HEADER VIRAL PROTEIN 11-MAR-24 9EMV TITLE SARS-COV-2 NSP10-16 METHYLTRANSFERASE IN COMPLEX WITH SANGIVAMYCIN AND TITLE 2 M7GPPPA (CAP0-ANALOG)/M7GPPPAM (CAP1-ANALOG) COMPND MOL_ID: 1; COMPND 2 MOLECULE: 2'-O-METHYLTRANSFERASE NSP16; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: NON-STRUCTURAL PROTEIN 16,NSP16; COMPND 5 EC: 2.1.1.57; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: NON-STRUCTURAL PROTEIN 10; COMPND 9 CHAIN: B; COMPND 10 SYNONYM: NSP10,GROWTH FACTOR-LIKE PEPTIDE,GFL; COMPND 11 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SEVERE ACUTE RESPIRATORY SYNDROME CORONAVIRUS SOURCE 3 2; SOURCE 4 ORGANISM_TAXID: 2697049; SOURCE 5 GENE: REP, 1A-1B; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: SEVERE ACUTE RESPIRATORY SYNDROME CORONAVIRUS SOURCE 10 2; SOURCE 11 ORGANISM_TAXID: 2697049; SOURCE 12 GENE: REP, 1A-1B; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 14 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS METHYLTRANSFERASE, COMPLEX, INHIBITOR, VIRAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR V.KREMLING,J.SPRENGER,D.OBERTHUER,T.E.S.SCHEER REVDAT 2 13-NOV-24 9EMV 1 JRNL ATOM REVDAT 1 20-MAR-24 9EMV 0 JRNL AUTH V.KREMLING,S.FALKE,Y.FERNANDEZ-GARCIA,C.EHRT,A.KIENE, JRNL AUTH 2 B.KLOPPROGGE,E.SCHEER,F.BARTHELS,P.MIDDENDORF,S.KUHN, JRNL AUTH 3 S.GUNTHER,M.RAREY,H.N.CHAPMAN,D.OBERTHUR,J.SPRENGER JRNL TITL SARS-COV-2 METHYLTRANSFERASE NSP10-16 IN COMPLEX WITH JRNL TITL 2 NATURAL AND DRUG-LIKE PURINE ANALOGS FOR GUIDING JRNL TITL 3 STRUCTURE-BASED DRUG DISCOVERY JRNL REF ELIFE 2024 JRNL REFN ESSN 2050-084X JRNL DOI 10.7554/ELIFE.98310.1 REMARK 2 REMARK 2 RESOLUTION. 2.34 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.07 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 + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.34 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.48 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 36355 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.205 REMARK 3 R VALUE (WORKING SET) : 0.203 REMARK 3 FREE R VALUE : 0.256 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.980 REMARK 3 FREE R VALUE TEST SET COUNT : 1811 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 44.4800 - 5.5000 1.00 2781 146 0.1786 0.2074 REMARK 3 2 5.5000 - 4.3700 1.00 2692 142 0.1431 0.1635 REMARK 3 3 4.3700 - 3.8100 1.00 2694 142 0.1485 0.2546 REMARK 3 4 3.8100 - 3.4700 1.00 2635 138 0.1851 0.2121 REMARK 3 5 3.4700 - 3.2200 1.00 2669 140 0.2063 0.2886 REMARK 3 6 3.2200 - 3.0300 1.00 2663 140 0.2158 0.2952 REMARK 3 7 3.0300 - 2.8800 1.00 2638 139 0.2346 0.3211 REMARK 3 8 2.8800 - 2.7500 1.00 2633 139 0.2833 0.3380 REMARK 3 9 2.7500 - 2.6500 1.00 2651 138 0.2850 0.4254 REMARK 3 10 2.6500 - 2.5500 1.00 2643 138 0.3008 0.3280 REMARK 3 11 2.5500 - 2.4700 1.00 2620 137 0.3166 0.3745 REMARK 3 12 2.4700 - 2.4000 0.99 2635 136 0.3347 0.3761 REMARK 3 13 2.4000 - 2.3400 0.98 2590 136 0.3764 0.3871 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 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) : 0.433 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 31.994 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 48.62 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 58.75 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 : 0.013 3511 REMARK 3 ANGLE : 1.370 4777 REMARK 3 CHIRALITY : 0.056 526 REMARK 3 PLANARITY : 0.011 583 REMARK 3 DIHEDRAL : 16.696 476 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 9EMV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 11-MAR-24. REMARK 100 THE DEPOSITION ID IS D_1292137110. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-JUL-23 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PETRA III, DESY REMARK 200 BEAMLINE : P11 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.826561 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS 1.20.1_4487 REMARK 200 DATA SCALING SOFTWARE : XDS 1.20.1_4487 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 36510 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.340 REMARK 200 RESOLUTION RANGE LOW (A) : 44.480 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 23.20 REMARK 200 R MERGE (I) : 0.39120 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 6.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.34 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.42 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.4 REMARK 200 DATA REDUNDANCY IN SHELL : 23.20 REMARK 200 R MERGE FOR SHELL (I) : 0.39120 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 0.480 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX 1.07 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 72.18 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.42 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 400 MM SODIUM FLUORIDE, 100 MM 2-(N REMARK 280 -MORPHOLINO)ETHANESULFONIC ACID, PH 6.5, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 293.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 17.41667 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 34.83333 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 34.83333 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 17.41667 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4590 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19670 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 12.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 SER A 6799 REMARK 465 TYR A 7100 REMARK 465 PHE A 7101 REMARK 465 GLN A 7102 REMARK 465 GLY B 4253 REMARK 465 ALA B 4254 REMARK 465 GLY B 4255 REMARK 465 ASN B 4256 REMARK 465 ALA B 4257 REMARK 465 THR B 4258 REMARK 465 GLU B 4259 REMARK 465 VAL B 4260 REMARK 465 PRO B 4261 REMARK 465 ALA B 4262 REMARK 465 ASN B 4263 REMARK 465 SER B 4264 REMARK 465 THR B 4265 REMARK 465 VAL B 4266 REMARK 465 LEU B 4267 REMARK 465 SER B 4268 REMARK 465 PHE B 4269 REMARK 465 CYS B 4270 REMARK 465 LEU B 4386 REMARK 465 ARG B 4387 REMARK 465 GLU B 4388 REMARK 465 PRO B 4389 REMARK 465 MET B 4390 REMARK 465 LEU B 4391 REMARK 465 GLN B 4392 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 OD1 ASN A 7066 H MET A 7068 1.45 REMARK 500 OD1 ASN A 7066 N MET A 7068 2.13 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 LEU A6981 CB - CG - CD2 ANGL. DEV. = -10.8 DEGREES REMARK 500 MET A6982 CG - SD - CE ANGL. DEV. = 16.3 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 THR A6856 56.28 -90.80 REMARK 500 ALA A6877 75.38 -118.13 REMARK 500 GLU A6945 -120.43 -100.79 REMARK 500 ASN A7008 92.32 67.55 REMARK 500 ARG A7081 163.74 173.27 REMARK 500 PRO B4353 130.69 -38.14 REMARK 500 VAL B4372 -64.00 -99.35 REMARK 500 TYR B4379 45.65 -142.05 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 A7421 DISTANCE = 6.34 ANGSTROMS 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 ZN B4401 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B4327 SG REMARK 620 2 CYS B4330 SG 112.6 REMARK 620 3 HIS B4336 NE2 112.6 112.5 REMARK 620 4 CYS B4343 SG 109.3 108.9 100.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B4402 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B4370 SG REMARK 620 2 CYS B4373 SG 117.0 REMARK 620 3 CYS B4381 SG 107.2 112.2 REMARK 620 4 CYS B4383 SG 110.8 102.8 106.2 REMARK 620 N 1 2 3 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 8BSD RELATED DB: PDB REMARK 900 8BSD CONTAINS THE SAME PROTEIN COMPLEX WITH TUBERCIDIN REMARK 900 RELATED ID: 8BZV RELATED DB: PDB REMARK 900 8BZV CONTAINS THE SAME PROTEIN COMPLEX WITH ADENOSINE REMARK 900 RELATED ID: 8C5M RELATED DB: PDB REMARK 900 8C5M CONTAINS THE SAME PROTEIN COMPLEX WITH MTA REMARK 900 RELATED ID: 8OT0 RELATED DB: PDB REMARK 900 8OT0 CONTAINS THE SAME PROTEIN COMPLEX WITH MTA+GLY REMARK 900 RELATED ID: 8OSX RELATED DB: PDB REMARK 900 8OSX CONTAINS THE SAME PROTEIN COMPLEX WITH ATP REMARK 900 RELATED ID: 8OV1 RELATED DB: PDB REMARK 900 8OV1 CONTAINS THE SAME PROTEIN COMPLEX WITH ADP REMARK 900 RELATED ID: 8OTR RELATED DB: PDB REMARK 900 8OTR CONTAINS THE SAME PROTEIN COMPLEX WITH SAM ANALOG BDH 33959089 DBREF 9EMV A 6799 7096 UNP P0DTD1 R1AB_SARS2 6799 7096 DBREF 9EMV B 4254 4392 UNP P0DTD1 R1AB_SARS2 4254 4392 SEQADV 9EMV GLU A 7097 UNP P0DTD1 EXPRESSION TAG SEQADV 9EMV ASN A 7098 UNP P0DTD1 EXPRESSION TAG SEQADV 9EMV LEU A 7099 UNP P0DTD1 EXPRESSION TAG SEQADV 9EMV TYR A 7100 UNP P0DTD1 EXPRESSION TAG SEQADV 9EMV PHE A 7101 UNP P0DTD1 EXPRESSION TAG SEQADV 9EMV GLN A 7102 UNP P0DTD1 EXPRESSION TAG SEQADV 9EMV GLY B 4253 UNP P0DTD1 EXPRESSION TAG SEQRES 1 A 304 SER SER GLN ALA TRP GLN PRO GLY VAL ALA MET PRO ASN SEQRES 2 A 304 LEU TYR LYS MET GLN ARG MET LEU LEU GLU LYS CYS ASP SEQRES 3 A 304 LEU GLN ASN TYR GLY ASP SER ALA THR LEU PRO LYS GLY SEQRES 4 A 304 ILE MET MET ASN VAL ALA LYS TYR THR GLN LEU CYS GLN SEQRES 5 A 304 TYR LEU ASN THR LEU THR LEU ALA VAL PRO TYR ASN MET SEQRES 6 A 304 ARG VAL ILE HIS PHE GLY ALA GLY SER ASP LYS GLY VAL SEQRES 7 A 304 ALA PRO GLY THR ALA VAL LEU ARG GLN TRP LEU PRO THR SEQRES 8 A 304 GLY THR LEU LEU VAL ASP SER ASP LEU ASN ASP PHE VAL SEQRES 9 A 304 SER ASP ALA ASP SER THR LEU ILE GLY ASP CYS ALA THR SEQRES 10 A 304 VAL HIS THR ALA ASN LYS TRP ASP LEU ILE ILE SER ASP SEQRES 11 A 304 MET TYR ASP PRO LYS THR LYS ASN VAL THR LYS GLU ASN SEQRES 12 A 304 ASP SER LYS GLU GLY PHE PHE THR TYR ILE CYS GLY PHE SEQRES 13 A 304 ILE GLN GLN LYS LEU ALA LEU GLY GLY SER VAL ALA ILE SEQRES 14 A 304 LYS ILE THR GLU HIS SER TRP ASN ALA ASP LEU TYR LYS SEQRES 15 A 304 LEU MET GLY HIS PHE ALA TRP TRP THR ALA PHE VAL THR SEQRES 16 A 304 ASN VAL ASN ALA SER SER SER GLU ALA PHE LEU ILE GLY SEQRES 17 A 304 CYS ASN TYR LEU GLY LYS PRO ARG GLU GLN ILE ASP GLY SEQRES 18 A 304 TYR VAL MET HIS ALA ASN TYR ILE PHE TRP ARG ASN THR SEQRES 19 A 304 ASN PRO ILE GLN LEU SER SER TYR SER LEU PHE ASP MET SEQRES 20 A 304 SER LYS PHE PRO LEU LYS LEU ARG GLY THR ALA VAL MET SEQRES 21 A 304 SER LEU LYS GLU GLY GLN ILE ASN ASP MET ILE LEU SER SEQRES 22 A 304 LEU LEU SER LYS GLY ARG LEU ILE ILE ARG GLU ASN ASN SEQRES 23 A 304 ARG VAL VAL ILE SER SER ASP VAL LEU VAL ASN ASN GLU SEQRES 24 A 304 ASN LEU TYR PHE GLN SEQRES 1 B 140 GLY ALA GLY ASN ALA THR GLU VAL PRO ALA ASN SER THR SEQRES 2 B 140 VAL LEU SER PHE CYS ALA PHE ALA VAL ASP ALA ALA LYS SEQRES 3 B 140 ALA TYR LYS ASP TYR LEU ALA SER GLY GLY GLN PRO ILE SEQRES 4 B 140 THR ASN CYS VAL LYS MET LEU CYS THR HIS THR GLY THR SEQRES 5 B 140 GLY GLN ALA ILE THR VAL THR PRO GLU ALA ASN MET ASP SEQRES 6 B 140 GLN GLU SER PHE GLY GLY ALA SER CYS CYS LEU TYR CYS SEQRES 7 B 140 ARG CYS HIS ILE ASP HIS PRO ASN PRO LYS GLY PHE CYS SEQRES 8 B 140 ASP LEU LYS GLY LYS TYR VAL GLN ILE PRO THR THR CYS SEQRES 9 B 140 ALA ASN ASP PRO VAL GLY PHE THR LEU LYS ASN THR VAL SEQRES 10 B 140 CYS THR VAL CYS GLY MET TRP LYS GLY TYR GLY CYS SER SEQRES 11 B 140 CYS ASP GLN LEU ARG GLU PRO MET LEU GLN HET SGV A7201 37 HET GTA A7202 78 HET MES A7203 25 HET SAH A7204 45 HET EDO A7205 10 HET EDO A7206 10 HET EDO A7207 10 HET EDO A7208 10 HET EDO A7209 10 HET EDO A7210 10 HET V9G A7211 81 HET ZN B4401 1 HET ZN B4402 1 HET EDO B4403 10 HET EDO B4404 10 HETNAM SGV SANGIVAMYCIN HETNAM GTA P1-7-METHYLGUANOSINE-P3-ADENOSINE-5',5'-TRIPHOSPHATE HETNAM MES 2-(N-MORPHOLINO)-ETHANESULFONIC ACID HETNAM SAH S-ADENOSYL-L-HOMOCYSTEINE HETNAM EDO 1,2-ETHANEDIOL HETNAM V9G 7-METHYL-GUANOSINE-5'-TRIPHOSPHATE-5'-(2'-O-METHYL)- HETNAM 2 V9G ADENOSINE HETNAM ZN ZINC ION HETSYN SGV 4-AMINO-7-BETA-D-RIBOFURANOSYL-7H-PYRROLO[2,3- HETSYN 2 SGV D]PYRIMIDINE-5-CARBOXAMIDE HETSYN GTA 7-METHYL-GPPPA HETSYN EDO ETHYLENE GLYCOL FORMUL 3 SGV C12 H15 N5 O5 FORMUL 4 GTA C21 H30 N10 O17 P3 1+ FORMUL 5 MES C6 H13 N O4 S FORMUL 6 SAH C14 H20 N6 O5 S FORMUL 7 EDO 8(C2 H6 O2) FORMUL 13 V9G C22 H32 N10 O17 P3 FORMUL 14 ZN 2(ZN 2+) FORMUL 18 HOH *151(H2 O) HELIX 1 AA1 SER A 6800 GLN A 6804 5 5 HELIX 2 AA2 PRO A 6810 MET A 6815 1 6 HELIX 3 AA3 MET A 6839 ASN A 6853 1 15 HELIX 4 AA4 ALA A 6877 LEU A 6887 1 11 HELIX 5 AA5 ASP A 6912 ALA A 6914 5 3 HELIX 6 AA6 ASP A 6931 ASN A 6936 5 6 HELIX 7 AA7 GLY A 6946 LYS A 6958 1 13 HELIX 8 AA8 ASN A 6975 GLY A 6983 1 9 HELIX 9 AA9 VAL A 6995 ALA A 6997 5 3 HELIX 10 AB1 ASP A 7018 ASN A 7033 1 16 HELIX 11 AB2 SER A 7039 PHE A 7043 5 5 HELIX 12 AB3 ASN A 7066 LYS A 7075 1 10 HELIX 13 AB4 ASP B 4275 SER B 4286 1 12 HELIX 14 AB5 ALA B 4324 CYS B 4326 5 3 HELIX 15 AB6 CYS B 4327 CYS B 4332 1 6 HELIX 16 AB7 THR B 4355 ALA B 4357 5 3 HELIX 17 AB8 ASP B 4359 ASN B 4367 1 9 SHEET 1 AA1 8 GLY A6806 ALA A6808 0 SHEET 2 AA1 8 PHE A6985 THR A6993 -1 O VAL A6992 N VAL A6807 SHEET 3 AA1 8 ALA A7002 TYR A7009 -1 O CYS A7007 N TRP A6987 SHEET 4 AA1 8 LEU A6959 ILE A6969 -1 N ILE A6969 O ALA A7002 SHEET 5 AA1 8 TRP A6922 SER A6927 1 N TRP A6922 O ALA A6960 SHEET 6 AA1 8 ARG A6864 PHE A6868 1 N PHE A6868 O ILE A6926 SHEET 7 AA1 8 LEU A6892 ASP A6897 1 O LEU A6892 N VAL A6865 SHEET 8 AA1 8 SER A6907 ILE A6910 1 O SER A6907 N ASP A6895 SHEET 1 AA2 2 VAL A6916 THR A6918 0 SHEET 2 AA2 2 ILE A7088 SER A7090 -1 O SER A7089 N HIS A6917 SHEET 1 AA3 2 ALA A7056 MET A7058 0 SHEET 2 AA3 2 LEU A7078 ILE A7080 1 O ILE A7079 N ALA A7056 SHEET 1 AA4 3 ILE B4308 THR B4309 0 SHEET 2 AA4 3 TYR B4349 PRO B4353 -1 O TYR B4349 N THR B4309 SHEET 3 AA4 3 GLN B4318 GLY B4322 -1 N GLU B4319 O ILE B4352 LINK SG CYS B4327 ZN ZN B4401 1555 1555 2.29 LINK SG CYS B4330 ZN ZN B4401 1555 1555 2.32 LINK NE2 HIS B4336 ZN ZN B4401 1555 1555 2.08 LINK SG CYS B4343 ZN ZN B4401 1555 1555 2.34 LINK SG CYS B4370 ZN ZN B4402 1555 1555 2.30 LINK SG CYS B4373 ZN ZN B4402 1555 1555 2.34 LINK SG CYS B4381 ZN ZN B4402 1555 1555 2.19 LINK SG CYS B4383 ZN ZN B4402 1555 1555 2.45 CRYST1 169.510 169.510 52.250 90.00 90.00 120.00 P 31 2 1 6 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 0.005899 0.003406 0.000000 0.00000 SCALE2 0.000000 0.006812 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019139 0.00000