HEADER TRANSFERASE 24-MAR-23 8OJD TITLE HSV-1 DNA POLYMERASE BETA-HAIRPIN LOOP COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA POLYMERASE CATALYTIC SUBUNIT; COMPND 3 CHAIN: A; COMPND 4 EC: 2.7.7.7,3.1.26.4; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: DNA (47-MER); COMPND 8 CHAIN: C; COMPND 9 ENGINEERED: YES; COMPND 10 MOL_ID: 3; COMPND 11 MOLECULE: DNA (68-MER); COMPND 12 CHAIN: D; COMPND 13 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HUMAN ALPHAHERPESVIRUS 1 STRAIN KOS; SOURCE 3 ORGANISM_TAXID: 10306; SOURCE 4 GENE: UL30; SOURCE 5 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 6 EXPRESSION_SYSTEM_COMMON: FALL ARMYWORM; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7108; 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 DNA, POLYMERASE, COMPLEX, TRANSFERASE EXPDTA ELECTRON MICROSCOPY AUTHOR E.GUSTAVSSON,K.GRUNEWALD,P.ELIAS,B.M.HALLBERG REVDAT 1 03-APR-24 8OJD 0 JRNL AUTH E.GUSTAVSSON,K.GRUNEWALD,P.ELIAS,B.M.HALLBERG JRNL TITL DYNAMICS OF THE HERPES SIMPLEX VIRUS DNA POLYMERASE JRNL TITL 2 HOLOENZYME DURING DNA SYNTHESIS AND PROOF-READING REVEALED JRNL TITL 3 BY CRYO-EM JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.46 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : CRYOSPARC, EPU, CTFFIND, UCSF CHIMERAX, REMARK 3 COOT, CRYOSPARC, CRYOSPARC, CRYOSPARC REMARK 3 RECONSTRUCTION SCHEMA : NULL REMARK 3 REMARK 3 EM MAP-MODEL FITTING AND REFINEMENT REMARK 3 PDB ENTRY : 7LUF REMARK 3 REFINEMENT SPACE : NULL REMARK 3 REFINEMENT PROTOCOL : NULL REMARK 3 REFINEMENT TARGET : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE : NULL REMARK 3 REMARK 3 FITTING PROCEDURE : NULL REMARK 3 REMARK 3 EM IMAGE RECONSTRUCTION STATISTICS REMARK 3 NOMINAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 ACTUAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 EFFECTIVE RESOLUTION (ANGSTROMS) : 2.460 REMARK 3 NUMBER OF PARTICLES : 41759 REMARK 3 CTF CORRECTION METHOD : NONE REMARK 3 REMARK 3 EM RECONSTRUCTION MAGNIFICATION CALIBRATION: NULL REMARK 3 REMARK 3 OTHER DETAILS: NULL REMARK 4 REMARK 4 8OJD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 29-MAR-23. REMARK 100 THE DEPOSITION ID IS D_1292129384. REMARK 245 REMARK 245 EXPERIMENTAL DETAILS REMARK 245 RECONSTRUCTION METHOD : SINGLE PARTICLE REMARK 245 SPECIMEN TYPE : NULL REMARK 245 REMARK 245 ELECTRON MICROSCOPE SAMPLE REMARK 245 SAMPLE TYPE : PARTICLE REMARK 245 PARTICLE TYPE : POINT REMARK 245 NAME OF SAMPLE : HSV-1 DNA POLYMERASE FOCUSED ON REMARK 245 BETA-HAIRPIN LOOP REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : 0.40 REMARK 245 SAMPLE SUPPORT DETAILS : NULL REMARK 245 SAMPLE VITRIFICATION DETAILS : NULL REMARK 245 SAMPLE BUFFER : NULL REMARK 245 PH : 7.80 REMARK 245 SAMPLE DETAILS : NULL REMARK 245 REMARK 245 DATA ACQUISITION REMARK 245 DATE OF EXPERIMENT : NULL REMARK 245 NUMBER OF MICROGRAPHS-IMAGES : NULL REMARK 245 TEMPERATURE (KELVIN) : NULL REMARK 245 MICROSCOPE MODEL : FEI TITAN KRIOS REMARK 245 DETECTOR TYPE : GATAN K3 BIOQUANTUM (6K X REMARK 245 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 500.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 1500.00 REMARK 245 MINIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 MAXIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 NOMINAL CS : 2.70 REMARK 245 IMAGING MODE : BRIGHT FIELD REMARK 245 ELECTRON DOSE (ELECTRONS NM**-2) : 5800.00 REMARK 245 ILLUMINATION MODE : FLOOD BEAM REMARK 245 NOMINAL MAGNIFICATION : 165000 REMARK 245 CALIBRATED MAGNIFICATION : NULL REMARK 245 SOURCE : FIELD EMISSION GUN REMARK 245 ACCELERATION VOLTAGE (KV) : 300 REMARK 245 IMAGING DETAILS : NULL REMARK 247 REMARK 247 ELECTRON MICROSCOPY REMARK 247 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM ELECTRON REMARK 247 MICROSCOPY DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE REMARK 247 THAT CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES REMARK 247 ON THESE RECORDS ARE MEANINGLESS EXCEPT FOR THE CALCULATION REMARK 247 OF THE STRUCTURE FACTORS. 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 APPLY THE FOLLOWING TO CHAINS: A, C, D 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 MET A 1 REMARK 465 PHE A 2 REMARK 465 SER A 3 REMARK 465 GLY A 4 REMARK 465 GLY A 5 REMARK 465 GLY A 6 REMARK 465 GLY A 7 REMARK 465 PRO A 8 REMARK 465 LEU A 9 REMARK 465 SER A 10 REMARK 465 PRO A 11 REMARK 465 GLY A 12 REMARK 465 GLY A 13 REMARK 465 LYS A 14 REMARK 465 SER A 15 REMARK 465 ALA A 16 REMARK 465 ALA A 17 REMARK 465 ARG A 18 REMARK 465 ALA A 19 REMARK 465 ALA A 20 REMARK 465 SER A 21 REMARK 465 GLY A 22 REMARK 465 PHE A 23 REMARK 465 PHE A 24 REMARK 465 ALA A 25 REMARK 465 PRO A 26 REMARK 465 ALA A 27 REMARK 465 GLY A 28 REMARK 465 PRO A 29 REMARK 465 ARG A 30 REMARK 465 GLY A 31 REMARK 465 ALA A 32 REMARK 465 SER A 33 REMARK 465 ARG A 34 REMARK 465 GLY A 35 REMARK 465 PRO A 36 REMARK 465 PRO A 37 REMARK 465 PRO A 38 REMARK 465 CYS A 39 REMARK 465 LEU A 40 REMARK 465 ARG A 41 REMARK 465 GLN A 42 REMARK 465 ASN A 43 REMARK 465 PHE A 44 REMARK 465 TYR A 45 REMARK 465 ASN A 46 REMARK 465 PRO A 47 REMARK 465 TYR A 48 REMARK 465 LEU A 49 REMARK 465 ALA A 50 REMARK 465 PRO A 51 REMARK 465 VAL A 52 REMARK 465 GLY A 53 REMARK 465 THR A 54 REMARK 465 GLN A 55 REMARK 465 GLN A 56 REMARK 465 LYS A 57 REMARK 465 PRO A 58 REMARK 465 THR A 59 REMARK 465 GLY A 60 REMARK 465 ARG A 642 REMARK 465 PHE A 643 REMARK 465 ARG A 644 REMARK 465 GLY A 645 REMARK 465 ALA A 646 REMARK 465 GLY A 647 REMARK 465 GLY A 648 REMARK 465 GLU A 649 REMARK 465 ALA A 650 REMARK 465 PRO A 651 REMARK 465 LYS A 652 REMARK 465 ARG A 653 REMARK 465 PRO A 654 REMARK 465 ALA A 655 REMARK 465 ALA A 656 REMARK 465 ALA A 657 REMARK 465 ARG A 658 REMARK 465 GLU A 659 REMARK 465 ASP A 660 REMARK 465 GLU A 661 REMARK 465 GLU A 662 REMARK 465 ARG A 663 REMARK 465 PRO A 664 REMARK 465 GLU A 665 REMARK 465 GLU A 666 REMARK 465 GLU A 667 REMARK 465 GLY A 668 REMARK 465 GLU A 669 REMARK 465 ASP A 670 REMARK 465 GLU A 671 REMARK 465 ASP A 672 REMARK 465 GLU A 673 REMARK 465 ARG A 674 REMARK 465 GLU A 675 REMARK 465 GLU A 676 REMARK 465 GLY A 677 REMARK 465 GLY A 678 REMARK 465 GLY A 679 REMARK 465 GLU A 680 REMARK 465 ARG A 681 REMARK 465 GLU A 682 REMARK 465 PRO A 683 REMARK 465 GLU A 684 REMARK 465 GLY A 685 REMARK 465 ALA A 686 REMARK 465 ARG A 687 REMARK 465 GLU A 688 REMARK 465 THR A 689 REMARK 465 ALA A 690 REMARK 465 GLY A 691 REMARK 465 ARG A 692 REMARK 465 HIS A 693 REMARK 465 VAL A 694 REMARK 465 GLY A 695 REMARK 465 TYR A 696 REMARK 465 GLN A 697 REMARK 465 GLY A 698 REMARK 465 ALA A 699 REMARK 465 GLU A 1095 REMARK 465 LEU A 1096 REMARK 465 ASP A 1097 REMARK 465 ALA A 1098 REMARK 465 ALA A 1099 REMARK 465 ALA A 1100 REMARK 465 PRO A 1101 REMARK 465 GLY A 1102 REMARK 465 ASP A 1103 REMARK 465 GLU A 1104 REMARK 465 PRO A 1105 REMARK 465 ALA A 1106 REMARK 465 PRO A 1107 REMARK 465 PRO A 1108 REMARK 465 ALA A 1109 REMARK 465 ALA A 1110 REMARK 465 LEU A 1111 REMARK 465 PRO A 1112 REMARK 465 SER A 1113 REMARK 465 PRO A 1114 REMARK 465 ALA A 1115 REMARK 465 LYS A 1116 REMARK 465 ARG A 1117 REMARK 465 PRO A 1118 REMARK 465 ARG A 1119 REMARK 465 GLU A 1120 REMARK 465 THR A 1121 REMARK 465 PRO A 1122 REMARK 465 SER A 1123 REMARK 465 PRO A 1124 REMARK 465 ALA A 1125 REMARK 465 ASP A 1126 REMARK 465 PRO A 1127 REMARK 465 PRO A 1128 REMARK 465 GLY A 1129 REMARK 465 GLY A 1130 REMARK 465 ALA A 1131 REMARK 465 SER A 1132 REMARK 465 LYS A 1133 REMARK 465 PRO A 1134 REMARK 465 ARG A 1135 REMARK 465 LYS A 1136 REMARK 465 LEU A 1137 REMARK 465 LEU A 1138 REMARK 465 VAL A 1139 REMARK 465 SER A 1140 REMARK 465 GLU A 1141 REMARK 465 LEU A 1142 REMARK 465 ALA A 1143 REMARK 465 GLU A 1144 REMARK 465 ASP A 1145 REMARK 465 PRO A 1146 REMARK 465 ALA A 1147 REMARK 465 TYR A 1148 REMARK 465 ALA A 1149 REMARK 465 ILE A 1150 REMARK 465 ALA A 1151 REMARK 465 HIS A 1152 REMARK 465 GLY A 1153 REMARK 465 VAL A 1154 REMARK 465 ALA A 1155 REMARK 465 LEU A 1156 REMARK 465 ASN A 1157 REMARK 465 THR A 1158 REMARK 465 ASP A 1159 REMARK 465 TYR A 1160 REMARK 465 TYR A 1161 REMARK 465 PHE A 1162 REMARK 465 SER A 1163 REMARK 465 HIS A 1164 REMARK 465 LEU A 1165 REMARK 465 LEU A 1166 REMARK 465 GLY A 1167 REMARK 465 ALA A 1168 REMARK 465 ALA A 1169 REMARK 465 CYS A 1170 REMARK 465 VAL A 1171 REMARK 465 THR A 1172 REMARK 465 PHE A 1173 REMARK 465 LYS A 1174 REMARK 465 ALA A 1175 REMARK 465 LEU A 1176 REMARK 465 PHE A 1177 REMARK 465 GLY A 1178 REMARK 465 ASN A 1179 REMARK 465 ASN A 1180 REMARK 465 ALA A 1181 REMARK 465 LYS A 1182 REMARK 465 ILE A 1183 REMARK 465 THR A 1184 REMARK 465 GLU A 1185 REMARK 465 SER A 1186 REMARK 465 LEU A 1187 REMARK 465 LEU A 1188 REMARK 465 LYS A 1189 REMARK 465 ARG A 1190 REMARK 465 PHE A 1191 REMARK 465 ILE A 1192 REMARK 465 PRO A 1193 REMARK 465 GLU A 1194 REMARK 465 VAL A 1195 REMARK 465 TRP A 1196 REMARK 465 HIS A 1197 REMARK 465 PRO A 1198 REMARK 465 PRO A 1199 REMARK 465 ASP A 1200 REMARK 465 ASP A 1201 REMARK 465 VAL A 1202 REMARK 465 ALA A 1203 REMARK 465 ALA A 1204 REMARK 465 ARG A 1205 REMARK 465 LEU A 1206 REMARK 465 ARG A 1207 REMARK 465 THR A 1208 REMARK 465 ALA A 1209 REMARK 465 GLY A 1210 REMARK 465 PHE A 1211 REMARK 465 GLY A 1212 REMARK 465 ALA A 1213 REMARK 465 VAL A 1214 REMARK 465 GLY A 1215 REMARK 465 ALA A 1216 REMARK 465 GLY A 1217 REMARK 465 ALA A 1218 REMARK 465 THR A 1219 REMARK 465 ALA A 1220 REMARK 465 GLU A 1221 REMARK 465 GLU A 1222 REMARK 465 THR A 1223 REMARK 465 ARG A 1224 REMARK 465 ARG A 1225 REMARK 465 MET A 1226 REMARK 465 LEU A 1227 REMARK 465 HIS A 1228 REMARK 465 ARG A 1229 REMARK 465 ALA A 1230 REMARK 465 PHE A 1231 REMARK 465 ASP A 1232 REMARK 465 THR A 1233 REMARK 465 LEU A 1234 REMARK 465 ALA A 1235 REMARK 465 DG C -22 REMARK 465 DC C -21 REMARK 465 DC C -20 REMARK 465 DA C -19 REMARK 465 DC C -18 REMARK 465 DT C -17 REMARK 465 DA C -16 REMARK 465 DC C -15 REMARK 465 DG C -14 REMARK 465 DA C -13 REMARK 465 DC C -12 REMARK 465 DA C -11 REMARK 465 DC C -10 REMARK 465 DC C -9 REMARK 465 DT C -8 REMARK 465 DT C -7 REMARK 465 DG C -6 REMARK 465 DA C -5 REMARK 465 DT C -4 REMARK 465 DC C -3 REMARK 465 DG C -2 REMARK 465 DC C -1 REMARK 465 DC C 0 REMARK 465 DT C 1 REMARK 465 DA D -21 REMARK 465 DT D -20 REMARK 465 DT D -19 REMARK 465 DT D -18 REMARK 465 DG D -17 REMARK 465 DC D -16 REMARK 465 DT D -15 REMARK 465 DG D -14 REMARK 465 DA D -13 REMARK 465 DC D -12 REMARK 465 DC D -11 REMARK 465 DT D -10 REMARK 465 DT D -9 REMARK 465 DT D -8 REMARK 465 DG D -7 REMARK 465 DT D -6 REMARK 465 DT D -5 REMARK 465 DC D -4 REMARK 465 DT D -3 REMARK 465 DG D -2 REMARK 465 DG D -1 REMARK 465 DA D 23 REMARK 465 DG D 24 REMARK 465 DG D 25 REMARK 465 DC D 26 REMARK 465 DG D 27 REMARK 465 DA D 28 REMARK 465 DT D 29 REMARK 465 DC D 30 REMARK 465 DA D 31 REMARK 465 DA D 32 REMARK 465 DG D 33 REMARK 465 DG D 34 REMARK 465 DT D 35 REMARK 465 DG D 36 REMARK 465 DT D 37 REMARK 465 DC D 38 REMARK 465 DG D 39 REMARK 465 DT D 40 REMARK 465 DA D 41 REMARK 465 DG D 42 REMARK 465 DT D 43 REMARK 465 DG D 44 REMARK 465 DG D 45 REMARK 465 DC D 46 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 1036 N4 DC C 21 2.02 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 ARG A 126 NE - CZ - NH2 ANGL. DEV. = 4.2 DEGREES REMARK 500 DA C 22 C1' - O4' - C4' ANGL. DEV. = -6.4 DEGREES REMARK 500 DA C 22 O4' - C1' - N9 ANGL. DEV. = 2.4 DEGREES REMARK 500 DA C 23 C3' - O3' - P ANGL. DEV. = -8.0 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 85 19.84 59.20 REMARK 500 ARG A 91 41.12 -76.59 REMARK 500 LYS A 100 66.91 -112.67 REMARK 500 ASN A 141 76.17 -164.84 REMARK 500 ALA A 238 44.59 -80.44 REMARK 500 TYR A 260 151.02 74.00 REMARK 500 ASP A 284 -34.24 -147.69 REMARK 500 CYS A 287 65.45 37.76 REMARK 500 SER A 357 -13.48 -142.52 REMARK 500 PHE A 470 -60.29 -130.35 REMARK 500 PHE A 499 88.02 -150.47 REMARK 500 HIS A 825 16.27 58.10 REMARK 500 CYS A 830 86.77 -151.30 REMARK 500 ASP A 886 -159.65 -77.32 REMARK 500 ASP A 888 15.55 -152.08 REMARK 500 CYS A 894 68.94 -104.79 REMARK 500 PHE A 918 179.66 62.63 REMARK 500 THR A1022 59.97 -94.77 REMARK 500 SER A1038 -49.04 69.97 REMARK 500 ARG A1039 -165.13 -77.57 REMARK 500 ARG A1042 -158.37 -92.28 REMARK 500 TYR A1044 -135.24 51.26 REMARK 500 LYS A1047 -58.85 69.29 REMARK 500 ARG A1048 46.18 -87.45 REMARK 500 ALA A1050 -53.84 64.97 REMARK 500 TYR A1055 -62.78 -131.40 REMARK 500 TYR A1056 -74.67 -85.97 REMARK 500 LYS A1057 45.87 -80.23 REMARK 500 THR A1080 -1.32 -142.60 REMARK 500 GLU A1082 -55.33 -141.46 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 915 0.08 SIDE CHAIN REMARK 500 ARG A1026 0.09 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL 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 CA A1301 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 368 OD1 REMARK 620 2 TYR A 465 O 134.7 REMARK 620 3 ASP A 471 OD1 122.0 96.5 REMARK 620 4 ASP A 471 OD2 73.6 134.1 48.8 REMARK 620 N 1 2 3 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 8OJ6 RELATED DB: PDB REMARK 900 RELATED ID: EMD-16906 RELATED DB: EMDB REMARK 900 RELATED ID: EMD-16912 RELATED DB: EMDB REMARK 900 HSV-1 DNA POLYMERASE BETA-HAIRPIN LOOP DBREF 8OJD A 1 1235 UNP P04293 DPOL_HHV11 1 1235 DBREF 8OJD C -22 24 PDB 8OJD 8OJD -22 24 DBREF 8OJD D -21 46 PDB 8OJD 8OJD -21 46 SEQADV 8OJD ARG A 330 UNP P04293 ALA 330 VARIANT SEQRES 1 A 1235 MET PHE SER GLY GLY GLY GLY PRO LEU SER PRO GLY GLY SEQRES 2 A 1235 LYS SER ALA ALA ARG ALA ALA SER GLY PHE PHE ALA PRO SEQRES 3 A 1235 ALA GLY PRO ARG GLY ALA SER ARG GLY PRO PRO PRO CYS SEQRES 4 A 1235 LEU ARG GLN ASN PHE TYR ASN PRO TYR LEU ALA PRO VAL SEQRES 5 A 1235 GLY THR GLN GLN LYS PRO THR GLY PRO THR GLN ARG HIS SEQRES 6 A 1235 THR TYR TYR SER GLU CYS ASP GLU PHE ARG PHE ILE ALA SEQRES 7 A 1235 PRO ARG VAL LEU ASP GLU ASP ALA PRO PRO GLU LYS ARG SEQRES 8 A 1235 ALA GLY VAL HIS ASP GLY HIS LEU LYS ARG ALA PRO LYS SEQRES 9 A 1235 VAL TYR CYS GLY GLY ASP GLU ARG ASP VAL LEU ARG VAL SEQRES 10 A 1235 GLY SER GLY GLY PHE TRP PRO ARG ARG SER ARG LEU TRP SEQRES 11 A 1235 GLY GLY VAL ASP HIS ALA PRO ALA GLY PHE ASN PRO THR SEQRES 12 A 1235 VAL THR VAL PHE HIS VAL TYR ASP ILE LEU GLU ASN VAL SEQRES 13 A 1235 GLU HIS ALA TYR GLY MET ARG ALA ALA GLN PHE HIS ALA SEQRES 14 A 1235 ARG PHE MET ASP ALA ILE THR PRO THR GLY THR VAL ILE SEQRES 15 A 1235 THR LEU LEU GLY LEU THR PRO GLU GLY HIS ARG VAL ALA SEQRES 16 A 1235 VAL HIS VAL TYR GLY THR ARG GLN TYR PHE TYR MET ASN SEQRES 17 A 1235 LYS GLU GLU VAL ASP ARG HIS LEU GLN CYS ARG ALA PRO SEQRES 18 A 1235 ARG ASP LEU CYS GLU ARG MET ALA ALA ALA LEU ARG GLU SEQRES 19 A 1235 SER PRO GLY ALA SER PHE ARG GLY ILE SER ALA ASP HIS SEQRES 20 A 1235 PHE GLU ALA GLU VAL VAL GLU ARG THR ASP VAL TYR TYR SEQRES 21 A 1235 TYR GLU THR ARG PRO ALA LEU PHE TYR ARG VAL TYR VAL SEQRES 22 A 1235 ARG SER GLY ARG VAL LEU SER TYR LEU CYS ASP ASN PHE SEQRES 23 A 1235 CYS PRO ALA ILE LYS LYS TYR GLU GLY GLY VAL ASP ALA SEQRES 24 A 1235 THR THR ARG PHE ILE LEU ASP ASN PRO GLY PHE VAL THR SEQRES 25 A 1235 PHE GLY TRP TYR ARG LEU LYS PRO GLY ARG ASN ASN THR SEQRES 26 A 1235 LEU ALA GLN PRO ARG ALA PRO MET ALA PHE GLY THR SER SEQRES 27 A 1235 SER ASP VAL GLU PHE ASN CYS THR ALA ASP ASN LEU ALA SEQRES 28 A 1235 ILE GLU GLY GLY MET SER ASP LEU PRO ALA TYR LYS LEU SEQRES 29 A 1235 MET CYS PHE ASP ILE GLU CYS LYS ALA GLY GLY GLU ASP SEQRES 30 A 1235 GLU LEU ALA PHE PRO VAL ALA GLY HIS PRO GLU ASP LEU SEQRES 31 A 1235 VAL ILE GLN ILE SER CYS LEU LEU TYR ASP LEU SER THR SEQRES 32 A 1235 THR ALA LEU GLU HIS VAL LEU LEU PHE SER LEU GLY SER SEQRES 33 A 1235 CYS ASP LEU PRO GLU SER HIS LEU ASN GLU LEU ALA ALA SEQRES 34 A 1235 ARG GLY LEU PRO THR PRO VAL VAL LEU GLU PHE ASP SER SEQRES 35 A 1235 GLU PHE GLU MET LEU LEU ALA PHE MET THR LEU VAL LYS SEQRES 36 A 1235 GLN TYR GLY PRO GLU PHE VAL THR GLY TYR ASN ILE ILE SEQRES 37 A 1235 ASN PHE ASP TRP PRO PHE LEU LEU ALA LYS LEU THR ASP SEQRES 38 A 1235 ILE TYR LYS VAL PRO LEU ASP GLY TYR GLY ARG MET ASN SEQRES 39 A 1235 GLY ARG GLY VAL PHE ARG VAL TRP ASP ILE GLY GLN SER SEQRES 40 A 1235 HIS PHE GLN LYS ARG SER LYS ILE LYS VAL ASN GLY MET SEQRES 41 A 1235 VAL ASN ILE ASP MET TYR GLY ILE ILE THR ASP LYS ILE SEQRES 42 A 1235 LYS LEU SER SER TYR LYS LEU ASN ALA VAL ALA GLU ALA SEQRES 43 A 1235 VAL LEU LYS ASP LYS LYS LYS ASP LEU SER TYR ARG ASP SEQRES 44 A 1235 ILE PRO ALA TYR TYR ALA ALA GLY PRO ALA GLN ARG GLY SEQRES 45 A 1235 VAL ILE GLY GLU TYR CYS ILE GLN ASP SER LEU LEU VAL SEQRES 46 A 1235 GLY GLN LEU PHE PHE LYS PHE LEU PRO HIS LEU GLU LEU SEQRES 47 A 1235 SER ALA VAL ALA ARG LEU ALA GLY ILE ASN ILE THR ARG SEQRES 48 A 1235 THR ILE TYR ASP GLY GLN GLN ILE ARG VAL PHE THR CYS SEQRES 49 A 1235 LEU LEU ARG LEU ALA ASP GLN LYS GLY PHE ILE LEU PRO SEQRES 50 A 1235 ASP THR GLN GLY ARG PHE ARG GLY ALA GLY GLY GLU ALA SEQRES 51 A 1235 PRO LYS ARG PRO ALA ALA ALA ARG GLU ASP GLU GLU ARG SEQRES 52 A 1235 PRO GLU GLU GLU GLY GLU ASP GLU ASP GLU ARG GLU GLU SEQRES 53 A 1235 GLY GLY GLY GLU ARG GLU PRO GLU GLY ALA ARG GLU THR SEQRES 54 A 1235 ALA GLY ARG HIS VAL GLY TYR GLN GLY ALA ARG VAL LEU SEQRES 55 A 1235 ASP PRO THR SER GLY PHE HIS VAL ASN PRO VAL VAL VAL SEQRES 56 A 1235 PHE ASP PHE ALA SER LEU TYR PRO SER ILE ILE GLN ALA SEQRES 57 A 1235 HIS ASN LEU CYS PHE SER THR LEU SER LEU ARG ALA ASP SEQRES 58 A 1235 ALA VAL ALA HIS LEU GLU ALA GLY LYS ASP TYR LEU GLU SEQRES 59 A 1235 ILE GLU VAL GLY GLY ARG ARG LEU PHE PHE VAL LYS ALA SEQRES 60 A 1235 HIS VAL ARG GLU SER LEU LEU SER ILE LEU LEU ARG ASP SEQRES 61 A 1235 TRP LEU ALA MET ARG LYS GLN ILE ARG SER ARG ILE PRO SEQRES 62 A 1235 GLN SER SER PRO GLU GLU ALA VAL LEU LEU ASP LYS GLN SEQRES 63 A 1235 GLN ALA ALA ILE LYS VAL VAL CYS ASN SER VAL TYR GLY SEQRES 64 A 1235 PHE THR GLY VAL GLN HIS GLY LEU LEU PRO CYS LEU HIS SEQRES 65 A 1235 VAL ALA ALA THR VAL THR THR ILE GLY ARG GLU MET LEU SEQRES 66 A 1235 LEU ALA THR ARG GLU TYR VAL HIS ALA ARG TRP ALA ALA SEQRES 67 A 1235 PHE GLU GLN LEU LEU ALA ASP PHE PRO GLU ALA ALA ASP SEQRES 68 A 1235 MET ARG ALA PRO GLY PRO TYR SER MET ARG ILE ILE TYR SEQRES 69 A 1235 GLY ASP THR ASP SER ILE PHE VAL LEU CYS ARG GLY LEU SEQRES 70 A 1235 THR ALA ALA GLY LEU THR ALA VAL GLY ASP LYS MET ALA SEQRES 71 A 1235 SER HIS ILE SER ARG ALA LEU PHE LEU PRO PRO ILE LYS SEQRES 72 A 1235 LEU GLU CYS GLU LYS THR PHE THR LYS LEU LEU LEU ILE SEQRES 73 A 1235 ALA LYS LYS LYS TYR ILE GLY VAL ILE TYR GLY GLY LYS SEQRES 74 A 1235 MET LEU ILE LYS GLY VAL ASP LEU VAL ARG LYS ASN ASN SEQRES 75 A 1235 CYS ALA PHE ILE ASN ARG THR SER ARG ALA LEU VAL ASP SEQRES 76 A 1235 LEU LEU PHE TYR ASP ASP THR VAL SER GLY ALA ALA ALA SEQRES 77 A 1235 ALA LEU ALA GLU ARG PRO ALA GLU GLU TRP LEU ALA ARG SEQRES 78 A 1235 PRO LEU PRO GLU GLY LEU GLN ALA PHE GLY ALA VAL LEU SEQRES 79 A 1235 VAL ASP ALA HIS ARG ARG ILE THR ASP PRO GLU ARG ASP SEQRES 80 A 1235 ILE GLN ASP PHE VAL LEU THR ALA GLU LEU SER ARG HIS SEQRES 81 A 1235 PRO ARG ALA TYR THR ASN LYS ARG LEU ALA HIS LEU THR SEQRES 82 A 1235 VAL TYR TYR LYS LEU MET ALA ARG ARG ALA GLN VAL PRO SEQRES 83 A 1235 SER ILE LYS ASP ARG ILE PRO TYR VAL ILE VAL ALA GLN SEQRES 84 A 1235 THR ARG GLU VAL GLU GLU THR VAL ALA ARG LEU ALA ALA SEQRES 85 A 1235 LEU ARG GLU LEU ASP ALA ALA ALA PRO GLY ASP GLU PRO SEQRES 86 A 1235 ALA PRO PRO ALA ALA LEU PRO SER PRO ALA LYS ARG PRO SEQRES 87 A 1235 ARG GLU THR PRO SER PRO ALA ASP PRO PRO GLY GLY ALA SEQRES 88 A 1235 SER LYS PRO ARG LYS LEU LEU VAL SER GLU LEU ALA GLU SEQRES 89 A 1235 ASP PRO ALA TYR ALA ILE ALA HIS GLY VAL ALA LEU ASN SEQRES 90 A 1235 THR ASP TYR TYR PHE SER HIS LEU LEU GLY ALA ALA CYS SEQRES 91 A 1235 VAL THR PHE LYS ALA LEU PHE GLY ASN ASN ALA LYS ILE SEQRES 92 A 1235 THR GLU SER LEU LEU LYS ARG PHE ILE PRO GLU VAL TRP SEQRES 93 A 1235 HIS PRO PRO ASP ASP VAL ALA ALA ARG LEU ARG THR ALA SEQRES 94 A 1235 GLY PHE GLY ALA VAL GLY ALA GLY ALA THR ALA GLU GLU SEQRES 95 A 1235 THR ARG ARG MET LEU HIS ARG ALA PHE ASP THR LEU ALA SEQRES 1 C 47 DG DC DC DA DC DT DA DC DG DA DC DA DC SEQRES 2 C 47 DC DT DT DG DA DT DC DG DC DC DT DC DG SEQRES 3 C 47 DC DA DG DC DC DG DT DC DC DA DA DC DC SEQRES 4 C 47 DA DA DC DT DC DA DA AS SEQRES 1 D 68 DA DT DT DT DG DC DT DG DA DC DC DT DT SEQRES 2 D 68 DT DG DT DT DC DT DG DG DG DG DT DG DA SEQRES 3 D 68 DG DT DT DG DG DT DT DG DG DA DC DG DG SEQRES 4 D 68 DC DT DG DC DG DA DG DG DC DG DA DT DC SEQRES 5 D 68 DA DA DG DG DT DG DT DC DG DT DA DG DT SEQRES 6 D 68 DG DG DC HET AS C 24 21 HET CA A1301 1 HETNAM AS 2-DEOXY-ADENOSINE -5'-THIO-MONOPHOSPHATE HETNAM CA CALCIUM ION FORMUL 2 AS C10 H14 N5 O5 P S FORMUL 4 CA CA 2+ HELIX 1 AA1 VAL A 81 ASP A 83 5 3 HELIX 2 AA2 ALA A 159 ARG A 163 1 5 HELIX 3 AA3 HIS A 168 ALA A 174 1 7 HELIX 4 AA4 LYS A 209 GLN A 217 1 9 HELIX 5 AA5 ALA A 220 GLU A 234 1 15 HELIX 6 AA6 SER A 244 ASP A 246 5 3 HELIX 7 AA7 SER A 275 PHE A 286 1 12 HELIX 8 AA8 ASP A 298 ASN A 307 1 10 HELIX 9 AA9 ALA A 331 PHE A 335 5 5 HELIX 10 AB1 PRO A 420 ARG A 430 1 11 HELIX 11 AB2 SER A 442 GLY A 458 1 17 HELIX 12 AB3 PHE A 470 ILE A 482 1 13 HELIX 13 AB4 PRO A 486 TYR A 490 5 5 HELIX 14 AB5 MET A 525 ASP A 531 1 7 HELIX 15 AB6 LYS A 539 LEU A 548 1 10 HELIX 16 AB7 ASP A 559 ALA A 565 1 7 HELIX 17 AB8 GLY A 567 LEU A 593 1 27 HELIX 18 AB9 LEU A 593 GLY A 606 1 14 HELIX 19 AC1 ASN A 608 ASP A 615 1 8 HELIX 20 AC2 GLN A 617 LYS A 632 1 16 HELIX 21 AC3 SER A 720 HIS A 729 1 10 HELIX 22 AC4 ARG A 739 VAL A 743 5 5 HELIX 23 AC5 SER A 772 ILE A 792 1 21 HELIX 24 AC6 SER A 796 SER A 816 1 21 HELIX 25 AC7 SER A 816 VAL A 823 1 8 HELIX 26 AC8 CYS A 830 TRP A 856 1 27 HELIX 27 AC9 ALA A 858 PHE A 866 1 9 HELIX 28 AD1 GLU A 868 ARG A 873 1 6 HELIX 29 AD2 THR A 898 LEU A 917 1 20 HELIX 30 AD3 CYS A 963 ASP A 980 1 18 HELIX 31 AD4 ASP A 980 LEU A 990 1 11 HELIX 32 AD5 ALA A 991 ARG A 993 5 3 HELIX 33 AD6 PRO A 994 ALA A 995 5 2 HELIX 34 AD7 GLU A 996 ARG A 1001 1 6 HELIX 35 AD8 LEU A 1007 THR A 1022 1 16 HELIX 36 AD9 ASP A 1027 VAL A 1032 5 6 HELIX 37 AE1 HIS A 1051 TYR A 1055 5 5 HELIX 38 AE2 GLU A 1082 ARG A 1094 1 13 SHEET 1 AA1 2 PHE A 74 PRO A 79 0 SHEET 2 AA1 2 VAL A 94 LEU A 99 -1 O HIS A 95 N ALA A 78 SHEET 1 AA2 2 LYS A 104 CYS A 107 0 SHEET 2 AA2 2 ASP A 110 ASP A 113 -1 O ARG A 112 N VAL A 105 SHEET 1 AA3 2 LEU A 129 TRP A 130 0 SHEET 2 AA3 2 VAL A 133 ASP A 134 -1 O VAL A 133 N TRP A 130 SHEET 1 AA4 7 GLN A 328 PRO A 329 0 SHEET 2 AA4 7 VAL A 341 THR A 346 -1 O ASN A 344 N GLN A 328 SHEET 3 AA4 7 ARG A 193 TYR A 199 1 N HIS A 197 O PHE A 343 SHEET 4 AA4 7 THR A 178 LEU A 187 -1 N ILE A 182 O VAL A 198 SHEET 5 AA4 7 VAL A 146 HIS A 158 -1 N ASN A 155 O VAL A 181 SHEET 6 AA4 7 GLY A 314 LEU A 318 -1 O TYR A 316 N PHE A 147 SHEET 7 AA4 7 LEU A 350 ILE A 352 -1 O ALA A 351 N ARG A 317 SHEET 1 AA5 5 LYS A 292 TYR A 293 0 SHEET 2 AA5 5 GLN A 203 ASN A 208 -1 N TYR A 206 O TYR A 293 SHEET 3 AA5 5 ALA A 266 VAL A 273 -1 O VAL A 271 N PHE A 205 SHEET 4 AA5 5 PHE A 248 ASP A 257 -1 N GLU A 249 O TYR A 272 SHEET 5 AA5 5 PHE A 634 ILE A 635 1 O ILE A 635 N THR A 256 SHEET 1 AA6 6 VAL A 436 PHE A 440 0 SHEET 2 AA6 6 LEU A 406 LEU A 414 1 N LEU A 411 O LEU A 438 SHEET 3 AA6 6 LEU A 390 ASP A 400 -1 N ILE A 394 O PHE A 412 SHEET 4 AA6 6 LYS A 363 LYS A 372 -1 N CYS A 366 O LEU A 397 SHEET 5 AA6 6 PHE A 461 GLY A 464 1 O THR A 463 N MET A 365 SHEET 6 AA6 6 VAL A 521 ASP A 524 1 O ILE A 523 N VAL A 462 SHEET 1 AA7 2 PHE A 499 ASP A 503 0 SHEET 2 AA7 2 SER A 513 VAL A 517 -1 O LYS A 516 N ARG A 500 SHEET 1 AA8 5 GLY A 707 HIS A 709 0 SHEET 2 AA8 5 LEU A 924 ALA A 937 -1 O LEU A 933 N HIS A 709 SHEET 3 AA8 5 VAL A 713 PHE A 718 -1 N ASP A 717 O GLU A 925 SHEET 4 AA8 5 SER A 889 ARG A 895 -1 O ILE A 890 N PHE A 716 SHEET 5 AA8 5 SER A 879 GLY A 885 -1 N TYR A 884 O PHE A 891 SHEET 1 AA9 4 GLY A 707 HIS A 709 0 SHEET 2 AA9 4 LEU A 924 ALA A 937 -1 O LEU A 933 N HIS A 709 SHEET 3 AA9 4 LYS A 940 ILE A 945 -1 O ILE A 942 N LEU A 934 SHEET 4 AA9 4 MET A 950 LYS A 953 -1 O LEU A 951 N GLY A 943 SHEET 1 AB1 3 LEU A 736 SER A 737 0 SHEET 2 AB1 3 ARG A 760 VAL A 765 -1 O PHE A 763 N SER A 737 SHEET 3 AB1 3 TYR A 752 VAL A 757 -1 N LEU A 753 O PHE A 764 SHEET 1 AB2 2 LEU A1033 GLU A1036 0 SHEET 2 AB2 2 ARG A1071 TYR A1074 -1 O ILE A1072 N ALA A1035 LINK O3' DA C 23 P AS C 24 1555 1555 1.60 LINK OD1 ASP A 368 CA CA A1301 1555 1555 2.46 LINK O TYR A 465 CA CA A1301 1555 1555 2.44 LINK OD1 ASP A 471 CA CA A1301 1555 1555 2.47 LINK OD2 ASP A 471 CA CA A1301 1555 1555 2.76 CISPEP 1 THR A 176 PRO A 177 0 -9.28 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000