HEADER TRANSCRIPTION, TRANSFERASE/DNA 12-DEC-23 8VBG TITLE KINETIC INTERMEDIATE STATES OF HIV-1 RT DNA SYNTHESIS CAPTURED BY TITLE 2 CRYO-EM COMPND MOL_ID: 1; COMPND 2 MOLECULE: HIV-1 REVERSE TRANSCRIPTASE/RIBONUCLEASE H P66 SUBUNIT; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 600-1154; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: HIV-1 REVERSE TRANSCRIPTASE P51 SUBUNIT; COMPND 9 CHAIN: B; COMPND 10 FRAGMENT: UNP RESIDUES 600-1027; COMPND 11 ENGINEERED: YES; COMPND 12 MOL_ID: 3; COMPND 13 MOLECULE: DNA (38-MER); COMPND 14 CHAIN: F; COMPND 15 ENGINEERED: YES; COMPND 16 OTHER_DETAILS: DNA APTAMER SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HUMAN IMMUNODEFICIENCY VIRUS 1; SOURCE 3 ORGANISM_TAXID: 11676; SOURCE 4 GENE: GAG-POL; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 MOL_ID: 2; SOURCE 8 ORGANISM_SCIENTIFIC: HUMAN IMMUNODEFICIENCY VIRUS 1; SOURCE 9 ORGANISM_TAXID: 11676; SOURCE 10 GENE: GAG-POL; SOURCE 11 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 12 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 13 MOL_ID: 3; SOURCE 14 SYNTHETIC: YES; SOURCE 15 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 16 ORGANISM_TAXID: 32630 KEYWDS REVERSE TRANSCRIPTION, TIME-RESOLVED, HIV-1, CRYO-EM, TRANSCRIPTION, KEYWDS 2 TRANSFERASE-DNA COMPLEX EXPDTA ELECTRON MICROSCOPY AUTHOR S.VERGARA,X.ZHOU,U.SANTIAGO,J.F.CONWAY,N.SLUIS-CREMER,G.CALERO REVDAT 2 18-DEC-24 8VBG 1 JRNL REVDAT 1 11-DEC-24 8VBG 0 JRNL AUTH S.VERGARA,X.ZHOU,U.SANTIAGO,M.ALAOUI-EL-AZHER,J.F.CONWAY, JRNL AUTH 2 N.SLUIS-CREMER,G.CALERO JRNL TITL STRUCTURAL BASIS OF DEOXYNUCLEOTIDE ADDITION BY HIV-1 RT JRNL TITL 2 DURING REVERSE TRANSCRIPTION. JRNL REF NAT COMMUN V. 15 10553 2024 JRNL REFN ESSN 2041-1723 JRNL PMID 39632888 JRNL DOI 10.1038/S41467-024-54618-Y REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : PHENIX, CRYOSPARC REMARK 3 RECONSTRUCTION SCHEMA : NULL REMARK 3 REMARK 3 EM MAP-MODEL FITTING AND REFINEMENT REMARK 3 PDB ENTRY : NULL REMARK 3 REFINEMENT SPACE : REAL 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) : 2.400 REMARK 3 NUMBER OF PARTICLES : 919354 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 8VBG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-DEC-23. REMARK 100 THE DEPOSITION ID IS D_1000279083. 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 : REVERSE REMARK 245 TRANSCRIPTASE/RIBONUCLEASE H IN REMARK 245 COMPLEX WITH DNA APTAMER REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : 0.20 REMARK 245 SAMPLE SUPPORT DETAILS : NULL REMARK 245 SAMPLE VITRIFICATION DETAILS : NULL REMARK 245 SAMPLE BUFFER : NULL REMARK 245 PH : 7.40 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 : FEI FALCON IV (4K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 750.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 2250.00 REMARK 245 MINIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 MAXIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 NOMINAL CS : NULL REMARK 245 IMAGING MODE : BRIGHT FIELD REMARK 245 ELECTRON DOSE (ELECTRONS NM**-2) : 4600.00 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, B, F 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 VAL A 0 REMARK 465 GLY A 543 REMARK 465 GLY A 544 REMARK 465 ASN A 545 REMARK 465 GLU A 546 REMARK 465 GLN A 547 REMARK 465 VAL A 548 REMARK 465 ASP A 549 REMARK 465 LYS A 550 REMARK 465 LEU A 551 REMARK 465 VAL A 552 REMARK 465 SER A 553 REMARK 465 ALA A 554 REMARK 465 GLY A 555 REMARK 465 MET B -15 REMARK 465 ALA B -14 REMARK 465 HIS B -13 REMARK 465 HIS B -12 REMARK 465 HIS B -11 REMARK 465 HIS B -10 REMARK 465 HIS B -9 REMARK 465 HIS B -8 REMARK 465 ALA B -7 REMARK 465 LEU B -6 REMARK 465 GLU B -5 REMARK 465 VAL B -4 REMARK 465 LEU B -3 REMARK 465 PHE B -2 REMARK 465 GLN B -1 REMARK 465 GLY B 0 REMARK 465 PRO B 1 REMARK 465 ILE B 2 REMARK 465 SER B 3 REMARK 465 PRO B 4 REMARK 465 ILE B 5 REMARK 465 PHE B 87 REMARK 465 TRP B 88 REMARK 465 GLU B 89 REMARK 465 VAL B 90 REMARK 465 GLN B 91 REMARK 465 LEU B 92 REMARK 465 GLY B 93 REMARK 465 ILE B 94 REMARK 465 PRO B 95 REMARK 465 LEU B 214 REMARK 465 THR B 215 REMARK 465 THR B 216 REMARK 465 PRO B 217 REMARK 465 ASP B 218 REMARK 465 LYS B 219 REMARK 465 LYS B 220 REMARK 465 HIS B 221 REMARK 465 GLN B 222 REMARK 465 LYS B 223 REMARK 465 GLU B 224 REMARK 465 PRO B 225 REMARK 465 PRO B 226 REMARK 465 PHE B 227 REMARK 465 LEU B 228 REMARK 465 TRP B 229 REMARK 465 MET B 230 REMARK 465 GLY B 231 REMARK 465 DT F -4 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 LYS A 32 CG CD CE NZ REMARK 470 LYS A 66 CG CD CE NZ REMARK 470 ASN A 136 CG OD1 ND2 REMARK 470 ASN A 137 CG OD1 ND2 REMARK 470 GLU A 138 CG CD OE1 OE2 REMARK 470 LYS A 287 CG CD CE NZ REMARK 470 MET A 357 CG SD CE REMARK 470 LYS B 11 CG CD CE NZ REMARK 470 LYS B 66 CG CD CE NZ REMARK 470 ASP B 67 CG OD1 OD2 REMARK 470 ASP B 86 CG OD1 OD2 REMARK 470 LYS B 166 CG CD CE NZ REMARK 470 LYS B 173 CG CD CE NZ REMARK 470 ARG B 199 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 248 CG CD OE1 OE2 REMARK 470 LYS B 275 CG CD CE NZ REMARK 470 HIS B 315 CG ND1 CD2 CE1 NE2 REMARK 470 MET B 357 CG SD CE REMARK 470 ARG B 358 CG CD NE CZ NH1 NH2 REMARK 470 VAL B 423 CG1 CG2 REMARK 470 LYS B 424 CG CD CE NZ 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 SER A 68 -2.37 62.09 REMARK 500 ASN A 137 -132.77 42.95 REMARK 500 GLU A 138 -92.96 67.54 REMARK 500 MET A 184 -114.56 54.89 REMARK 500 MET A 184 -112.51 51.85 REMARK 500 GLU A 248 41.01 -101.91 REMARK 500 LYS A 287 -70.04 -134.82 REMARK 500 PRO A 392 46.32 -84.09 REMARK 500 PRO A 412 -179.52 -64.56 REMARK 500 ALA A 446 114.86 -161.24 REMARK 500 ARG A 448 46.18 -87.34 REMARK 500 VAL A 466 53.70 -142.96 REMARK 500 GLU A 514 42.67 -90.22 REMARK 500 ALA A 538 -126.14 -73.05 REMARK 500 HIS A 539 97.00 -44.13 REMARK 500 LYS A 540 -9.80 -147.38 REMARK 500 PRO B 97 80.02 -43.52 REMARK 500 SER B 117 -11.72 -152.22 REMARK 500 THR B 165 30.47 -70.06 REMARK 500 LYS B 166 -24.40 -142.63 REMARK 500 PRO B 170 12.36 -60.28 REMARK 500 PHE B 171 -29.80 -147.56 REMARK 500 ASN B 175 78.47 -115.26 REMARK 500 MET B 184 -118.91 53.66 REMARK 500 LYS B 238 40.06 -76.76 REMARK 500 LEU B 283 33.17 -97.09 REMARK 500 ARG B 356 53.67 -101.73 REMARK 500 MET B 357 92.35 -7.25 REMARK 500 ARG B 358 105.80 -37.24 REMARK 500 THR B 362 40.43 -78.33 REMARK 500 LEU B 422 -52.54 60.47 REMARK 500 VAL B 423 44.25 -68.14 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 MG A 602 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 110 OD2 REMARK 620 2 VAL A 111 O 106.1 REMARK 620 3 ASP A 185 OD2 81.2 87.7 REMARK 620 4 F2A A 601 O2B 161.8 92.1 99.8 REMARK 620 5 F2A A 601 O3G 95.4 108.0 164.3 78.7 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 603 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 110 OD1 REMARK 620 2 ASP A 110 OD2 46.2 REMARK 620 3 F2A A 601 O1A 126.0 81.2 REMARK 620 4 DG F 33 O3' 90.6 102.9 90.3 REMARK 620 N 1 2 3 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-43124 RELATED DB: EMDB REMARK 900 KINETIC INTERMEDIATE STATES OF HIV-1 RT DNA SYNTHESIS CAPTURED BY REMARK 900 CRYO-EM DBREF 8VBG A 1 555 UNP P03366 POL_HV1B1 600 1154 DBREF 8VBG B 1 428 UNP P03366 POL_HV1B1 600 1027 DBREF 8VBG F -4 33 PDB 8VBG 8VBG -4 33 SEQADV 8VBG MET A -1 UNP P03366 EXPRESSION TAG SEQADV 8VBG VAL A 0 UNP P03366 EXPRESSION TAG SEQADV 8VBG SER A 280 UNP P03366 CYS 879 ENGINEERED MUTATION SEQADV 8VBG ASN A 498 UNP P03366 ASP 1097 ENGINEERED MUTATION SEQADV 8VBG MET B -15 UNP P03366 EXPRESSION TAG SEQADV 8VBG ALA B -14 UNP P03366 EXPRESSION TAG SEQADV 8VBG HIS B -13 UNP P03366 EXPRESSION TAG SEQADV 8VBG HIS B -12 UNP P03366 EXPRESSION TAG SEQADV 8VBG HIS B -11 UNP P03366 EXPRESSION TAG SEQADV 8VBG HIS B -10 UNP P03366 EXPRESSION TAG SEQADV 8VBG HIS B -9 UNP P03366 EXPRESSION TAG SEQADV 8VBG HIS B -8 UNP P03366 EXPRESSION TAG SEQADV 8VBG ALA B -7 UNP P03366 EXPRESSION TAG SEQADV 8VBG LEU B -6 UNP P03366 EXPRESSION TAG SEQADV 8VBG GLU B -5 UNP P03366 EXPRESSION TAG SEQADV 8VBG VAL B -4 UNP P03366 EXPRESSION TAG SEQADV 8VBG LEU B -3 UNP P03366 EXPRESSION TAG SEQADV 8VBG PHE B -2 UNP P03366 EXPRESSION TAG SEQADV 8VBG GLN B -1 UNP P03366 EXPRESSION TAG SEQADV 8VBG GLY B 0 UNP P03366 EXPRESSION TAG SEQRES 1 A 557 MET VAL PRO ILE SER PRO ILE GLU THR VAL PRO VAL LYS SEQRES 2 A 557 LEU LYS PRO GLY MET ASP GLY PRO LYS VAL LYS GLN TRP SEQRES 3 A 557 PRO LEU THR GLU GLU LYS ILE LYS ALA LEU VAL GLU ILE SEQRES 4 A 557 CYS THR GLU MET GLU LYS GLU GLY LYS ILE SER LYS ILE SEQRES 5 A 557 GLY PRO GLU ASN PRO TYR ASN THR PRO VAL PHE ALA ILE SEQRES 6 A 557 LYS LYS LYS ASP SER THR LYS TRP ARG LYS LEU VAL ASP SEQRES 7 A 557 PHE ARG GLU LEU ASN LYS ARG THR GLN ASP PHE TRP GLU SEQRES 8 A 557 VAL GLN LEU GLY ILE PRO HIS PRO ALA GLY LEU LYS LYS SEQRES 9 A 557 LYS LYS SER VAL THR VAL LEU ASP VAL GLY ASP ALA TYR SEQRES 10 A 557 PHE SER VAL PRO LEU ASP GLU ASP PHE ARG LYS TYR THR SEQRES 11 A 557 ALA PHE THR ILE PRO SER ILE ASN ASN GLU THR PRO GLY SEQRES 12 A 557 ILE ARG TYR GLN TYR ASN VAL LEU PRO GLN GLY TRP LYS SEQRES 13 A 557 GLY SER PRO ALA ILE PHE GLN SER SER MET THR LYS ILE SEQRES 14 A 557 LEU GLU PRO PHE LYS LYS GLN ASN PRO ASP ILE VAL ILE SEQRES 15 A 557 TYR GLN TYR MET ASP ASP LEU TYR VAL GLY SER ASP LEU SEQRES 16 A 557 GLU ILE GLY GLN HIS ARG THR LYS ILE GLU GLU LEU ARG SEQRES 17 A 557 GLN HIS LEU LEU ARG TRP GLY LEU THR THR PRO ASP LYS SEQRES 18 A 557 LYS HIS GLN LYS GLU PRO PRO PHE LEU TRP MET GLY TYR SEQRES 19 A 557 GLU LEU HIS PRO ASP LYS TRP THR VAL GLN PRO ILE VAL SEQRES 20 A 557 LEU PRO GLU LYS ASP SER TRP THR VAL ASN ASP ILE GLN SEQRES 21 A 557 LYS LEU VAL GLY LYS LEU ASN TRP ALA SER GLN ILE TYR SEQRES 22 A 557 PRO GLY ILE LYS VAL ARG GLN LEU SER LYS LEU LEU ARG SEQRES 23 A 557 GLY THR LYS ALA LEU THR GLU VAL ILE PRO LEU THR GLU SEQRES 24 A 557 GLU ALA GLU LEU GLU LEU ALA GLU ASN ARG GLU ILE LEU SEQRES 25 A 557 LYS GLU PRO VAL HIS GLY VAL TYR TYR ASP PRO SER LYS SEQRES 26 A 557 ASP LEU ILE ALA GLU ILE GLN LYS GLN GLY GLN GLY GLN SEQRES 27 A 557 TRP THR TYR GLN ILE TYR GLN GLU PRO PHE LYS ASN LEU SEQRES 28 A 557 LYS THR GLY LYS TYR ALA ARG MET ARG GLY ALA HIS THR SEQRES 29 A 557 ASN ASP VAL LYS GLN LEU THR GLU ALA VAL GLN LYS ILE SEQRES 30 A 557 THR THR GLU SER ILE VAL ILE TRP GLY LYS THR PRO LYS SEQRES 31 A 557 PHE LYS LEU PRO ILE GLN LYS GLU THR TRP GLU THR TRP SEQRES 32 A 557 TRP THR GLU TYR TRP GLN ALA THR TRP ILE PRO GLU TRP SEQRES 33 A 557 GLU PHE VAL ASN THR PRO PRO LEU VAL LYS LEU TRP TYR SEQRES 34 A 557 GLN LEU GLU LYS GLU PRO ILE VAL GLY ALA GLU THR PHE SEQRES 35 A 557 TYR VAL ASP GLY ALA ALA ASN ARG GLU THR LYS LEU GLY SEQRES 36 A 557 LYS ALA GLY TYR VAL THR ASN LYS GLY ARG GLN LYS VAL SEQRES 37 A 557 VAL PRO LEU THR ASN THR THR ASN GLN LYS THR GLU LEU SEQRES 38 A 557 GLN ALA ILE TYR LEU ALA LEU GLN ASP SER GLY LEU GLU SEQRES 39 A 557 VAL ASN ILE VAL THR ASN SER GLN TYR ALA LEU GLY ILE SEQRES 40 A 557 ILE GLN ALA GLN PRO ASP LYS SER GLU SER GLU LEU VAL SEQRES 41 A 557 ASN GLN ILE ILE GLU GLN LEU ILE LYS LYS GLU LYS VAL SEQRES 42 A 557 TYR LEU ALA TRP VAL PRO ALA HIS LYS GLY ILE GLY GLY SEQRES 43 A 557 ASN GLU GLN VAL ASP LYS LEU VAL SER ALA GLY SEQRES 1 B 444 MET ALA HIS HIS HIS HIS HIS HIS ALA LEU GLU VAL LEU SEQRES 2 B 444 PHE GLN GLY PRO ILE SER PRO ILE GLU THR VAL PRO VAL SEQRES 3 B 444 LYS LEU LYS PRO GLY MET ASP GLY PRO LYS VAL LYS GLN SEQRES 4 B 444 TRP PRO LEU THR GLU GLU LYS ILE LYS ALA LEU VAL GLU SEQRES 5 B 444 ILE CYS THR GLU MET GLU LYS GLU GLY LYS ILE SER LYS SEQRES 6 B 444 ILE GLY PRO GLU ASN PRO TYR ASN THR PRO VAL PHE ALA SEQRES 7 B 444 ILE LYS LYS LYS ASP SER THR LYS TRP ARG LYS LEU VAL SEQRES 8 B 444 ASP PHE ARG GLU LEU ASN LYS ARG THR GLN ASP PHE TRP SEQRES 9 B 444 GLU VAL GLN LEU GLY ILE PRO HIS PRO ALA GLY LEU LYS SEQRES 10 B 444 LYS LYS LYS SER VAL THR VAL LEU ASP VAL GLY ASP ALA SEQRES 11 B 444 TYR PHE SER VAL PRO LEU ASP GLU ASP PHE ARG LYS TYR SEQRES 12 B 444 THR ALA PHE THR ILE PRO SER ILE ASN ASN GLU THR PRO SEQRES 13 B 444 GLY ILE ARG TYR GLN TYR ASN VAL LEU PRO GLN GLY TRP SEQRES 14 B 444 LYS GLY SER PRO ALA ILE PHE GLN SER SER MET THR LYS SEQRES 15 B 444 ILE LEU GLU PRO PHE LYS LYS GLN ASN PRO ASP ILE VAL SEQRES 16 B 444 ILE TYR GLN TYR MET ASP ASP LEU TYR VAL GLY SER ASP SEQRES 17 B 444 LEU GLU ILE GLY GLN HIS ARG THR LYS ILE GLU GLU LEU SEQRES 18 B 444 ARG GLN HIS LEU LEU ARG TRP GLY LEU THR THR PRO ASP SEQRES 19 B 444 LYS LYS HIS GLN LYS GLU PRO PRO PHE LEU TRP MET GLY SEQRES 20 B 444 TYR GLU LEU HIS PRO ASP LYS TRP THR VAL GLN PRO ILE SEQRES 21 B 444 VAL LEU PRO GLU LYS ASP SER TRP THR VAL ASN ASP ILE SEQRES 22 B 444 GLN LYS LEU VAL GLY LYS LEU ASN TRP ALA SER GLN ILE SEQRES 23 B 444 TYR PRO GLY ILE LYS VAL ARG GLN LEU CYS LYS LEU LEU SEQRES 24 B 444 ARG GLY THR LYS ALA LEU THR GLU VAL ILE PRO LEU THR SEQRES 25 B 444 GLU GLU ALA GLU LEU GLU LEU ALA GLU ASN ARG GLU ILE SEQRES 26 B 444 LEU LYS GLU PRO VAL HIS GLY VAL TYR TYR ASP PRO SER SEQRES 27 B 444 LYS ASP LEU ILE ALA GLU ILE GLN LYS GLN GLY GLN GLY SEQRES 28 B 444 GLN TRP THR TYR GLN ILE TYR GLN GLU PRO PHE LYS ASN SEQRES 29 B 444 LEU LYS THR GLY LYS TYR ALA ARG MET ARG GLY ALA HIS SEQRES 30 B 444 THR ASN ASP VAL LYS GLN LEU THR GLU ALA VAL GLN LYS SEQRES 31 B 444 ILE THR THR GLU SER ILE VAL ILE TRP GLY LYS THR PRO SEQRES 32 B 444 LYS PHE LYS LEU PRO ILE GLN LYS GLU THR TRP GLU THR SEQRES 33 B 444 TRP TRP THR GLU TYR TRP GLN ALA THR TRP ILE PRO GLU SEQRES 34 B 444 TRP GLU PHE VAL ASN THR PRO PRO LEU VAL LYS LEU TRP SEQRES 35 B 444 TYR GLN SEQRES 1 F 38 DT DA DA DT DT DC OMC DC OMC DC DC DC DT SEQRES 2 F 38 DT DC DG DG DT DG DC DT DT DT DG DC DA SEQRES 3 F 38 DC DC DG DA DA DG DG DG DG DG DG DG HET OMC F 2 21 HET OMC F 4 21 HET F2A A 601 30 HET MG A 602 1 HET MG A 603 1 HETNAM OMC O2'-METHYLYCYTIDINE-5'-MONOPHOSPHATE HETNAM F2A 2'-DEOXY-5'-O-[(S)-HYDROXY{[(S)-HYDROXY(PHOSPHONOOXY) HETNAM 2 F2A PHOSPHORYL]METHYL}PHOSPHORYL]ADENOSINE HETNAM MG MAGNESIUM ION FORMUL 3 OMC 2(C10 H16 N3 O8 P) FORMUL 4 F2A C11 H18 N5 O11 P3 FORMUL 5 MG 2(MG 2+) HELIX 1 AA1 THR A 27 GLU A 44 1 18 HELIX 2 AA2 PHE A 77 THR A 84 1 8 HELIX 3 AA3 HIS A 96 LEU A 100 5 5 HELIX 4 AA4 ALA A 114 VAL A 118 5 5 HELIX 5 AA5 ASP A 121 ALA A 129 5 9 HELIX 6 AA6 GLY A 155 ASN A 175 1 21 HELIX 7 AA7 GLU A 194 ARG A 211 1 18 HELIX 8 AA8 PRO A 217 HIS A 221 5 5 HELIX 9 AA9 THR A 253 SER A 268 1 16 HELIX 10 AB1 VAL A 276 LEU A 282 1 7 HELIX 11 AB2 THR A 296 GLU A 312 1 17 HELIX 12 AB3 ASN A 363 TRP A 383 1 21 HELIX 13 AB4 GLN A 394 TYR A 405 1 12 HELIX 14 AB5 THR A 473 ASP A 488 1 16 HELIX 15 AB6 SER A 499 GLN A 507 1 9 HELIX 16 AB7 SER A 515 LYS A 528 1 14 HELIX 17 AB8 THR B 27 GLU B 44 1 18 HELIX 18 AB9 PHE B 77 THR B 84 1 8 HELIX 19 AC1 ASP B 121 LYS B 126 1 6 HELIX 20 AC2 TYR B 127 ALA B 129 5 3 HELIX 21 AC3 SER B 134 GLU B 138 5 5 HELIX 22 AC4 PHE B 160 LEU B 168 1 9 HELIX 23 AC5 LEU B 168 LYS B 173 1 6 HELIX 24 AC6 GLU B 194 ARG B 211 1 18 HELIX 25 AC7 VAL B 254 TYR B 271 1 18 HELIX 26 AC8 THR B 296 GLU B 312 1 17 HELIX 27 AC9 ASN B 363 GLY B 384 1 22 HELIX 28 AD1 GLN B 394 TRP B 402 1 9 HELIX 29 AD2 THR B 403 TYR B 405 5 3 SHEET 1 AA1 3 ILE A 47 LYS A 49 0 SHEET 2 AA1 3 ILE A 142 TYR A 146 -1 O GLN A 145 N SER A 48 SHEET 3 AA1 3 PHE A 130 ILE A 132 -1 N ILE A 132 O ILE A 142 SHEET 1 AA2 2 VAL A 60 LYS A 64 0 SHEET 2 AA2 2 TRP A 71 VAL A 75 -1 O ARG A 72 N ILE A 63 SHEET 1 AA3 3 SER A 105 ASP A 110 0 SHEET 2 AA3 3 ASP A 186 SER A 191 -1 O SER A 191 N SER A 105 SHEET 3 AA3 3 VAL A 179 TYR A 183 -1 N VAL A 179 O GLY A 190 SHEET 1 AA4 4 PHE A 227 TRP A 229 0 SHEET 2 AA4 4 TYR A 232 LEU A 234 -1 O TYR A 232 N TRP A 229 SHEET 3 AA4 4 LYS A 238 VAL A 241 -1 O THR A 240 N GLU A 233 SHEET 4 AA4 4 GLY A 316 VAL A 317 -1 O GLY A 316 N TRP A 239 SHEET 1 AA5 5 LYS A 347 TYR A 354 0 SHEET 2 AA5 5 GLN A 336 GLU A 344 -1 N ILE A 341 O LYS A 350 SHEET 3 AA5 5 ILE A 326 GLY A 333 -1 N GLN A 332 O GLN A 336 SHEET 4 AA5 5 LYS A 388 LEU A 391 1 O LYS A 390 N ILE A 329 SHEET 5 AA5 5 TRP A 414 PHE A 416 1 O GLU A 415 N PHE A 389 SHEET 1 AA6 2 HIS A 361 THR A 362 0 SHEET 2 AA6 2 LYS A 512 SER A 513 -1 O LYS A 512 N THR A 362 SHEET 1 AA7 3 GLN A 464 LYS A 465 0 SHEET 2 AA7 3 LEU A 452 THR A 459 -1 N TYR A 457 O LYS A 465 SHEET 3 AA7 3 PRO A 468 THR A 470 -1 O LEU A 469 N GLY A 453 SHEET 1 AA8 5 GLN A 464 LYS A 465 0 SHEET 2 AA8 5 LEU A 452 THR A 459 -1 N TYR A 457 O LYS A 465 SHEET 3 AA8 5 THR A 439 ALA A 446 -1 N TYR A 441 O VAL A 458 SHEET 4 AA8 5 GLU A 492 THR A 497 1 O ASN A 494 N PHE A 440 SHEET 5 AA8 5 LYS A 530 TRP A 535 1 O ALA A 534 N THR A 497 SHEET 1 AA9 3 ILE B 47 LYS B 49 0 SHEET 2 AA9 3 ILE B 142 TYR B 146 -1 O GLN B 145 N SER B 48 SHEET 3 AA9 3 PHE B 130 ILE B 132 -1 N ILE B 132 O ILE B 142 SHEET 1 AB1 2 VAL B 60 LYS B 64 0 SHEET 2 AB1 2 TRP B 71 VAL B 75 -1 O LEU B 74 N PHE B 61 SHEET 1 AB2 4 VAL B 179 TYR B 183 0 SHEET 2 AB2 4 ASP B 186 SER B 191 -1 O GLY B 190 N VAL B 179 SHEET 3 AB2 4 SER B 105 ASP B 110 -1 N THR B 107 O VAL B 189 SHEET 4 AB2 4 GLU B 233 LEU B 234 -1 O LEU B 234 N VAL B 106 SHEET 1 AB3 2 TRP B 252 THR B 253 0 SHEET 2 AB3 2 VAL B 292 ILE B 293 -1 O ILE B 293 N TRP B 252 SHEET 1 AB4 5 LYS B 347 ALA B 355 0 SHEET 2 AB4 5 GLN B 336 GLU B 344 -1 N TRP B 337 O TYR B 354 SHEET 3 AB4 5 ILE B 326 GLY B 333 -1 N GLN B 332 O GLN B 336 SHEET 4 AB4 5 LYS B 388 LEU B 391 1 O LYS B 390 N ALA B 327 SHEET 5 AB4 5 TRP B 414 PHE B 416 1 O GLU B 415 N PHE B 389 LINK O3' DC F 1 P OMC F 2 1555 1555 1.60 LINK O3' OMC F 2 P DC F 3 1555 1555 1.61 LINK O3' DC F 3 P OMC F 4 1555 1555 1.61 LINK O3' OMC F 4 P DC F 5 1555 1555 1.61 LINK OD2 ASP A 110 MG MG A 602 1555 1555 2.34 LINK OD1 ASP A 110 MG MG A 603 1555 1555 2.49 LINK OD2 ASP A 110 MG MG A 603 1555 1555 2.99 LINK O VAL A 111 MG MG A 602 1555 1555 2.35 LINK OD2 ASP A 185 MG MG A 602 1555 1555 2.09 LINK O2B F2A A 601 MG MG A 602 1555 1555 2.50 LINK O3G F2A A 601 MG MG A 602 1555 1555 2.92 LINK O1A F2A A 601 MG MG A 603 1555 1555 2.37 LINK MG MG A 603 O3' DG F 33 1555 1555 2.45 CISPEP 1 PRO A 225 PRO A 226 0 0.22 CISPEP 2 PRO A 420 PRO A 421 0 1.15 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 4406 ILE A 542 TER 7626 GLN B 428 HETATM 7728 N1 OMC F 2 133.404 135.758 117.720 1.00 28.35 N HETATM 7729 C2 OMC F 2 134.420 136.572 117.189 1.00 30.40 C HETATM 7730 N3 OMC F 2 134.104 137.835 116.841 1.00 27.59 N HETATM 7731 C4 OMC F 2 132.888 138.309 116.992 1.00 24.17 C HETATM 7732 C5 OMC F 2 131.832 137.519 117.528 1.00 30.44 C HETATM 7733 C6 OMC F 2 132.155 136.262 117.872 1.00 28.48 C HETATM 7734 O2 OMC F 2 135.544 136.122 117.054 1.00 33.64 O HETATM 7735 N4 OMC F 2 132.650 139.566 116.628 1.00 30.94 N HETATM 7736 C1' OMC F 2 133.674 134.359 118.125 1.00 30.13 C HETATM 7737 C2' OMC F 2 134.123 134.258 119.586 1.00 32.30 C HETATM 7738 O2' OMC F 2 135.062 133.198 119.694 1.00 33.48 O HETATM 7739 CM2 OMC F 2 136.236 133.388 118.942 1.00 25.22 C HETATM 7740 C3' OMC F 2 132.815 133.890 120.272 1.00 27.07 C HETATM 7741 C4' OMC F 2 132.173 132.968 119.253 1.00 21.93 C HETATM 7742 O4' OMC F 2 132.488 133.602 117.989 1.00 33.72 O HETATM 7743 O3' OMC F 2 132.977 133.294 121.545 1.00 31.18 O HETATM 7744 C5' OMC F 2 130.685 132.766 119.380 1.00 24.68 C HETATM 7745 O5' OMC F 2 130.010 133.991 119.609 1.00 40.83 O HETATM 7746 P OMC F 2 128.460 134.137 119.282 1.00 26.99 P HETATM 7747 OP1 OMC F 2 127.700 133.137 120.145 1.00 44.18 O HETATM 7748 OP2 OMC F 2 128.100 135.612 119.342 1.00 41.80 O HETATM 7768 N1 OMC F 4 138.329 140.946 124.253 1.00 20.51 N HETATM 7769 C2 OMC F 4 138.110 142.263 123.804 1.00 19.94 C HETATM 7770 N3 OMC F 4 136.924 142.546 123.229 1.00 18.16 N HETATM 7771 C4 OMC F 4 135.991 141.635 123.076 1.00 20.31 C HETATM 7772 C5 OMC F 4 136.174 140.292 123.514 1.00 20.22 C HETATM 7773 C6 OMC F 4 137.358 140.016 124.086 1.00 22.68 C HETATM 7774 O2 OMC F 4 138.972 143.114 123.947 1.00 27.69 O HETATM 7775 N4 OMC F 4 134.847 141.990 122.497 1.00 19.75 N HETATM 7776 C1' OMC F 4 139.593 140.520 124.896 1.00 22.76 C HETATM 7777 C2' OMC F 4 139.779 141.130 126.288 1.00 25.45 C HETATM 7778 O2' OMC F 4 141.167 141.343 126.503 1.00 31.32 O HETATM 7779 CM2 OMC F 4 141.719 142.381 125.730 1.00 24.91 C HETATM 7780 C3' OMC F 4 139.268 140.006 127.177 1.00 24.99 C HETATM 7781 C4' OMC F 4 139.742 138.767 126.439 1.00 23.01 C HETATM 7782 O4' OMC F 4 139.576 139.115 125.043 1.00 30.36 O HETATM 7783 O3' OMC F 4 139.745 140.072 128.509 1.00 28.11 O HETATM 7784 C5' OMC F 4 138.999 137.492 126.742 1.00 21.81 C HETATM 7785 O5' OMC F 4 137.601 137.648 126.559 1.00 32.85 O HETATM 7786 P OMC F 4 136.665 136.384 126.317 1.00 33.50 P HETATM 7787 OP1 OMC F 4 136.852 135.430 127.490 1.00 34.11 O HETATM 7788 OP2 OMC F 4 135.272 136.891 125.976 1.00 37.42 O TER 8388 DG F 33 HETATM 8389 PA F2A A 601 139.138 137.801 106.828 1.00 49.64 P HETATM 8390 O1A F2A A 601 140.589 138.043 106.584 1.00 60.41 O HETATM 8391 O2A F2A A 601 138.356 139.020 107.162 1.00 56.58 O HETATM 8392 C3A F2A A 601 138.403 137.067 105.337 1.00 44.68 C HETATM 8393 O5' F2A A 601 138.926 136.883 108.087 1.00 49.76 O HETATM 8394 PB F2A A 601 138.665 135.369 104.707 1.00 66.24 P HETATM 8395 O1B F2A A 601 137.365 134.644 104.634 1.00 54.92 O HETATM 8396 O2B F2A A 601 139.837 134.635 105.271 1.00 54.48 O HETATM 8397 O3B F2A A 601 139.156 135.586 103.217 1.00 54.70 O HETATM 8398 PG F2A A 601 140.066 136.605 102.364 1.00 68.92 P HETATM 8399 O1G F2A A 601 139.265 137.831 102.226 1.00 58.30 O HETATM 8400 O2G F2A A 601 140.312 135.955 101.062 1.00 64.20 O HETATM 8401 O3G F2A A 601 141.329 136.861 103.094 1.00 58.36 O HETATM 8402 C5' F2A A 601 139.120 135.478 108.110 1.00 44.79 C HETATM 8403 C4' F2A A 601 137.916 134.839 108.745 1.00 48.37 C HETATM 8404 O4' F2A A 601 137.485 135.638 109.859 1.00 55.53 O HETATM 8405 C1' F2A A 601 136.087 135.465 110.043 1.00 49.69 C HETATM 8406 N9 F2A A 601 135.492 136.785 110.043 1.00 42.61 N HETATM 8407 C4 F2A A 601 134.151 137.022 110.175 1.00 43.18 C HETATM 8408 N3 F2A A 601 133.178 136.126 110.385 1.00 42.01 N HETATM 8409 C2 F2A A 601 131.999 136.718 110.466 1.00 42.39 C HETATM 8410 N1 F2A A 601 131.709 138.014 110.372 1.00 47.29 N HETATM 8411 C6 F2A A 601 132.711 138.893 110.170 1.00 44.96 C HETATM 8412 N6 F2A A 601 132.419 140.178 110.063 1.00 52.20 N HETATM 8413 C5 F2A A 601 134.010 138.382 110.061 1.00 43.18 C HETATM 8414 N7 F2A A 601 135.237 138.983 109.847 1.00 40.40 N HETATM 8415 C8 F2A A 601 136.086 137.997 109.827 1.00 42.09 C HETATM 8416 C2' F2A A 601 135.584 134.630 108.878 1.00 43.09 C HETATM 8417 C3' F2A A 601 136.695 134.742 107.851 1.00 45.54 C HETATM 8418 O3' F2A A 601 136.774 133.565 107.062 1.00 53.65 O HETATM 8419 MG MG A 602 142.139 135.549 105.577 1.00 32.40 MG HETATM 8420 MG MG A 603 142.460 139.116 107.575 1.00 56.68 MG CONECT 875 8420 CONECT 876 8419 8420 CONECT 880 8419 CONECT 1485 8419 CONECT 7717 7746 CONECT 7728 7729 7733 7736 CONECT 7729 7728 7730 7734 CONECT 7730 7729 7731 CONECT 7731 7730 7732 7735 CONECT 7732 7731 7733 CONECT 7733 7728 7732 CONECT 7734 7729 CONECT 7735 7731 CONECT 7736 7728 7737 7742 CONECT 7737 7736 7738 7740 CONECT 7738 7737 7739 CONECT 7739 7738 CONECT 7740 7737 7741 7743 CONECT 7741 7740 7742 7744 CONECT 7742 7736 7741 CONECT 7743 7740 7749 CONECT 7744 7741 7745 CONECT 7745 7744 7746 CONECT 7746 7717 7745 7747 7748 CONECT 7747 7746 CONECT 7748 7746 CONECT 7749 7743 CONECT 7757 7786 CONECT 7768 7769 7773 7776 CONECT 7769 7768 7770 7774 CONECT 7770 7769 7771 CONECT 7771 7770 7772 7775 CONECT 7772 7771 7773 CONECT 7773 7768 7772 CONECT 7774 7769 CONECT 7775 7771 CONECT 7776 7768 7777 7782 CONECT 7777 7776 7778 7780 CONECT 7778 7777 7779 CONECT 7779 7778 CONECT 7780 7777 7781 7783 CONECT 7781 7780 7782 7784 CONECT 7782 7776 7781 CONECT 7783 7780 7789 CONECT 7784 7781 7785 CONECT 7785 7784 7786 CONECT 7786 7757 7785 7787 7788 CONECT 7787 7786 CONECT 7788 7786 CONECT 7789 7783 CONECT 8374 8420 CONECT 8389 8390 8391 8392 8393 CONECT 8390 8389 8420 CONECT 8391 8389 CONECT 8392 8389 8394 CONECT 8393 8389 8402 CONECT 8394 8392 8395 8396 8397 CONECT 8395 8394 CONECT 8396 8394 8419 CONECT 8397 8394 8398 CONECT 8398 8397 8399 8400 8401 CONECT 8399 8398 CONECT 8400 8398 CONECT 8401 8398 8419 CONECT 8402 8393 8403 CONECT 8403 8402 8404 8417 CONECT 8404 8403 8405 CONECT 8405 8404 8406 8416 CONECT 8406 8405 8407 8415 CONECT 8407 8406 8408 8413 CONECT 8408 8407 8409 CONECT 8409 8408 8410 CONECT 8410 8409 8411 CONECT 8411 8410 8412 8413 CONECT 8412 8411 CONECT 8413 8407 8411 8414 CONECT 8414 8413 8415 CONECT 8415 8406 8414 CONECT 8416 8405 8417 CONECT 8417 8403 8416 8418 CONECT 8418 8417 CONECT 8419 876 880 1485 8396 CONECT 8419 8401 CONECT 8420 875 876 8374 8390 MASTER 270 0 5 29 43 0 0 6 8412 3 84 81 END