HEADER TRANSCRIPTION 20-DEC-24 9MN9 TITLE STRUCTURE OF THE HUMAN MITOCHONDRIAL PROMOTER-INITIATED TRANSCRIPTION TITLE 2 ELONGATION COMPLEX, P-EC13 CAVEAT 9MN9 RESIDUES DA N 35 AND DG N 39 THAT ARE NEXT TO EACH OTHER IN CAVEAT 2 9MN9 THE SAMPLE SEQUENCE ARE NOT PROPERLY LINKED: DISTANCE CAVEAT 3 9MN9 BETWEEN O3' AND P IS 9.19. COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA-DIRECTED RNA POLYMERASE, MITOCHONDRIAL; COMPND 3 CHAIN: E; COMPND 4 SYNONYM: MTRPOL; COMPND 5 EC: 2.7.7.6; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: NON-TEMPLATE STRAND DNA; COMPND 9 CHAIN: N; COMPND 10 ENGINEERED: YES; COMPND 11 OTHER_DETAILS: CHAIN BREAK AT GA, MISSING DENSITY FOR AAA AT COMPND 12 POSITIONS 46,47, AND 48. THIS IS NOT A MISMATCH! TO SUBMIT WE CHANGED COMPND 13 REFERENCE SEQUENCE FROM A TO G TO AVOID THIS ERROR, BUT PLEASE COMPND 14 CORRECT IN FINAL PDB VALIDATION.; COMPND 15 MOL_ID: 3; COMPND 16 MOLECULE: RNA; COMPND 17 CHAIN: R; COMPND 18 ENGINEERED: YES; COMPND 19 MOL_ID: 4; COMPND 20 MOLECULE: TEMPLATE STRAND DNA; COMPND 21 CHAIN: T; COMPND 22 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: POLRMT; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; 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; SOURCE 16 MOL_ID: 4; SOURCE 17 SYNTHETIC: YES; SOURCE 18 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 19 ORGANISM_TAXID: 32630 KEYWDS MITOCHONDRIAL RNA POLYMERASE, TRANSCRIPTION INITIATION COMPLEX, KEYWDS 2 TRANSCRIPTION, POLRMT, TRANSCRIPTION-DNA-RNA COMPLEX EXPDTA ELECTRON MICROSCOPY AUTHOR K.H.HERBINE,A.R.NAYAK,D.TEMIAKOV REVDAT 2 03-SEP-25 9MN9 1 JRNL REVDAT 1 06-AUG-25 9MN9 0 JRNL AUTH K.HERBINE,A.R.NAYAK,A.ZAMUDIO-OCHOA,D.TEMIAKOV JRNL TITL STRUCTURAL BASIS FOR PROMOTER RECOGNITION AND TRANSCRIPTION JRNL TITL 2 FACTOR BINDING AND RELEASE IN HUMAN MITOCHONDRIA. JRNL REF MOL.CELL V. 85 3123 2025 JRNL REFN ISSN 1097-2765 JRNL PMID 40712587 JRNL DOI 10.1016/J.MOLCEL.2025.06.016 REMARK 2 REMARK 2 RESOLUTION. 2.74 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : CRYOSPARC, LEGINON, CRYOSPARC, COOT, REMARK 3 PHENIX, CRYOSPARC, CRYOSPARC, CRYOSPARC, REMARK 3 CRYOSPARC REMARK 3 RECONSTRUCTION SCHEMA : NULL REMARK 3 REMARK 3 EM MAP-MODEL FITTING AND REFINEMENT REMARK 3 PDB ENTRY : 6ERP REMARK 3 REFINEMENT SPACE : REAL REMARK 3 REFINEMENT PROTOCOL : FLEXIBLE FIT REMARK 3 REFINEMENT TARGET : CROSS-CORRELATION COEFFICIENT REMARK 3 OVERALL ANISOTROPIC B VALUE : NULL REMARK 3 REMARK 3 FITTING PROCEDURE : INITIAL DOCKING OF THE STARTING MODEL WAS DONE REMARK 3 IN CHIMERA AND FLEXIBLE/REFINED FITTING DONE WITH COOT, AND REMARK 3 PHENIX REAL-SPACE REFINEMENT. 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) : 2.740 REMARK 3 NUMBER OF PARTICLES : 43172 REMARK 3 CTF CORRECTION METHOD : PHASE FLIPPING AND AMPLITUDE REMARK 3 CORRECTION REMARK 3 REMARK 3 EM RECONSTRUCTION MAGNIFICATION CALIBRATION: NULL REMARK 3 REMARK 3 OTHER DETAILS: NULL REMARK 4 REMARK 4 9MN9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 23-DEC-24. REMARK 100 THE DEPOSITION ID IS D_1000290994. 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 : STRUCTURE OF THE HUMAN REMARK 245 MITOCHONDRIAL PROMOTER- REMARK 245 INITIATED TRANSCRIPTION REMARK 245 ELONGATION COMPLEX, P-EC13 REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : 0.75 REMARK 245 SAMPLE SUPPORT DETAILS : 15 MA REMARK 245 SAMPLE VITRIFICATION DETAILS : NULL REMARK 245 SAMPLE BUFFER : NULL REMARK 245 PH : 7.90 REMARK 245 SAMPLE DETAILS : HUMAN MITOCHONDRIAL RNA REMARK 245 POLYMERASE (D119), TFAM (D42), AND TFB2M (D20) ASSEMBLED ON REMARK 245 PROMOTER DNA CONTAINING A PREMELTED BUBBLE, A 3-MER PRIMER RNA, REMARK 245 ATP, GTP, AND 3'-DEOXYCTP. REMARK 245 REMARK 245 DATA ACQUISITION REMARK 245 DATE OF EXPERIMENT : NULL REMARK 245 NUMBER OF MICROGRAPHS-IMAGES : 12245 REMARK 245 TEMPERATURE (KELVIN) : NULL REMARK 245 MICROSCOPE MODEL : TFS KRIOS REMARK 245 DETECTOR TYPE : FEI FALCON IV (4K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 300.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 2200.00 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) : 4450.00 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 : PRELIMINARY GRID SCREENING REMARK 245 PERFORMED MANUALLY USING TFS GLACIOS. 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: E, N, R, T, M 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 E 1 REMARK 465 SER E 2 REMARK 465 ALA E 3 REMARK 465 LEU E 4 REMARK 465 CYS E 5 REMARK 465 TRP E 6 REMARK 465 GLY E 7 REMARK 465 ARG E 8 REMARK 465 GLY E 9 REMARK 465 ALA E 10 REMARK 465 ALA E 11 REMARK 465 GLY E 12 REMARK 465 LEU E 13 REMARK 465 LYS E 14 REMARK 465 ARG E 15 REMARK 465 ALA E 16 REMARK 465 LEU E 17 REMARK 465 ARG E 18 REMARK 465 PRO E 19 REMARK 465 CYS E 20 REMARK 465 GLY E 21 REMARK 465 ARG E 22 REMARK 465 PRO E 23 REMARK 465 GLY E 24 REMARK 465 LEU E 25 REMARK 465 PRO E 26 REMARK 465 GLY E 27 REMARK 465 LYS E 28 REMARK 465 GLU E 29 REMARK 465 GLY E 30 REMARK 465 THR E 31 REMARK 465 ALA E 32 REMARK 465 GLY E 33 REMARK 465 GLY E 34 REMARK 465 VAL E 35 REMARK 465 CYS E 36 REMARK 465 GLY E 37 REMARK 465 PRO E 38 REMARK 465 ARG E 39 REMARK 465 ARG E 40 REMARK 465 SER E 41 REMARK 465 SER E 42 REMARK 465 SER E 43 REMARK 465 ALA E 44 REMARK 465 SER E 45 REMARK 465 PRO E 46 REMARK 465 GLN E 47 REMARK 465 GLU E 48 REMARK 465 GLN E 49 REMARK 465 ASP E 50 REMARK 465 GLN E 51 REMARK 465 ASP E 52 REMARK 465 ARG E 53 REMARK 465 ARG E 54 REMARK 465 LYS E 55 REMARK 465 ASP E 56 REMARK 465 TRP E 57 REMARK 465 GLY E 58 REMARK 465 HIS E 59 REMARK 465 VAL E 60 REMARK 465 GLU E 61 REMARK 465 LEU E 62 REMARK 465 LEU E 63 REMARK 465 GLU E 64 REMARK 465 VAL E 65 REMARK 465 LEU E 66 REMARK 465 GLN E 67 REMARK 465 ALA E 68 REMARK 465 ARG E 69 REMARK 465 VAL E 70 REMARK 465 ARG E 71 REMARK 465 GLN E 72 REMARK 465 LEU E 73 REMARK 465 GLN E 74 REMARK 465 ALA E 75 REMARK 465 GLU E 76 REMARK 465 SER E 77 REMARK 465 VAL E 78 REMARK 465 SER E 79 REMARK 465 GLU E 80 REMARK 465 VAL E 81 REMARK 465 VAL E 82 REMARK 465 VAL E 83 REMARK 465 ASN E 84 REMARK 465 ARG E 85 REMARK 465 VAL E 86 REMARK 465 ASP E 87 REMARK 465 VAL E 88 REMARK 465 ALA E 89 REMARK 465 ARG E 90 REMARK 465 LEU E 91 REMARK 465 PRO E 92 REMARK 465 GLU E 93 REMARK 465 CYS E 94 REMARK 465 GLY E 95 REMARK 465 SER E 96 REMARK 465 GLY E 97 REMARK 465 ASP E 98 REMARK 465 GLY E 99 REMARK 465 SER E 100 REMARK 465 LEU E 101 REMARK 465 GLN E 102 REMARK 465 PRO E 103 REMARK 465 PRO E 104 REMARK 465 ARG E 105 REMARK 465 LYS E 106 REMARK 465 VAL E 107 REMARK 465 GLN E 108 REMARK 465 MET E 109 REMARK 465 GLY E 110 REMARK 465 ALA E 111 REMARK 465 LYS E 112 REMARK 465 ASP E 113 REMARK 465 ALA E 114 REMARK 465 THR E 115 REMARK 465 PRO E 116 REMARK 465 VAL E 117 REMARK 465 PRO E 118 REMARK 465 CYS E 119 REMARK 465 GLY E 120 REMARK 465 ARG E 121 REMARK 465 TRP E 122 REMARK 465 ALA E 123 REMARK 465 LYS E 124 REMARK 465 ILE E 125 REMARK 465 LEU E 126 REMARK 465 GLU E 127 REMARK 465 LYS E 128 REMARK 465 ASP E 129 REMARK 465 LYS E 130 REMARK 465 ARG E 131 REMARK 465 THR E 132 REMARK 465 GLN E 133 REMARK 465 GLN E 134 REMARK 465 MET E 135 REMARK 465 ARG E 136 REMARK 465 MET E 137 REMARK 465 GLN E 138 REMARK 465 ARG E 139 REMARK 465 LEU E 140 REMARK 465 LYS E 141 REMARK 465 ALA E 142 REMARK 465 LYS E 143 REMARK 465 LEU E 144 REMARK 465 GLN E 145 REMARK 465 MET E 146 REMARK 465 PRO E 147 REMARK 465 PHE E 148 REMARK 465 GLN E 149 REMARK 465 SER E 150 REMARK 465 GLY E 151 REMARK 465 GLU E 152 REMARK 465 PHE E 153 REMARK 465 LYS E 154 REMARK 465 ALA E 155 REMARK 465 LEU E 156 REMARK 465 THR E 157 REMARK 465 ARG E 158 REMARK 465 ARG E 159 REMARK 465 LEU E 160 REMARK 465 GLN E 161 REMARK 465 VAL E 162 REMARK 465 GLU E 163 REMARK 465 PRO E 164 REMARK 465 ARG E 165 REMARK 465 LEU E 166 REMARK 465 LEU E 167 REMARK 465 SER E 168 REMARK 465 LYS E 169 REMARK 465 GLN E 170 REMARK 465 MET E 171 REMARK 465 ALA E 172 REMARK 465 GLY E 173 REMARK 465 CYS E 174 REMARK 465 LEU E 175 REMARK 465 GLU E 176 REMARK 465 ASP E 177 REMARK 465 CYS E 178 REMARK 465 THR E 179 REMARK 465 ARG E 180 REMARK 465 GLN E 181 REMARK 465 ALA E 182 REMARK 465 PRO E 183 REMARK 465 GLU E 184 REMARK 465 SER E 185 REMARK 465 PRO E 186 REMARK 465 TRP E 187 REMARK 465 GLU E 188 REMARK 465 GLU E 189 REMARK 465 GLN E 190 REMARK 465 LEU E 191 REMARK 465 ALA E 192 REMARK 465 ARG E 193 REMARK 465 LEU E 194 REMARK 465 LEU E 195 REMARK 465 GLN E 196 REMARK 465 GLU E 197 REMARK 465 ALA E 198 REMARK 465 PRO E 199 REMARK 465 GLY E 200 REMARK 465 LYS E 201 REMARK 465 LEU E 202 REMARK 465 SER E 203 REMARK 465 LEU E 204 REMARK 465 ASP E 205 REMARK 465 VAL E 206 REMARK 465 GLU E 207 REMARK 465 GLN E 208 REMARK 465 ALA E 209 REMARK 465 PRO E 210 REMARK 465 SER E 211 REMARK 465 GLY E 212 REMARK 465 GLN E 213 REMARK 465 HIS E 214 REMARK 465 SER E 215 REMARK 465 GLN E 216 REMARK 465 ALA E 217 REMARK 465 PRO E 741 REMARK 465 PRO E 742 REMARK 465 GLU E 743 REMARK 465 ALA E 744 REMARK 465 HIS E 745 REMARK 465 LEU E 746 REMARK 465 PRO E 747 REMARK 465 HIS E 748 REMARK 465 SER E 749 REMARK 465 ALA E 750 REMARK 465 ALA E 751 REMARK 465 PRO E 752 REMARK 465 ALA E 753 REMARK 465 ARG E 754 REMARK 465 LYS E 755 REMARK 465 ALA E 756 REMARK 465 LYS E 1087 REMARK 465 VAL E 1088 REMARK 465 LYS E 1089 REMARK 465 GLN E 1090 REMARK 465 ILE E 1091 REMARK 465 GLY E 1092 REMARK 465 GLY E 1093 REMARK 465 GLY E 1094 REMARK 465 ILE E 1095 REMARK 465 GLN E 1096 REMARK 465 SER E 1097 REMARK 465 ILE E 1098 REMARK 465 THR E 1099 REMARK 465 TYR E 1100 REMARK 465 THR E 1101 REMARK 465 HIS E 1102 REMARK 465 ASN E 1103 REMARK 465 GLY E 1104 REMARK 465 ASP E 1105 REMARK 465 ILE E 1106 REMARK 465 DG N -12 REMARK 465 DT N -11 REMARK 465 DG N -10 REMARK 465 DT N -9 REMARK 465 DT N -8 REMARK 465 DA N -7 REMARK 465 DG N -6 REMARK 465 DT N -5 REMARK 465 DT N -4 REMARK 465 DA N -3 REMARK 465 DG N -2 REMARK 465 DG N -1 REMARK 465 DG N 0 REMARK 465 DA N 1 REMARK 465 DG N 2 REMARK 465 DT N 3 REMARK 465 DG N 4 REMARK 465 DA N 5 REMARK 465 DC N 6 REMARK 465 DT N 7 REMARK 465 DG N 8 REMARK 465 DT N 9 REMARK 465 DT N 10 REMARK 465 DA N 11 REMARK 465 DA N 12 REMARK 465 DA N 13 REMARK 465 DA N 14 REMARK 465 DG N 15 REMARK 465 DT N 16 REMARK 465 DG N 17 REMARK 465 DC N 18 REMARK 465 DA N 19 REMARK 465 DT N 20 REMARK 465 DA N 21 REMARK 465 DC N 22 REMARK 465 DC N 23 REMARK 465 DG N 24 REMARK 465 DC N 25 REMARK 465 DC N 26 REMARK 465 DA N 27 REMARK 465 DA N 28 REMARK 465 DG N 29 REMARK 465 DA N 30 REMARK 465 DG N 31 REMARK 465 DA N 32 REMARK 465 DA N 33 REMARK 465 DG N 53 REMARK 465 DG N 54 REMARK 465 DC N 55 REMARK 465 DC N 56 REMARK 465 DG T -5 REMARK 465 DG T -4 REMARK 465 DC T -3 REMARK 465 DC T -2 REMARK 465 DT T 18 REMARK 465 DC T 19 REMARK 465 DT T 20 REMARK 465 DT T 21 REMARK 465 DG T 22 REMARK 465 DG T 23 REMARK 465 DC T 24 REMARK 465 DG T 25 REMARK 465 DG T 26 REMARK 465 DT T 27 REMARK 465 DA T 28 REMARK 465 DT T 29 REMARK 465 DG T 30 REMARK 465 DC T 31 REMARK 465 DA T 32 REMARK 465 DC T 33 REMARK 465 DT T 34 REMARK 465 DT T 35 REMARK 465 DT T 36 REMARK 465 DT T 37 REMARK 465 DA T 38 REMARK 465 DA T 39 REMARK 465 DC T 40 REMARK 465 DA T 41 REMARK 465 DG T 42 REMARK 465 DT T 43 REMARK 465 DC T 44 REMARK 465 DA T 45 REMARK 465 DC T 46 REMARK 465 DT T 47 REMARK 465 DC T 48 REMARK 465 DC T 49 REMARK 465 DC T 50 REMARK 465 DT T 51 REMARK 465 DA T 52 REMARK 465 DA T 53 REMARK 465 DC T 54 REMARK 465 DT T 55 REMARK 465 DA T 56 REMARK 465 DA T 57 REMARK 465 DC T 58 REMARK 465 DA T 59 REMARK 465 DC T 60 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 GLU E 555 CG CD OE1 OE2 REMARK 470 LEU E 606 CG CD1 CD2 REMARK 470 C R 13 O3' 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 ASP E1128 CB - CG - OD1 ANGL. DEV. = 6.6 DEGREES REMARK 500 DT T 13 O4' - C1' - N1 ANGL. DEV. = 2.4 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 E 237 -132.89 59.10 REMARK 500 GLN E 238 28.15 44.58 REMARK 500 LYS E 355 74.49 56.40 REMARK 500 SER E 410 0.56 -63.05 REMARK 500 ALA E 662 -112.03 62.20 REMARK 500 SER E 736 -165.30 -79.90 REMARK 500 GLU E 737 16.69 55.64 REMARK 500 LEU E 981 11.43 -147.00 REMARK 500 GLN E1035 -12.70 71.71 REMARK 500 GLU E1042 17.49 59.75 REMARK 500 PHE E1044 62.35 62.54 REMARK 500 PRO E1081 54.50 -91.31 REMARK 500 TYR E1082 -66.50 -91.42 REMARK 500 ARG E1083 53.59 38.69 REMARK 500 HIS E1150 78.00 69.04 REMARK 500 ASP E1151 -7.99 84.86 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-48417 RELATED DB: EMDB REMARK 900 STRUCTURE OF THE HUMAN MITOCHONDRIAL PROMOTER-INITIATED REMARK 900 TRANSCRIPTION ELONGATION COMPLEX, P-EC13 DBREF 9MN9 E 1 1230 UNP O00411 RPOM_HUMAN 1 1230 DBREF 9MN9 N -12 56 PDB 9MN9 9MN9 -12 56 DBREF 9MN9 R 5 13 PDB 9MN9 9MN9 5 13 DBREF 9MN9 T -5 60 PDB 9MN9 9MN9 -5 60 SEQRES 1 E 1230 MET SER ALA LEU CYS TRP GLY ARG GLY ALA ALA GLY LEU SEQRES 2 E 1230 LYS ARG ALA LEU ARG PRO CYS GLY ARG PRO GLY LEU PRO SEQRES 3 E 1230 GLY LYS GLU GLY THR ALA GLY GLY VAL CYS GLY PRO ARG SEQRES 4 E 1230 ARG SER SER SER ALA SER PRO GLN GLU GLN ASP GLN ASP SEQRES 5 E 1230 ARG ARG LYS ASP TRP GLY HIS VAL GLU LEU LEU GLU VAL SEQRES 6 E 1230 LEU GLN ALA ARG VAL ARG GLN LEU GLN ALA GLU SER VAL SEQRES 7 E 1230 SER GLU VAL VAL VAL ASN ARG VAL ASP VAL ALA ARG LEU SEQRES 8 E 1230 PRO GLU CYS GLY SER GLY ASP GLY SER LEU GLN PRO PRO SEQRES 9 E 1230 ARG LYS VAL GLN MET GLY ALA LYS ASP ALA THR PRO VAL SEQRES 10 E 1230 PRO CYS GLY ARG TRP ALA LYS ILE LEU GLU LYS ASP LYS SEQRES 11 E 1230 ARG THR GLN GLN MET ARG MET GLN ARG LEU LYS ALA LYS SEQRES 12 E 1230 LEU GLN MET PRO PHE GLN SER GLY GLU PHE LYS ALA LEU SEQRES 13 E 1230 THR ARG ARG LEU GLN VAL GLU PRO ARG LEU LEU SER LYS SEQRES 14 E 1230 GLN MET ALA GLY CYS LEU GLU ASP CYS THR ARG GLN ALA SEQRES 15 E 1230 PRO GLU SER PRO TRP GLU GLU GLN LEU ALA ARG LEU LEU SEQRES 16 E 1230 GLN GLU ALA PRO GLY LYS LEU SER LEU ASP VAL GLU GLN SEQRES 17 E 1230 ALA PRO SER GLY GLN HIS SER GLN ALA GLN LEU SER GLY SEQRES 18 E 1230 GLN GLN GLN ARG LEU LEU ALA PHE PHE LYS CYS CYS LEU SEQRES 19 E 1230 LEU THR ASP GLN LEU PRO LEU ALA HIS HIS LEU LEU VAL SEQRES 20 E 1230 VAL HIS HIS GLY GLN ARG GLN LYS ARG LYS LEU LEU THR SEQRES 21 E 1230 LEU ASP MET TYR ASN ALA VAL MET LEU GLY TRP ALA ARG SEQRES 22 E 1230 GLN GLY ALA PHE LYS GLU LEU VAL TYR VAL LEU PHE MET SEQRES 23 E 1230 VAL LYS ASP ALA GLY LEU THR PRO ASP LEU LEU SER TYR SEQRES 24 E 1230 ALA ALA ALA LEU GLN CYS MET GLY ARG GLN ASP GLN ASP SEQRES 25 E 1230 ALA GLY THR ILE GLU ARG CYS LEU GLU GLN MET SER GLN SEQRES 26 E 1230 GLU GLY LEU LYS LEU GLN ALA LEU PHE THR ALA VAL LEU SEQRES 27 E 1230 LEU SER GLU GLU ASP ARG ALA THR VAL LEU LYS ALA VAL SEQRES 28 E 1230 HIS LYS VAL LYS PRO THR PHE SER LEU PRO PRO GLN LEU SEQRES 29 E 1230 PRO PRO PRO VAL ASN THR SER LYS LEU LEU ARG ASP VAL SEQRES 30 E 1230 TYR ALA LYS ASP GLY ARG VAL SER TYR PRO LYS LEU HIS SEQRES 31 E 1230 LEU PRO LEU LYS THR LEU GLN CYS LEU PHE GLU LYS GLN SEQRES 32 E 1230 LEU HIS MET GLU LEU ALA SER ARG VAL CYS VAL VAL SER SEQRES 33 E 1230 VAL GLU LYS PRO THR LEU PRO SER LYS GLU VAL LYS HIS SEQRES 34 E 1230 ALA ARG LYS THR LEU LYS THR LEU ARG ASP GLN TRP GLU SEQRES 35 E 1230 LYS ALA LEU CYS ARG ALA LEU ARG GLU THR LYS ASN ARG SEQRES 36 E 1230 LEU GLU ARG GLU VAL TYR GLU GLY ARG PHE SER LEU TYR SEQRES 37 E 1230 PRO PHE LEU CYS LEU LEU ASP GLU ARG GLU VAL VAL ARG SEQRES 38 E 1230 MET LEU LEU GLN VAL LEU GLN ALA LEU PRO ALA GLN GLY SEQRES 39 E 1230 GLU SER PHE THR THR LEU ALA ARG GLU LEU SER ALA ARG SEQRES 40 E 1230 THR PHE SER ARG HIS VAL VAL GLN ARG GLN ARG VAL SER SEQRES 41 E 1230 GLY GLN VAL GLN ALA LEU GLN ASN HIS TYR ARG LYS TYR SEQRES 42 E 1230 LEU CYS LEU LEU ALA SER ASP ALA GLU VAL PRO GLU PRO SEQRES 43 E 1230 CYS LEU PRO ARG GLN TYR TRP GLU GLU LEU GLY ALA PRO SEQRES 44 E 1230 GLU ALA LEU ARG GLU GLN PRO TRP PRO LEU PRO VAL GLN SEQRES 45 E 1230 MET GLU LEU GLY LYS LEU LEU ALA GLU MET LEU VAL GLN SEQRES 46 E 1230 ALA THR GLN MET PRO CYS SER LEU ASP LYS PRO HIS ARG SEQRES 47 E 1230 SER SER ARG LEU VAL PRO VAL LEU TYR HIS VAL TYR SER SEQRES 48 E 1230 PHE ARG ASN VAL GLN GLN ILE GLY ILE LEU LYS PRO HIS SEQRES 49 E 1230 PRO ALA TYR VAL GLN LEU LEU GLU LYS ALA ALA GLU PRO SEQRES 50 E 1230 THR LEU THR PHE GLU ALA VAL ASP VAL PRO MET LEU CYS SEQRES 51 E 1230 PRO PRO LEU PRO TRP THR SER PRO HIS SER GLY ALA PHE SEQRES 52 E 1230 LEU LEU SER PRO THR LYS LEU MET ARG THR VAL GLU GLY SEQRES 53 E 1230 ALA THR GLN HIS GLN GLU LEU LEU GLU THR CYS PRO PRO SEQRES 54 E 1230 THR ALA LEU HIS GLY ALA LEU ASP ALA LEU THR GLN LEU SEQRES 55 E 1230 GLY ASN CYS ALA TRP ARG VAL ASN GLY ARG VAL LEU ASP SEQRES 56 E 1230 LEU VAL LEU GLN LEU PHE GLN ALA LYS GLY CYS PRO GLN SEQRES 57 E 1230 LEU GLY VAL PRO ALA PRO PRO SER GLU ALA PRO GLN PRO SEQRES 58 E 1230 PRO GLU ALA HIS LEU PRO HIS SER ALA ALA PRO ALA ARG SEQRES 59 E 1230 LYS ALA GLU LEU ARG ARG GLU LEU ALA HIS CYS GLN LYS SEQRES 60 E 1230 VAL ALA ARG GLU MET HIS SER LEU ARG ALA GLU ALA LEU SEQRES 61 E 1230 TYR ARG LEU SER LEU ALA GLN HIS LEU ARG ASP ARG VAL SEQRES 62 E 1230 PHE TRP LEU PRO HIS ASN MET ASP PHE ARG GLY ARG THR SEQRES 63 E 1230 TYR PRO CYS PRO PRO HIS PHE ASN HIS LEU GLY SER ASP SEQRES 64 E 1230 VAL ALA ARG ALA LEU LEU GLU PHE ALA GLN GLY ARG PRO SEQRES 65 E 1230 LEU GLY PRO HIS GLY LEU ASP TRP LEU LYS ILE HIS LEU SEQRES 66 E 1230 VAL ASN LEU THR GLY LEU LYS LYS ARG GLU PRO LEU ARG SEQRES 67 E 1230 LYS ARG LEU ALA PHE ALA GLU GLU VAL MET ASP ASP ILE SEQRES 68 E 1230 LEU ASP SER ALA ASP GLN PRO LEU THR GLY ARG LYS TRP SEQRES 69 E 1230 TRP MET GLY ALA GLU GLU PRO TRP GLN THR LEU ALA CYS SEQRES 70 E 1230 CYS MET GLU VAL ALA ASN ALA VAL ARG ALA SER ASP PRO SEQRES 71 E 1230 ALA ALA TYR VAL SER HIS LEU PRO VAL HIS GLN ASP GLY SEQRES 72 E 1230 SER CYS ASN GLY LEU GLN HIS TYR ALA ALA LEU GLY ARG SEQRES 73 E 1230 ASP SER VAL GLY ALA ALA SER VAL ASN LEU GLU PRO SER SEQRES 74 E 1230 ASP VAL PRO GLN ASP VAL TYR SER GLY VAL ALA ALA GLN SEQRES 75 E 1230 VAL GLU VAL PHE ARG ARG GLN ASP ALA GLN ARG GLY MET SEQRES 76 E 1230 ARG VAL ALA GLN VAL LEU GLU GLY PHE ILE THR ARG LYS SEQRES 77 E 1230 VAL VAL LYS GLN THR VAL MET THR VAL VAL TYR GLY VAL SEQRES 78 E 1230 THR ARG TYR GLY GLY ARG LEU GLN ILE GLU LYS ARG LEU SEQRES 79 E 1230 ARG GLU LEU SER ASP PHE PRO GLN GLU PHE VAL TRP GLU SEQRES 80 E 1230 ALA SER HIS TYR LEU VAL ARG GLN VAL PHE LYS SER LEU SEQRES 81 E 1230 GLN GLU MET PHE SER GLY THR ARG ALA ILE GLN HIS TRP SEQRES 82 E 1230 LEU THR GLU SER ALA ARG LEU ILE SER HIS MET GLY SER SEQRES 83 E 1230 VAL VAL GLU TRP VAL THR PRO LEU GLY VAL PRO VAL ILE SEQRES 84 E 1230 GLN PRO TYR ARG LEU ASP SER LYS VAL LYS GLN ILE GLY SEQRES 85 E 1230 GLY GLY ILE GLN SER ILE THR TYR THR HIS ASN GLY ASP SEQRES 86 E 1230 ILE SER ARG LYS PRO ASN THR ARG LYS GLN LYS ASN GLY SEQRES 87 E 1230 PHE PRO PRO ASN PHE ILE HIS SER LEU ASP SER SER HIS SEQRES 88 E 1230 MET MET LEU THR ALA LEU HIS CYS TYR ARG LYS GLY LEU SEQRES 89 E 1230 THR PHE VAL SER VAL HIS ASP CYS TYR TRP THR HIS ALA SEQRES 90 E 1230 ALA ASP VAL SER VAL MET ASN GLN VAL CYS ARG GLU GLN SEQRES 91 E 1230 PHE VAL ARG LEU HIS SER GLU PRO ILE LEU GLN ASP LEU SEQRES 92 E 1230 SER ARG PHE LEU VAL LYS ARG PHE CYS SER GLU PRO GLN SEQRES 93 E 1230 LYS ILE LEU GLU ALA SER GLN LEU LYS GLU THR LEU GLN SEQRES 94 E 1230 ALA VAL PRO LYS PRO GLY ALA PHE ASP LEU GLU GLN VAL SEQRES 95 E 1230 LYS ARG SER THR TYR PHE PHE SER SEQRES 1 N 66 DG DT DG DT DT DA DG DT DT DA DG DG DG SEQRES 2 N 66 DA DG DT DG DA DC DT DG DT DT DA DA DA SEQRES 3 N 66 DA DG DT DG DC DA DT DA DC DC DG DC DC SEQRES 4 N 66 DA DA DG DA DG DA DA DG DA DG DA DA DA SEQRES 5 N 66 DA DC DC DC DA DA DT DT DG DT DG DG DC SEQRES 6 N 66 DC SEQRES 1 R 9 A A A G A A A A C SEQRES 1 T 66 DG DG DC DC DA DC DA DA DT DT DG DG DG SEQRES 2 T 66 DT DT DT DT DC DT DT DT DT DC DT DC DT SEQRES 3 T 66 DT DG DG DC DG DG DT DA DT DG DC DA DC SEQRES 4 T 66 DT DT DT DT DA DA DC DA DG DT DC DA DC SEQRES 5 T 66 DT DC DC DC DT DA DA DC DT DA DA DC DA SEQRES 6 T 66 DC HET CH1 R 14 28 HET MG M 1 1 HETNAM CH1 3'-DEOXY-CYTIDINE-5'-TRIPHOSPHATE HETNAM MG MAGNESIUM ION FORMUL 5 CH1 C9 H16 N3 O13 P3 FORMUL 6 MG MG 2+ 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 TER 7802 SER E1230 TER 8133 DT N 52 TER 8330 C R 13 TER 8717 DC T 17 HETATM 8718 N1 CH1 R 14 147.398 141.554 128.106 1.00 20.00 N HETATM 8719 C2 CH1 R 14 146.891 140.286 127.468 1.00 20.00 C HETATM 8720 N3 CH1 R 14 147.756 139.084 127.361 1.00 20.00 N HETATM 8721 C4 CH1 R 14 149.101 139.118 127.866 1.00 20.00 C HETATM 8722 C5 CH1 R 14 149.594 140.363 128.484 1.00 20.00 C HETATM 8723 C6 CH1 R 14 148.750 141.569 128.601 1.00 20.00 C HETATM 8724 O2 CH1 R 14 145.807 140.161 127.032 1.00 20.00 O HETATM 8725 N4 CH1 R 14 149.955 137.953 127.770 1.00 20.00 N HETATM 8726 C1' CH1 R 14 146.742 142.706 128.254 1.00 20.00 C HETATM 8727 C2' CH1 R 14 147.344 143.744 127.281 1.00 20.00 C HETATM 8728 O2' CH1 R 14 147.483 145.076 127.911 1.00 20.00 O HETATM 8729 C3' CH1 R 14 146.462 143.835 126.309 1.00 20.00 C HETATM 8730 C4' CH1 R 14 145.035 143.642 127.062 1.00 20.00 C HETATM 8731 O4' CH1 R 14 145.207 142.687 127.924 1.00 20.00 O HETATM 8732 C5' CH1 R 14 144.005 143.240 126.051 1.00 20.00 C HETATM 8733 O5' CH1 R 14 143.820 141.861 126.072 1.00 20.00 O HETATM 8734 PA CH1 R 14 143.720 141.037 124.656 1.00 20.00 P HETATM 8735 O1A CH1 R 14 142.719 139.917 124.791 1.00 20.00 O1- HETATM 8736 O2A CH1 R 14 145.055 140.453 124.297 1.00 20.00 O HETATM 8737 O3A CH1 R 14 143.232 142.049 123.464 1.00 20.00 O HETATM 8738 PB CH1 R 14 144.231 142.916 122.487 1.00 20.00 P HETATM 8739 O1B CH1 R 14 143.641 144.293 122.387 1.00 20.00 O1- HETATM 8740 O2B CH1 R 14 145.623 142.988 123.054 1.00 20.00 O HETATM 8741 O3B CH1 R 14 144.241 142.242 120.997 1.00 20.00 O HETATM 8742 PG CH1 R 14 142.897 142.276 120.060 1.00 20.00 P HETATM 8743 O1G CH1 R 14 142.797 140.988 119.283 1.00 20.00 O HETATM 8744 O2G CH1 R 14 141.681 142.428 120.932 1.00 20.00 O1- HETATM 8745 O3G CH1 R 14 142.985 143.437 119.102 1.00 20.00 O HETATM 8746 MG MG M 1 141.190 143.449 123.528 1.00 20.00 MG CONECT 8718 8719 8723 8726 CONECT 8719 8718 8720 8724 CONECT 8720 8719 8721 CONECT 8721 8720 8722 8725 CONECT 8722 8721 8723 CONECT 8723 8718 8722 CONECT 8724 8719 CONECT 8725 8721 CONECT 8726 8718 8727 8731 CONECT 8727 8726 8728 8729 CONECT 8728 8727 CONECT 8729 8727 8730 CONECT 8730 8729 8731 8732 CONECT 8731 8726 8730 CONECT 8732 8730 8733 CONECT 8733 8732 8734 CONECT 8734 8733 8735 8736 8737 CONECT 8735 8734 CONECT 8736 8734 CONECT 8737 8734 8738 CONECT 8738 8737 8739 8740 8741 CONECT 8739 8738 CONECT 8740 8738 CONECT 8741 8738 8742 CONECT 8742 8741 8743 8744 8745 CONECT 8743 8742 CONECT 8744 8742 CONECT 8745 8742 MASTER 530 0 2 0 0 0 0 6 8742 4 28 108 END