HEADER VIRAL PROTEIN 08-AUG-22 8AOU TITLE SOLUTION NMR STRUCTURE OF FULL-LENGTH NSP1 FROM SARS-COV-2. COMPND MOL_ID: 1; COMPND 2 MOLECULE: HOST TRANSLATION INHIBITOR NSP1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: LEADER PROTEIN,NON-STRUCTURAL PROTEIN 1,NSP1; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: THE FIRST TWO RESIDUES (GA) IN THE PROTEIN CONSTRUCT COMPND 7 USED ARE CLONING ARTIFACTS. THEREFORE, THE APPROPRIATE RESIDUE COMPND 8 NUMBERING HAS THE FIRST RESIDUE (G) DESIGNATED AS RESIDUE-NUMBER '- COMPND 9 1', SO THAT THE THIRD RESIDUE HAS RESIDUE-NUMBER '1'. 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; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PETM11 KEYWDS NON-STRUCTURAL PROTEIN HOST TRANSLATION INHIBITOR, VIRAL PROTEIN EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR Y.WANG,J.P.KIRKPATRICK,T.CARLOMAGNO REVDAT 5 19-JUN-24 8AOU 1 REMARK REVDAT 4 15-FEB-23 8AOU 1 JRNL REVDAT 3 25-JAN-23 8AOU 1 TITLE REVDAT 2 18-JAN-23 8AOU 1 JRNL REVDAT 1 28-DEC-22 8AOU 0 JRNL AUTH Y.WANG,J.KIRKPATRICK,S.Z.LAGE,T.CARLOMAGNO JRNL TITL STRUCTURAL INSIGHTS INTO THE ACTIVITY REGULATION OF JRNL TITL 2 FULL-LENGTH NON-STRUCTURAL PROTEIN 1 FROM SARS-COV-2. JRNL REF STRUCTURE V. 31 128 2023 JRNL REFN ISSN 0969-2126 JRNL PMID 36610391 JRNL DOI 10.1016/J.STR.2022.12.006 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH Y.WANG,J.KIRKPATRICK,S.ZUR LAGE,S.KORN,K.NEISSNER, REMARK 1 AUTH 2 H.SCHWALBE,A.SCHLUNDT,T.CARLOMAGNO REMARK 1 TITL 1H, 13C AND 15N BACKBONE CHEMICAL-SHIFT ASSIGNMENTS OF REMARK 1 TITL 2 SARS-COV-2 NON-STRUCTURAL PROTEIN 1 (LEADER PROTEIN) REMARK 1 REF BIOMOL NMR ASSIGN V. 15 287 2021 REMARK 1 REFN ISSN 1874-2718 REMARK 1 PMID 33770349 REMARK 1 DOI 10.1007/S12104-021-10019-6 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : TOPSPIN 3.2, NMRPIPE 10.1, CCPNMR ANALYSIS 2.4 REMARK 3 AUTHORS : BRUKER BIOSPIN (TOPSPIN), DELAGLIO, GRZESIEK, REMARK 3 VUISTER, ZHU, PFEIFER AND BAX (NMRPIPE), CCPN REMARK 3 (CCPNMR ANALYSIS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 8AOU COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 08-AUG-22. REMARK 100 THE DEPOSITION ID IS D_1292124790. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 560 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 600 UM [U-13C; U-15N] NSP1, 50 REMARK 210 MM SODIUM PHOSPHATE, 200 MM REMARK 210 SODIUM CHLORIDE, 2 MM DTT, 2 MM REMARK 210 EDTA, 0.01 % W/V SODIUM AZIDE, REMARK 210 10 % V/V [U-2H] D2O, 90% H2O/10% REMARK 210 D2O; 500 UM [U-10% 13C; U-100% REMARK 210 15N] NSP1, 50 MM SODIUM REMARK 210 PHOSPHATE, 200 MM SODIUM REMARK 210 CHLORIDE, 2 MM DTT, 2 MM EDTA, REMARK 210 0.01 % W/V SODIUM AZIDE, 10 % V/ REMARK 210 V [U-2H] D2O, 90% H2O/10% D2O; REMARK 210 500 UM [U-10% 13C; U-100% 15N] REMARK 210 NSP1, 50 MM SODIUM PHOSPHATE, REMARK 210 200 MM SODIUM CHLORIDE, 2 MM DTT, REMARK 210 2 MM EDTA, 0.01 % W/W SODIUM REMARK 210 AZIDE, 10 % V/V [U-2H] D2O, 12 REMARK 210 MG/ML PF1 PHAGE, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D HNCO; 3D REMARK 210 HNCA; 3D HNCACB; 3D HN(CO)CA; 3D REMARK 210 HN(COCA)CB; 3D HN(CA)CO; 3D HCCH- REMARK 210 TOCSY; 3D H(CCO)NH; 3D HBHA(CO) REMARK 210 NH; 3D HA(CO)NH; 3D HC(C)H-TOCSY REMARK 210 (AROMATICS); 3D (H)CCH-TOCSY REMARK 210 (AROMATICS); 2D (HB)CB(CGCD)HD; REMARK 210 2D (HB)CB(CGCDCE)HE; 2D 1H-13C REMARK 210 HSQC; 2D CT 1H-13C HSQC REMARK 210 (ALIPHATICS); 2D CT 1H-13C HSQC REMARK 210 (AROMATICS); 2D CT 1H-13C HSQC REMARK 210 (METHYLS); 3D NOESY-15N HSQC; 3D REMARK 210 NOESY-13C HSQC; CLEANEX; 2D SCT REMARK 210 1H-15N HSQC; 2D 1H-15N TROSY- REMARK 210 HSQC; 2D IPAP 1H-15N HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 850 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE III HD REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CCPNMR ANALYSIS 2.4, ARIA 2.3, REMARK 210 CNS 1.21 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY 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 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 1-10 REMARK 465 RES C SSSEQI REMARK 465 GLY A -1 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS 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 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 MET A 1 -32.18 78.53 REMARK 500 1 LEU A 4 122.41 71.21 REMARK 500 1 PRO A 6 94.96 -64.82 REMARK 500 1 VAL A 28 78.59 70.81 REMARK 500 1 ARG A 29 30.22 -78.09 REMARK 500 1 GLU A 55 42.97 -141.67 REMARK 500 1 ARG A 77 -151.44 -97.01 REMARK 500 1 THR A 78 76.61 56.86 REMARK 500 1 TYR A 97 32.19 -152.25 REMARK 500 1 GLU A 113 151.24 169.07 REMARK 500 1 ASN A 128 -165.04 179.51 REMARK 500 1 LYS A 129 144.99 80.83 REMARK 500 1 ALA A 131 47.57 -84.90 REMARK 500 1 TYR A 136 13.26 59.08 REMARK 500 1 ALA A 138 72.52 54.90 REMARK 500 1 LYS A 141 70.49 60.06 REMARK 500 1 ASP A 144 80.16 55.78 REMARK 500 1 LEU A 149 85.66 53.65 REMARK 500 1 THR A 151 54.52 -94.21 REMARK 500 1 PRO A 153 30.73 -81.51 REMARK 500 1 ASP A 156 -33.02 73.18 REMARK 500 1 GLU A 159 62.14 60.28 REMARK 500 1 HIS A 165 79.91 -113.50 REMARK 500 1 SER A 166 51.28 -94.60 REMARK 500 1 ARG A 171 -70.57 -64.64 REMARK 500 1 GLU A 172 -63.57 -160.08 REMARK 500 1 GLU A 176 142.95 70.48 REMARK 500 2 LEU A 4 110.09 67.14 REMARK 500 2 PRO A 6 96.53 -56.60 REMARK 500 2 VAL A 28 81.94 67.96 REMARK 500 2 PHE A 31 -62.42 -100.08 REMARK 500 2 GLU A 55 38.90 -144.26 REMARK 500 2 PRO A 80 81.12 -69.15 REMARK 500 2 HIS A 81 -97.61 57.44 REMARK 500 2 ILE A 95 -47.20 -29.85 REMARK 500 2 GLN A 96 96.67 68.37 REMARK 500 2 TYR A 97 48.34 -98.81 REMARK 500 2 GLU A 113 150.83 170.53 REMARK 500 2 ASP A 144 80.10 52.09 REMARK 500 2 LEU A 145 57.21 -102.05 REMARK 500 2 ASP A 147 89.08 -166.86 REMARK 500 2 LEU A 149 75.27 -114.37 REMARK 500 2 GLU A 155 76.58 36.35 REMARK 500 2 THR A 170 97.39 71.63 REMARK 500 2 GLU A 172 -83.08 -145.13 REMARK 500 2 LEU A 173 38.06 -83.66 REMARK 500 2 LEU A 177 -63.48 70.42 REMARK 500 3 GLU A 2 -62.69 -95.69 REMARK 500 3 LEU A 4 135.02 174.52 REMARK 500 3 VAL A 28 76.33 70.42 REMARK 500 REMARK 500 THIS ENTRY HAS 225 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 50620 RELATED DB: BMRB REMARK 900 BACKBONE CHEMICAL SHIFT ASSIGNMENT REMARK 900 RELATED ID: 34748 RELATED DB: BMRB REMARK 900 SOLUTION NMR STRUCTURE OF FULL-LENGTH NSP1 FROM SARS-COV-2 DBREF 8AOU A 1 180 UNP P0DTD1 R1AB_SARS2 1 180 SEQADV 8AOU GLY A -1 UNP P0DTD1 EXPRESSION TAG SEQADV 8AOU ALA A 0 UNP P0DTD1 EXPRESSION TAG SEQRES 1 A 182 GLY ALA MET GLU SER LEU VAL PRO GLY PHE ASN GLU LYS SEQRES 2 A 182 THR HIS VAL GLN LEU SER LEU PRO VAL LEU GLN VAL ARG SEQRES 3 A 182 ASP VAL LEU VAL ARG GLY PHE GLY ASP SER VAL GLU GLU SEQRES 4 A 182 VAL LEU SER GLU ALA ARG GLN HIS LEU LYS ASP GLY THR SEQRES 5 A 182 CYS GLY LEU VAL GLU VAL GLU LYS GLY VAL LEU PRO GLN SEQRES 6 A 182 LEU GLU GLN PRO TYR VAL PHE ILE LYS ARG SER ASP ALA SEQRES 7 A 182 ARG THR ALA PRO HIS GLY HIS VAL MET VAL GLU LEU VAL SEQRES 8 A 182 ALA GLU LEU GLU GLY ILE GLN TYR GLY ARG SER GLY GLU SEQRES 9 A 182 THR LEU GLY VAL LEU VAL PRO HIS VAL GLY GLU ILE PRO SEQRES 10 A 182 VAL ALA TYR ARG LYS VAL LEU LEU ARG LYS ASN GLY ASN SEQRES 11 A 182 LYS GLY ALA GLY GLY HIS SER TYR GLY ALA ASP LEU LYS SEQRES 12 A 182 SER PHE ASP LEU GLY ASP GLU LEU GLY THR ASP PRO TYR SEQRES 13 A 182 GLU ASP PHE GLN GLU ASN TRP ASN THR LYS HIS SER SER SEQRES 14 A 182 GLY VAL THR ARG GLU LEU MET ARG GLU LEU ASN GLY GLY HELIX 1 AA1 SER A 34 GLY A 49 1 16 HELIX 2 AA2 VAL A 60 LEU A 64 5 5 SHEET 1 AA1 7 HIS A 13 VAL A 20 0 SHEET 2 AA1 7 CYS A 51 VAL A 54 1 O LEU A 53 N PRO A 19 SHEET 3 AA1 7 THR A 103 PRO A 109 -1 O VAL A 106 N VAL A 54 SHEET 4 AA1 7 TYR A 68 ARG A 73 -1 N VAL A 69 O LEU A 107 SHEET 5 AA1 7 HIS A 83 GLU A 91 -1 O GLU A 87 N LYS A 72 SHEET 6 AA1 7 ALA A 117 ARG A 124 1 O LEU A 122 N VAL A 84 SHEET 7 AA1 7 HIS A 13 VAL A 20 -1 N VAL A 20 O ALA A 117 CISPEP 1 GLN A 66 PRO A 67 1 -2.19 CISPEP 2 GLN A 66 PRO A 67 2 1.13 CISPEP 3 GLN A 66 PRO A 67 3 -3.09 CISPEP 4 GLN A 66 PRO A 67 4 -1.11 CISPEP 5 GLN A 66 PRO A 67 5 -3.28 CISPEP 6 GLN A 66 PRO A 67 6 1.05 CISPEP 7 GLN A 66 PRO A 67 7 -6.16 CISPEP 8 GLN A 66 PRO A 67 8 -0.44 CISPEP 9 GLN A 66 PRO A 67 9 -1.43 CISPEP 10 GLN A 66 PRO A 67 10 -1.34 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