HEADER VIRAL PROTEIN 17-NOV-23 8V0H TITLE STRUCTURAL CHARACTERIZATION OF ZIKA VIRUS NS2B BY NMR AND ROSETTAMP COMPND MOL_ID: 1; COMPND 2 MOLECULE: SERINE PROTEASE SUBUNIT NS2B; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: FLAVIVIRIN PROTEASE NS2B REGULATORY SUBUNIT,NON-STRUCTURAL COMPND 5 PROTEIN 2B; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ZIKA VIRUS; SOURCE 3 ORGANISM_TAXID: 64320; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: PET-28A KEYWDS NS2B, MEMBRANE PROTEIN, VIRAL REPLICATION, NS3 PROTEASE COFACTOR, KEYWDS 2 VIRAL PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR B.R.PENNA,F.GOMES-NETO,C.D.ANOBOM,A.P.VALENTE REVDAT 1 16-OCT-24 8V0H 0 JRNL AUTH B.R.PENNA,F.GOMES-NETO,C.D.ANOBOM,A.P.VALENTE JRNL TITL STRUCTURAL AND DYNAMICS CHARACTERIZATION OF THE ZIKA VIRUS JRNL TITL 2 NS2B USING NUCLEAR MAGNETIC RESONANCE AND ROSETTAMP: A JRNL TITL 3 CHALLENGE FOR TRANSMEMBRANE PROTEIN STUDIES. JRNL REF INT.J.BIOL.MACROMOL. V. 280 36074 2024 JRNL REFN ISSN 0141-8130 JRNL PMID 39341314 JRNL DOI 10.1016/J.IJBIOMAC.2024.136074 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : ROSETTA 2020.08.61146 REMARK 3 AUTHORS : IVON LG, MORETTI R, BAKER D REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: SELECTION BASED ON ROSETTA CHEMICAL REMARK 3 SHIF POTENTIAL AND TOTAL ENERGY REMARK 4 REMARK 4 8V0H COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-NOV-23. REMARK 100 THE DEPOSITION ID IS D_1000275344. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : 0 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 20 MM SODIUM PHOSPHATE, 0.1 % REMARK 210 W/V SODIUM DODECYL SULFATE, 2 MM REMARK 210 BETA-MERCAPTOETHANOL, 5 MM REMARK 210 SODIUM AZIDE, 100 % [U-2H] D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N TROSY; 3D HNCO; 3D REMARK 210 HN(CA)CO; 3D HNCACB; 3D HN(COCA) REMARK 210 CB; 3D HN(CO)CA REMARK 210 SPECTROMETER FIELD STRENGTH : 900 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE III HD REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE, CCPNMR ANALYSIS VERSION REMARK 210 2.4.2, CCPNMR ANALYSIS ASSIGN REMARK 210 VERSION 2.4.2, CS-ROSETTA, REMARK 210 ROSETTA 2020.08.61146 REMARK 210 METHOD USED : MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 5000 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 1-20 REMARK 465 RES C SSSEQI REMARK 465 MET A -29 REMARK 465 GLY A -28 REMARK 465 SER A -27 REMARK 465 SER A -26 REMARK 465 HIS A -25 REMARK 465 HIS A -24 REMARK 465 HIS A -23 REMARK 465 HIS A -22 REMARK 465 HIS A -21 REMARK 465 HIS A -20 REMARK 465 SER A -19 REMARK 465 SER A -18 REMARK 465 GLY A -17 REMARK 465 LEU A -16 REMARK 465 VAL A -15 REMARK 465 PRO A -14 REMARK 465 ARG A -13 REMARK 465 GLY A -12 REMARK 465 SER A -11 REMARK 465 HIS A -10 REMARK 465 MET A -9 REMARK 465 GLY A -8 REMARK 465 SER A -7 REMARK 465 GLU A -6 REMARK 465 ASN A -5 REMARK 465 LEU A -4 REMARK 465 TYR A -3 REMARK 465 PHE A -2 REMARK 465 GLN A -1 REMARK 465 GLY A 0 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 4 GLU A 27 19.73 58.45 REMARK 500 7 GLU A 27 -2.08 67.26 REMARK 500 10 GLU A 27 -1.26 67.15 REMARK 500 18 GLU A 27 -2.11 67.21 REMARK 500 18 SER A 71 152.82 -49.11 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 50994 RELATED DB: BMRB REMARK 900 BACKBONE 1H, 15N AND 13C RESONANCE ASSIGNMENTS OF A NON-STRUCTURAL REMARK 900 PROTEIN NS2B OF ZIKA VIRUS DBREF 8V0H A 1 130 UNP Q32ZE1 POLG_ZIKV 1369 1498 SEQADV 8V0H MET A -29 UNP Q32ZE1 INITIATING METHIONINE SEQADV 8V0H GLY A -28 UNP Q32ZE1 EXPRESSION TAG SEQADV 8V0H SER A -27 UNP Q32ZE1 EXPRESSION TAG SEQADV 8V0H SER A -26 UNP Q32ZE1 EXPRESSION TAG SEQADV 8V0H HIS A -25 UNP Q32ZE1 EXPRESSION TAG SEQADV 8V0H HIS A -24 UNP Q32ZE1 EXPRESSION TAG SEQADV 8V0H HIS A -23 UNP Q32ZE1 EXPRESSION TAG SEQADV 8V0H HIS A -22 UNP Q32ZE1 EXPRESSION TAG SEQADV 8V0H HIS A -21 UNP Q32ZE1 EXPRESSION TAG SEQADV 8V0H HIS A -20 UNP Q32ZE1 EXPRESSION TAG SEQADV 8V0H SER A -19 UNP Q32ZE1 EXPRESSION TAG SEQADV 8V0H SER A -18 UNP Q32ZE1 EXPRESSION TAG SEQADV 8V0H GLY A -17 UNP Q32ZE1 EXPRESSION TAG SEQADV 8V0H LEU A -16 UNP Q32ZE1 EXPRESSION TAG SEQADV 8V0H VAL A -15 UNP Q32ZE1 EXPRESSION TAG SEQADV 8V0H PRO A -14 UNP Q32ZE1 EXPRESSION TAG SEQADV 8V0H ARG A -13 UNP Q32ZE1 EXPRESSION TAG SEQADV 8V0H GLY A -12 UNP Q32ZE1 EXPRESSION TAG SEQADV 8V0H SER A -11 UNP Q32ZE1 EXPRESSION TAG SEQADV 8V0H HIS A -10 UNP Q32ZE1 EXPRESSION TAG SEQADV 8V0H MET A -9 UNP Q32ZE1 EXPRESSION TAG SEQADV 8V0H GLY A -8 UNP Q32ZE1 EXPRESSION TAG SEQADV 8V0H SER A -7 UNP Q32ZE1 EXPRESSION TAG SEQADV 8V0H GLU A -6 UNP Q32ZE1 EXPRESSION TAG SEQADV 8V0H ASN A -5 UNP Q32ZE1 EXPRESSION TAG SEQADV 8V0H LEU A -4 UNP Q32ZE1 EXPRESSION TAG SEQADV 8V0H TYR A -3 UNP Q32ZE1 EXPRESSION TAG SEQADV 8V0H PHE A -2 UNP Q32ZE1 EXPRESSION TAG SEQADV 8V0H GLN A -1 UNP Q32ZE1 EXPRESSION TAG SEQADV 8V0H GLY A 0 UNP Q32ZE1 EXPRESSION TAG SEQRES 1 A 160 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 160 LEU VAL PRO ARG GLY SER HIS MET GLY SER GLU ASN LEU SEQRES 3 A 160 TYR PHE GLN GLY SER TRP PRO PRO SER GLU VAL LEU THR SEQRES 4 A 160 ALA VAL GLY LEU ILE CYS ALA LEU ALA GLY GLY PHE ALA SEQRES 5 A 160 LYS ALA ASP ILE GLU MET ALA GLY PRO MET ALA ALA VAL SEQRES 6 A 160 GLY LEU LEU ILE VAL SER TYR VAL VAL SER GLY LYS SER SEQRES 7 A 160 VAL ASP MET TYR ILE GLU ARG ALA GLY ASP ILE THR TRP SEQRES 8 A 160 GLU LYS ASP ALA GLU VAL THR GLY ASN SER PRO ARG LEU SEQRES 9 A 160 ASP VAL ALA LEU ASP GLU SER GLY ASP PHE SER LEU VAL SEQRES 10 A 160 GLU GLU ASP GLY PRO PRO MET ARG GLU ILE ILE LEU LYS SEQRES 11 A 160 VAL VAL LEU MET ALA ILE CYS GLY MET ASN PRO ILE ALA SEQRES 12 A 160 ILE PRO PHE ALA ALA GLY ALA TRP TYR VAL TYR VAL LYS SEQRES 13 A 160 THR GLY LYS ARG HELIX 1 AA1 SER A 5 PHE A 21 1 17 HELIX 2 AA2 GLY A 30 LYS A 47 1 18 HELIX 3 AA3 SER A 48 ASP A 58 1 11 HELIX 4 AA4 ASP A 64 GLY A 69 5 6 HELIX 5 AA5 PRO A 93 MET A 104 1 12 HELIX 6 AA6 ILE A 112 VAL A 125 1 14 HELIX 7 AA7 LYS A 126 GLY A 128 5 3 SHEET 1 AA1 2 ALA A 77 LEU A 78 0 SHEET 2 AA1 2 PHE A 84 SER A 85 -1 O SER A 85 N ALA A 77 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 MODEL 1 ENDMDL MODEL 2 ENDMDL MODEL 3 ENDMDL MODEL 4 ENDMDL MODEL 5 ENDMDL MODEL 6 ENDMDL MODEL 7 ENDMDL MODEL 8 ENDMDL MODEL 9 ENDMDL MODEL 10 ENDMDL MODEL 11 ENDMDL MODEL 12 ENDMDL MODEL 13 ENDMDL MODEL 14 ENDMDL MODEL 15 ENDMDL MODEL 16 ENDMDL MODEL 17 ENDMDL MODEL 18 ENDMDL MODEL 19 ENDMDL MODEL 20 ENDMDL MASTER 148 0 0 7 2 0 0 6 965 1 0 13 END