HEADER VIRAL PROTEIN 04-JUL-21 7P27 TITLE NMR SOLUTION STRUCTURE OF CHIKUNGUNYA VIRUS MACRO DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: POLYPROTEIN P1234; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: P1234,NON-STRUCTURAL POLYPROTEIN; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: FIRST 8 RESIDUES ARE NOT SHOWN AND CORRESPOND TO COMPND 7 SEQUENCE MKHHHHHH SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CHIKUNGUNYA VIRUS (STRAIN S27-AFRICAN SOURCE 3 PROTOTYPE); SOURCE 4 ORGANISM_COMMON: CHIKV; SOURCE 5 ORGANISM_TAXID: 371094; SOURCE 6 STRAIN: S27-AFRICAN PROTOTYPE; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: ROSETTA 2 KEYWDS CHIKV, MACRO DOMAIN, VIRAL REPLICATION, ADP-RIBOSE, VIRAL PROTEIN EXPDTA SOLUTION NMR NUMMDL 21 AUTHOR M.V.LYKOURAS,A.C.TSIKA,N.PAPAGEORGIOU,B.CANARD,B.COUTARD,D.BENTROP, AUTHOR 2 G.A.SPYROULIAS REVDAT 4 19-JUN-24 7P27 1 REMARK REVDAT 3 14-JUN-23 7P27 1 DBREF REVDAT 2 01-FEB-23 7P27 1 JRNL REVDAT 1 13-JUL-22 7P27 0 JRNL AUTH A.C.TSIKA,A.GALLO,N.K.FOURKIOTIS,A.I.ARGYRIOU,S.SREERAMULU, JRNL AUTH 2 F.LOHR,V.V.ROGOV,C.RICHTER,V.LINHARD,S.L.GANDE,N.ALTINCEKIC, JRNL AUTH 3 R.KRISHNATHAS,I.ELAMRI,H.SCHWALBE,J.WOLLENHAUPT,M.S.WEISS, JRNL AUTH 4 G.A.SPYROULIAS JRNL TITL BINDING ADAPTATION OF GS-441524 DIVERSIFIES MACRO DOMAINS JRNL TITL 2 AND DOWNREGULATES SARS-COV-2 DE-MARYLATION CAPACITY. JRNL REF J.MOL.BIOL. V. 434 67720 2022 JRNL REFN ESSN 1089-8638 JRNL PMID 35839840 JRNL DOI 10.1016/J.JMB.2022.167720 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : AMBER REMARK 3 AUTHORS : CASE, DARDEN, CHEATHAM III, SIMMERLING, WANG, REMARK 3 DUKE, LUO, ... AND KOLLMAN REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 7P27 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 04-JUL-21. REMARK 100 THE DEPOSITION ID IS D_1292116814. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7 REMARK 210 IONIC STRENGTH : 20 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 0.6 MM [U-99% 15N] CHIKUNGUNYA REMARK 210 VIRUS MACRO DOMAIN, 20 MM NO REMARK 210 SODIUM CHLORIDE, 10 MM NO HEPES, REMARK 210 2 MM NO DTT, 2 MM NO EDTA, 0.25 REMARK 210 MM NO DSS, 10 % NO D2O, 90% H2O/ REMARK 210 10% D2O; 0.6 MM [U-99% 13C; U-99% REMARK 210 15N] CHIKUNGUNYA VIRUS MACRO REMARK 210 DOMAIN, 20 MM NO SODIUM CHLORIDE, REMARK 210 10 MM NO HEPES, 2 MM NO DTT, 2 REMARK 210 MM NO EDTA, 0.25 MM NO DSS, 10 % REMARK 210 NO D2O, 90% H2O/10% D2O; 0.3 MM REMARK 210 NO CHIKUNGUNYA VIRUS MACRO REMARK 210 DOMAIN, 20 MM NO SODIUM CHLORIDE, REMARK 210 2 MM NO HEPES, 2 MM NO DTT, 2 REMARK 210 MM NO EDTA, 0.25 MM NO DSS, 10 % REMARK 210 NO D2O, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC; REMARK 210 3D HBHA(CO)NH; 3D HNHA; 3D REMARK 210 CBCA(CO)NH; 3D HNCACB; 3D HN(CO) REMARK 210 CA; 3D HNCO; 3D HN(CA)CO; 3D REMARK 210 HCCH-TOCSY; 3D 1H-13C NOESY REMARK 210 ALIPHATIC; 3D 1H-13C NOESY REMARK 210 AROMATIC; 3D 1H-15N NOESY; 2D 1H- REMARK 210 1H NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 700 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE HD-III H 700 MHZ REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CARA V1.5.5, DYANA, TOPSPIN 3.2 REMARK 210 METHOD USED : MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 21 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 21 REMARK 210 CONFORMERS, SELECTION CRITERIA : ALL CALCULATED STRUCTURES REMARK 210 SUBMITTED REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 0 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 9080 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 0.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-21 REMARK 465 RES C SSSEQI REMARK 465 MET A -7 REMARK 465 LYS A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 HIS A -1 REMARK 465 HIS A 0 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 20 TYR A 142 CB - CG - CD1 ANGL. DEV. = -3.8 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 1 ALA A 12 1.61 -66.86 REMARK 500 1 ASN A 14 82.95 82.90 REMARK 500 1 CYS A 18 149.29 -172.97 REMARK 500 1 CYS A 60 55.81 -91.70 REMARK 500 1 TYR A 63 142.80 62.06 REMARK 500 1 PHE A 73 27.01 -70.07 REMARK 500 1 LEU A 109 -165.03 -124.59 REMARK 500 1 THR A 111 52.76 -95.49 REMARK 500 1 SER A 115 -146.39 -84.78 REMARK 500 1 ARG A 144 -74.21 -119.64 REMARK 500 2 ASN A 14 70.62 75.69 REMARK 500 2 CYS A 18 142.87 -171.08 REMARK 500 2 TYR A 63 128.02 83.76 REMARK 500 2 PHE A 73 27.71 -70.51 REMARK 500 2 LEU A 109 -169.13 -125.52 REMARK 500 2 THR A 111 56.00 -108.25 REMARK 500 2 SER A 115 -156.93 -80.83 REMARK 500 3 ASN A 14 76.68 81.17 REMARK 500 3 CYS A 18 146.53 -172.51 REMARK 500 3 TYR A 63 128.56 79.85 REMARK 500 3 PHE A 73 31.07 -71.49 REMARK 500 3 ARG A 144 -73.95 -102.50 REMARK 500 4 ASN A 14 73.94 76.33 REMARK 500 4 CYS A 18 147.59 -172.32 REMARK 500 4 SER A 48 31.27 -92.07 REMARK 500 4 CYS A 60 58.88 -95.62 REMARK 500 4 TYR A 63 129.98 59.09 REMARK 500 4 PHE A 73 26.51 -76.40 REMARK 500 4 LEU A 109 -157.68 -117.56 REMARK 500 4 SER A 115 -144.34 -79.28 REMARK 500 4 ARG A 144 -83.46 -95.84 REMARK 500 5 ASN A 14 75.31 62.00 REMARK 500 5 ASP A 31 -164.31 -129.15 REMARK 500 5 TYR A 63 130.58 67.18 REMARK 500 5 PHE A 73 37.85 -74.77 REMARK 500 5 SER A 115 -103.42 -82.94 REMARK 500 5 ASP A 138 89.41 -69.08 REMARK 500 6 ASN A 14 83.27 82.34 REMARK 500 6 ASP A 31 -169.18 -161.61 REMARK 500 6 TYR A 63 126.64 71.04 REMARK 500 6 PHE A 73 27.05 -67.15 REMARK 500 6 SER A 110 34.50 88.32 REMARK 500 6 THR A 111 58.85 -104.24 REMARK 500 6 ASP A 138 99.97 -69.43 REMARK 500 6 ARG A 144 -64.88 -93.81 REMARK 500 7 ASN A 14 78.98 80.63 REMARK 500 7 CYS A 18 147.27 -172.34 REMARK 500 7 CYS A 60 54.04 -91.31 REMARK 500 7 TYR A 63 133.07 56.18 REMARK 500 7 PHE A 73 35.17 -77.59 REMARK 500 REMARK 500 THIS ENTRY HAS 155 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 LEU A 109 SER A 110 5 143.48 REMARK 500 LEU A 109 SER A 110 7 103.63 REMARK 500 LEU A 109 SER A 110 12 135.64 REMARK 500 LEU A 109 SER A 110 18 111.85 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 1 ARG A 8 0.09 SIDE CHAIN REMARK 500 1 TYR A 76 0.08 SIDE CHAIN REMARK 500 3 TYR A 76 0.07 SIDE CHAIN REMARK 500 9 ARG A 8 0.08 SIDE CHAIN REMARK 500 9 TYR A 76 0.08 SIDE CHAIN REMARK 500 9 ARG A 120 0.08 SIDE CHAIN REMARK 500 10 TYR A 89 0.08 SIDE CHAIN REMARK 500 11 TYR A 76 0.07 SIDE CHAIN REMARK 500 11 TYR A 89 0.07 SIDE CHAIN REMARK 500 12 TYR A 4 0.07 SIDE CHAIN REMARK 500 13 TYR A 4 0.06 SIDE CHAIN REMARK 500 14 TYR A 76 0.10 SIDE CHAIN REMARK 500 17 TYR A 89 0.08 SIDE CHAIN REMARK 500 19 TYR A 89 0.07 SIDE CHAIN REMARK 500 20 TYR A 89 0.08 SIDE CHAIN REMARK 500 21 TYR A 76 0.09 SIDE CHAIN REMARK 500 21 ARG A 159 0.08 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 27158 RELATED DB: BMRB DBREF 7P27 A 1 160 UNP Q8JUX6 POLN_CHIKS 1334 1493 SEQADV 7P27 MET A -7 UNP Q8JUX6 INITIATING METHIONINE SEQADV 7P27 LYS A -6 UNP Q8JUX6 EXPRESSION TAG SEQADV 7P27 HIS A -5 UNP Q8JUX6 EXPRESSION TAG SEQADV 7P27 HIS A -4 UNP Q8JUX6 EXPRESSION TAG SEQADV 7P27 HIS A -3 UNP Q8JUX6 EXPRESSION TAG SEQADV 7P27 HIS A -2 UNP Q8JUX6 EXPRESSION TAG SEQADV 7P27 HIS A -1 UNP Q8JUX6 EXPRESSION TAG SEQADV 7P27 HIS A 0 UNP Q8JUX6 EXPRESSION TAG SEQRES 1 A 168 MET LYS HIS HIS HIS HIS HIS HIS ALA PRO SER TYR ARG SEQRES 2 A 168 VAL LYS ARG MET ASP ILE ALA LYS ASN ASP GLU GLU CYS SEQRES 3 A 168 VAL VAL ASN ALA ALA ASN PRO ARG GLY LEU PRO GLY ASP SEQRES 4 A 168 GLY VAL CYS LYS ALA VAL TYR LYS LYS TRP PRO GLU SER SEQRES 5 A 168 PHE LYS ASN SER ALA THR PRO VAL GLY THR ALA LYS THR SEQRES 6 A 168 VAL MET CYS GLY THR TYR PRO VAL ILE HIS ALA VAL GLY SEQRES 7 A 168 PRO ASN PHE SER ASN TYR SER GLU SER GLU GLY ASP ARG SEQRES 8 A 168 GLU LEU ALA ALA ALA TYR ARG GLU VAL ALA LYS GLU VAL SEQRES 9 A 168 THR ARG LEU GLY VAL ASN SER VAL ALA ILE PRO LEU LEU SEQRES 10 A 168 SER THR GLY VAL TYR SER GLY GLY LYS ASP ARG LEU THR SEQRES 11 A 168 GLN SER LEU ASN HIS LEU PHE THR ALA MET ASP SER THR SEQRES 12 A 168 ASP ALA ASP VAL VAL ILE TYR CYS ARG ASP LYS GLU TRP SEQRES 13 A 168 GLU LYS LYS ILE SER GLU ALA ILE GLN MET ARG THR HELIX 1 AA1 ASP A 10 ASN A 14 5 5 HELIX 2 AA2 GLY A 32 TRP A 41 1 10 HELIX 3 AA3 TRP A 41 LYS A 46 1 6 HELIX 4 AA4 ASN A 72 TYR A 76 5 5 HELIX 5 AA5 SER A 77 GLY A 100 1 24 HELIX 6 AA6 ARG A 120 SER A 134 1 15 HELIX 7 AA7 ASP A 145 ARG A 159 1 15 SHEET 1 AA1 3 TYR A 4 LYS A 7 0 SHEET 2 AA1 3 ASP A 138 TYR A 142 1 O ILE A 141 N ARG A 5 SHEET 3 AA1 3 SER A 103 PRO A 107 1 N VAL A 104 O VAL A 140 SHEET 1 AA2 3 VAL A 19 ALA A 22 0 SHEET 2 AA2 3 PRO A 64 ALA A 68 1 O ILE A 66 N ASN A 21 SHEET 3 AA2 3 ALA A 55 MET A 59 -1 N VAL A 58 O VAL A 65 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 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 MODEL 1