HEADER VIRAL PROTEIN 10-MAR-16 5IQ5 TITLE NMR SOLUTION STRUCTURE OF MAYARO VIRUS MACRO DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: MACRO DOMAIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: POLYPROTEIN NSP1234,P1234; COMPND 5 EC: 2.1.1.-,2.7.7.-,3.1.3.33,3.4.22.-,3.6.1.15,3.6.4.13,2.7.7.48; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MAYARO VIRUS (STRAIN BRAZIL); SOURCE 3 ORGANISM_COMMON: MAYV; SOURCE 4 ORGANISM_TAXID: 374990; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_VARIANT: ROSETTA 2, PLYSS, DL39; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PDEST14 KEYWDS VIRAL MACRO DOMAINS, MAYARO VIRUS, ALPHAVIRUS, ADP RIBOSE BINDING KEYWDS 2 MODULE, VIRAL PROTEIN EXPDTA SOLUTION NMR NUMMDL 21 AUTHOR E.MELEKIS,A.C.TSIKA,D.BENTROP,N.PAPAGEORGIOU,B.COUTARD,G.A.SPYROULIAS REVDAT 7 19-JUN-24 5IQ5 1 REMARK REVDAT 6 11-SEP-19 5IQ5 1 REMARK REVDAT 5 19-JUN-19 5IQ5 1 JRNL REVDAT 4 08-MAY-19 5IQ5 1 REMARK REVDAT 3 01-MAY-19 5IQ5 1 JRNL REVDAT 2 17-JAN-18 5IQ5 1 KEYWDS REVDAT 1 20-DEC-17 5IQ5 0 JRNL AUTH A.C.TSIKA,E.MELEKIS,S.A.TSATSOULI,N.PAPAGEORGIOU,M.J.MATE, JRNL AUTH 2 B.CANARD,B.COUTARD,D.BENTROP,G.A.SPYROULIAS JRNL TITL DECIPHERING THE NUCLEOTIDE AND RNA BINDING SELECTIVITY OF JRNL TITL 2 THE MAYARO VIRUS MACRO DOMAIN. JRNL REF J.MOL.BIOL. V. 431 2283 2019 JRNL REFN ESSN 1089-8638 JRNL PMID 30998933 JRNL DOI 10.1016/J.JMB.2019.04.013 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH E.MELEKIS,A.C.TSIKA,J.LICHIERE,C.T.CHASAPIS,I.MARGIOLAKI, REMARK 1 AUTH 2 N.PAPAGEORGIOU,B.COUTARD,D.BENTROP,G.A.SPYROULIAS REMARK 1 TITL NMR STUDY OF NON-STRUCTURAL PROTEINS--PART I: (1)H, (13)C, REMARK 1 TITL 2 (15)N BACKBONE AND SIDE-CHAIN RESONANCE ASSIGNMENT OF MACRO REMARK 1 TITL 3 DOMAIN FROM MAYARO VIRUS (MAYV). REMARK 1 REF BIOMOL NMR ASSIGN V. 9 191 2015 REMARK 1 REFN ESSN 1874-270X REMARK 1 PMID 25217003 REMARK 1 DOI 10.1007/S12104-014-9572-0 REMARK 1 REFERENCE 2 REMARK 1 AUTH G.I.MAKRYNITSA,D.NTONTI,K.D.MAROUSIS,A.C.TSIKA,J.LICHIERE, REMARK 1 AUTH 2 N.PAPAGEORGIOU,B.COUTARD,D.BENTROP,G.A.SPYROULIAS REMARK 1 TITL NMR STUDY OF NON-STRUCTURAL PROTEINS--PART II: (1)H, (13)C, REMARK 1 TITL 2 (15)N BACKBONE AND SIDE-CHAIN RESONANCE ASSIGNMENT OF MACRO REMARK 1 TITL 3 DOMAIN FROM VENEZUELAN EQUINE ENCEPHALITIS VIRUS (VEEV). REMARK 1 REF BIOMOL NMR ASSIGN V. 9 247 2015 REMARK 1 REFN ESSN 1874-270X REMARK 1 PMID 25291978 REMARK 1 DOI 10.1007/S12104-014-9584-9 REMARK 1 REFERENCE 3 REMARK 1 AUTH N.PAPAGEORGIOU,Y.WATIER,L.SAUNDERS,B.COUTARD,V.LANTEZ, REMARK 1 AUTH 2 E.A.GOULD,A.N.FITCH,J.P.WRIGHT,B.CANARD,I.MARGIOLAKI REMARK 1 TITL PRELIMINARY INSIGHTS INTO THE NON STRUCTURAL PROTEIN 3 MACRO REMARK 1 TITL 2 DOMAIN OF THE MAYARO VIRUS BY POWDER DIFFRACTION REMARK 1 REF ZEITSCHFRIFT FUR V. 225 576 2010 REMARK 1 REF 2 KRISTALLOGRAPHIE REMARK 1 REFN ISSN 0044-2968 REMARK 1 DOI 10.1524/ZKRI.2010.1348 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 5IQ5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 14-MAR-16. REMARK 100 THE DEPOSITION ID IS D_1000217693. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298; 298 REMARK 210 PH : 7; 7 REMARK 210 IONIC STRENGTH : 20; 20 REMARK 210 PRESSURE : 1 ATM; 1 ATM REMARK 210 SAMPLE CONTENTS : 0.4 MM MAYARO VIRUS' MACRO REMARK 210 DOMAIN, 90% H2O/10% D2O; 0.4 MM REMARK 210 [U-99% 15N] MAYARO VIRUS' MACRO REMARK 210 DOMAIN, 90% H2O/10% D2O; 0.4 MM REMARK 210 [U-99% 13C; U-99% 15N] MAYARO REMARK 210 VIRUS' MACRO DOMAIN, 90% H2O/10% REMARK 210 D2O; 0.4 MM [U-15N]-ALA-LEU-VAL REMARK 210 MAYARO VIRUS' MACRO DOMAIN, 90% REMARK 210 H2O/10% D2O; 0.4 MM [U-14N]-ARG REMARK 210 MAYARO VIRUS' MACRO DOMAIN, 90% REMARK 210 H2O/10% D2O; 0.4 MM [U-14N]-ASN- REMARK 210 CYS MAYARO VIRUS' MACRO DOMAIN, REMARK 210 90% H2O/10% D2O; 0.4 MM [U-100% REMARK 210 13C; U-100% 15N; U-80% 2H] REMARK 210 MAYARO VIRUS' MACRO DOMAIN, 90% REMARK 210 H2O/10% D2O; 0.5 MM MAYARO VIRUS' REMARK 210 MACRO DOMAIN, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D 1H-15N NOESY; REMARK 210 3D HNHA; 3D CBCA(CO)NH; 3D 1H- REMARK 210 13C NOESY ALIPHATIC; 3D 1H-13C REMARK 210 NOESY AROMATIC; 3D HNCO; 3D REMARK 210 HN(CA)CO; 3D HNCA; 3D HCCH-TOCSY; REMARK 210 3D HN(CO)CA; 2D 1H-13C HSQC; 2D REMARK 210 1H-15N HSQC TROSY; 3D HNCACB; 3D REMARK 210 HBHA(CO)NH; 2D 1H-1H NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 700 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : TOPSPIN 3.3, TOPSPIN 3.2, CARA REMARK 210 1.5.5, XEASY, DYANA, CYANA 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 : TARGET FUNCTION 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: 8800 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 0 REMARK 465 HIS A 160 REMARK 465 HIS A 161 REMARK 465 HIS A 162 REMARK 465 HIS A 163 REMARK 465 HIS A 164 REMARK 465 HIS A 165 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 -52.29 -165.79 REMARK 500 1 THR A 13 40.14 -86.01 REMARK 500 1 HIS A 25 -66.33 137.73 REMARK 500 1 CYS A 34 -52.40 -154.95 REMARK 500 1 ASP A 61 -77.96 -139.08 REMARK 500 1 ASN A 75 22.30 -142.11 REMARK 500 1 SER A 110 59.05 133.04 REMARK 500 1 LYS A 118 86.65 -61.69 REMARK 500 1 CYS A 143 -96.95 -150.68 REMARK 500 1 ASP A 145 25.39 -77.00 REMARK 500 2 PRO A 2 -87.37 -73.24 REMARK 500 2 ILE A 11 92.17 -67.30 REMARK 500 2 ALA A 12 -55.01 -167.53 REMARK 500 2 THR A 13 46.13 -97.89 REMARK 500 2 HIS A 25 -94.65 146.84 REMARK 500 2 ARG A 26 44.07 -87.52 REMARK 500 2 VAL A 33 171.32 60.19 REMARK 500 2 CYS A 34 -84.33 57.97 REMARK 500 2 ALA A 48 45.49 -109.24 REMARK 500 2 CYS A 60 -93.09 -80.80 REMARK 500 2 ASP A 61 -73.12 -91.00 REMARK 500 2 LEU A 109 -173.62 -56.97 REMARK 500 2 THR A 111 89.19 -154.01 REMARK 500 2 PHE A 114 38.76 -98.40 REMARK 500 2 ALA A 116 -79.16 66.13 REMARK 500 2 THR A 134 21.74 -79.14 REMARK 500 2 CYS A 143 66.28 -155.22 REMARK 500 2 ARG A 144 -173.94 63.59 REMARK 500 3 ILE A 11 99.01 -66.10 REMARK 500 3 ALA A 12 -45.45 -171.10 REMARK 500 3 ASP A 31 -67.21 -157.13 REMARK 500 3 ASP A 61 -75.08 -131.16 REMARK 500 3 SER A 110 78.13 61.12 REMARK 500 3 PHE A 114 48.96 38.99 REMARK 500 3 ASP A 119 74.31 60.41 REMARK 500 3 CYS A 143 -87.16 -149.45 REMARK 500 3 ASP A 145 48.22 -80.79 REMARK 500 4 ARG A 8 79.29 -110.84 REMARK 500 4 ILE A 11 92.77 -64.68 REMARK 500 4 ALA A 12 -46.35 -174.50 REMARK 500 4 ASN A 24 50.71 -97.77 REMARK 500 4 HIS A 25 -52.72 76.55 REMARK 500 4 CYS A 34 -51.63 -146.16 REMARK 500 4 TRP A 41 54.71 -144.56 REMARK 500 4 ASN A 47 63.06 -150.96 REMARK 500 4 CYS A 60 -130.94 -83.27 REMARK 500 4 ASP A 61 -73.26 -66.55 REMARK 500 4 SER A 100 62.38 60.62 REMARK 500 4 SER A 110 69.69 -164.99 REMARK 500 4 THR A 111 -52.50 -159.41 REMARK 500 REMARK 500 THIS ENTRY HAS 334 RAMACHANDRAN OUTLIERS. 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 2 TYR A 89 0.08 SIDE CHAIN REMARK 500 2 ARG A 159 0.12 SIDE CHAIN REMARK 500 5 TYR A 89 0.10 SIDE CHAIN REMARK 500 7 TYR A 89 0.09 SIDE CHAIN REMARK 500 7 ARG A 159 0.11 SIDE CHAIN REMARK 500 9 TYR A 89 0.10 SIDE CHAIN REMARK 500 10 ARG A 144 0.08 SIDE CHAIN REMARK 500 12 ARG A 159 0.12 SIDE CHAIN REMARK 500 13 TYR A 89 0.09 SIDE CHAIN REMARK 500 14 ARG A 159 0.12 SIDE CHAIN REMARK 500 17 TYR A 64 0.07 SIDE CHAIN REMARK 500 17 TYR A 89 0.09 SIDE CHAIN REMARK 500 18 TYR A 89 0.08 SIDE CHAIN REMARK 500 18 ARG A 159 0.08 SIDE CHAIN REMARK 500 21 ARG A 8 0.13 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 30043 RELATED DB: BMRB REMARK 900 RELATED ID: 30043 RELATED DB: BMRB DBREF 5IQ5 A 1 159 UNP Q8QZ73 POLN_MAYAB 1335 1493 SEQADV 5IQ5 MET A 0 UNP Q8QZ73 INITIATING METHIONINE SEQADV 5IQ5 THR A 5 UNP Q8QZ73 ALA 1339 CONFLICT SEQADV 5IQ5 HIS A 160 UNP Q8QZ73 EXPRESSION TAG SEQADV 5IQ5 HIS A 161 UNP Q8QZ73 EXPRESSION TAG SEQADV 5IQ5 HIS A 162 UNP Q8QZ73 EXPRESSION TAG SEQADV 5IQ5 HIS A 163 UNP Q8QZ73 EXPRESSION TAG SEQADV 5IQ5 HIS A 164 UNP Q8QZ73 EXPRESSION TAG SEQADV 5IQ5 HIS A 165 UNP Q8QZ73 EXPRESSION TAG SEQRES 1 A 166 MET ALA PRO ALA TYR THR VAL LYS ARG ALA ASP ILE ALA SEQRES 2 A 166 THR ALA ILE GLU ASP ALA VAL VAL ASN ALA ALA ASN HIS SEQRES 3 A 166 ARG GLY GLN VAL GLY ASP GLY VAL CYS ARG ALA VAL ALA SEQRES 4 A 166 ARG LYS TRP PRO GLN ALA PHE ARG ASN ALA ALA THR PRO SEQRES 5 A 166 VAL GLY THR ALA LYS THR VAL LYS CYS ASP GLU THR TYR SEQRES 6 A 166 ILE ILE HIS ALA VAL GLY PRO ASN PHE ASN ASN THR SER SEQRES 7 A 166 GLU ALA GLU GLY ASP ARG ASP LEU ALA ALA ALA TYR ARG SEQRES 8 A 166 ALA VAL ALA ALA GLU ILE ASN ARG LEU SER ILE SER SER SEQRES 9 A 166 VAL ALA ILE PRO LEU LEU SER THR GLY ILE PHE SER ALA SEQRES 10 A 166 GLY LYS ASP ARG VAL HIS GLN SER LEU SER HIS LEU LEU SEQRES 11 A 166 ALA ALA MET ASP THR THR GLU ALA ARG VAL THR ILE TYR SEQRES 12 A 166 CYS ARG ASP LYS THR TRP GLU GLN LYS ILE LYS THR VAL SEQRES 13 A 166 LEU GLN ASN ARG HIS HIS HIS HIS HIS HIS HELIX 1 AA1 CYS A 34 TRP A 41 1 8 HELIX 2 AA2 TRP A 41 ARG A 46 1 6 HELIX 3 AA3 ASN A 72 THR A 76 5 5 HELIX 4 AA4 SER A 77 SER A 100 1 24 HELIX 5 AA5 ARG A 120 ASP A 133 1 14 HELIX 6 AA6 LYS A 146 ARG A 159 1 14 SHEET 1 AA1 6 ALA A 3 ASP A 10 0 SHEET 2 AA1 6 ARG A 138 CYS A 143 1 O VAL A 139 N ALA A 3 SHEET 3 AA1 6 SER A 103 PRO A 107 1 N ILE A 106 O THR A 140 SHEET 4 AA1 6 ALA A 18 ALA A 23 1 N VAL A 20 O ALA A 105 SHEET 5 AA1 6 TYR A 64 VAL A 69 1 O ILE A 66 N VAL A 19 SHEET 6 AA1 6 ALA A 55 LYS A 59 -1 N VAL A 58 O ILE 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 0.001000 0.000000 0.000000 0.00000 SCALE2 0.000000 0.001000 0.000000 0.00000 SCALE3 0.000000 0.000000 0.001000 0.00000 MODEL 1