S12: -0.0882 S13: -0.0121 REMARK 3 S21: 0.5480 S22: 0.1163 S23: -0.1721 REMARK 3 S31: 0.3400 S32: 0.1853 S33: -0.0739 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 605 THROUGH 676 ) REMARK 3 ORIGIN FOR THE GROUP (A): 12.6802 46.9428 30.7346 REMARK 3 T TENSOR REMARK 3 T11: 0.1750 T22: 0.1758 REMARK 3 T33: 0.1848 T12: -0.0097 REMARK 3 T13: -0.0150 T23: 0.0068 REMARK 3 L TENSOR REMARK 3 L11: 0.8851 L22: 0.8296 REMARK 3 L33: 1.0711 L12: -0.0917 REMARK 3 L13: -0.7157 L23: -0.0843 REMARK 3 S TENSOR REMARK 3 S11: 0.0146 S12: -0.0432 S13: 0.0955 REMARK 3 S21: 0.0411 S22: -0.0145 S23: -0.0869 REMARK 3 S31: -0.0688 S32: 0.0751 S33: 0.0032 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 677 THROUGH 743 ) REMARK 3 ORIGIN FOR THE GROUP (A): 8.2815 44.2008 53.5797 REMARK 3 T TENSOR REMARK 3 T11: 0.2507 T22: 0.2234 REMARK 3 T33: 0.1997 T12: 0.0154 REMARK 3 T13: -0.0273 T23: -0.0038 REMARK 3 L TENSOR REMARK 3 L11: 2.6864 L22: 2.6355 REMARK 3 L33: 2.0119 L12: 0.3803 REMARK 3 L13: 1.0753 L23: 0.0001 REMARK 3 S TENSOR REMARK 3 S11: 0.0035 S12: -0.1391 S13: -0.1442 REMARK 3 S21: 0.3534 S22: 0.0068 S23: -0.1974 REMARK 3 S31: 0.0962 S32: 0.0322 S33: -0.0190 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 744 THROUGH 876 ) REMARK 3 ORIGIN FOR THE GROUP (A): 4.7170 43.2840 30.3611 REMARK 3 T TENSOR REMARK 3 T11: 0.1627 T22: 0.1746 REMARK 3 T33: 0.1745 T12: -0.0057 REMARK 3 T13: -0.0012 T23: -0.0078 REMARK 3 L TENSOR REMARK 3 L11: 0.7822 L22: 1.2485 REMARK 3 L33: 0.8643 L12: 0.4296 REMARK 3 L13: -0.3463 L23: -0.3013 REMARK 3 S TENSOR REMARK 3 S11: 0.0662 S12: -0.0165 S13: 0.0165 REMARK 3 S21: 0.0753 S22: -0.0423 S23: 0.0244 REMARK 3 S31: 0.0124 S32: -0.0277 S33: -0.0377 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 7K5S COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-SEP-20. REMARK 100 THE DEPOSITION ID IS D_1000251879. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-MAR-20 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 : 5.0.2 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 : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : AUTOXDS REMARK 200 DATA SCALING SOFTWARE : AUTOXDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 99196 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.670 REMARK 200 RESOLUTION RANGE LOW (A) : 46.050 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.1 REMARK 200 DATA REDUNDANCY : 6.500 REMARK 200 R MERGE (I) : 0.05490 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 18.1400 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.67 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.73 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.80710 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 (%): 57.21 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.87 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 43.31100 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 52.93500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 46.70800 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 52.93500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 43.31100 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 46.70800 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: 5770 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27750 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -53.0 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 P 1 REMARK 465 DG T 1 REMARK 465 DA T 16 REMARK 465 ALA A 297 REMARK 465 LYS A 298 REMARK 465 MET A 299 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 DC P 2 P OP1 OP2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH P 101 O HOH A 1086 2.04 REMARK 500 O2 DT T 5 O HOH T 101 2.09 REMARK 500 O HOH A 1506 O HOH A 1528 2.18 REMARK 500 OE1 GLU A 831 O HOH A 1001 2.18 REMARK 500 NE2 GLN A 797 O HOH T 101 2.19 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 402 94.31 -166.43 REMARK 500 ALA A 421 39.88 -84.07 REMARK 500 GLN A 524 143.38 -176.35 REMARK 500 THR A 550 -152.30 -78.28 REMARK 500 ILE A 588 -67.35 -105.10 REMARK 500 LEU A 610 -50.79 -127.68 REMARK 500 ILE A 628 -26.00 -152.65 REMARK 500 HIS A 768 20.38 80.42 REMARK 500 HIS A 829 -54.65 70.91 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 A1532 DISTANCE = 5.87 ANGSTROMS DBREF 7K5S P 1 11 PDB 7K5S 7K5S 1 11 DBREF 7K5S T 1 16 PDB 7K5S 7K5S 1 16 DBREF 7K5S A 297 876 UNP E1C9K5 E1C9K5_GEOSE 1 580 SEQADV 7K5S 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 *583(H2 O) HELIX 1 AA1 THR A 308 LEU A 312 5 5 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 TRP A 382 1 11 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 ILE A 588 1 20 HELIX 18 AB9 ILE A 588 VAL A 595 1 8 HELIX 19 AC1 LEU A 630 LYS A 635 1 6 HELIX 20 AC2 ILE A 636 GLN A 638 5 3 HELIX 21 AC3 GLN A 656 GLU A 667 1 12 HELIX 22 AC4 ASP A 668 ARG A 677 1 10 HELIX 23 AC5 ASP A 680 GLN A 691 1 12 HELIX 24 AC6 SER A 693 VAL A 697 5 5 HELIX 25 AC7 THR A 698 GLY A 715 1 18 HELIX 26 AC8 SER A 717 ASN A 726 1 10 HELIX 27 AC9 SER A 728 PHE A 743 1 16 HELIX 28 AD1 PHE A 743 GLY A 761 1 19 HELIX 29 AD2 PRO A 774 SER A 778 5 5 HELIX 30 AD3 ASN A 780 GLU A 818 1 39 HELIX 31 AD4 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 ARG A 343 N THR A 302 SHEET 3 AA1 6 GLY A 334 ASN A 339 -1 N VAL A 337 O PHE A 344 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 THR A 619 N ILE A 605 SHEET 1 AA4 4 ARG A 823 GLN A 827 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 PHE A 650 O LEU A 834 SHEET 4 AA4 4 VAL A 864 GLY A 869 -1 O HIS A 867 N ALA A 651 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 -1.78 CRYST1 86.622 93.416 105.870 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 0.011544 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010705 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009446 0.00000