HEADER VIRAL PROTEIN 05-JUN-24 9FLG TITLE SOLUTION NMR STRUCTURE OF THE DELTA60 DOMAIN OF THE HEPATITIS DELTA TITLE 2 VIRUS SMALL ANTIGEN SHDAG COMPND MOL_ID: 1; COMPND 2 MOLECULE: LARGE DELTA ANTIGEN; COMPND 3 CHAIN: A; COMPND 4 OTHER_DETAILS: RESIDUES 61-195 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI BL21; SOURCE 3 ORGANISM_TAXID: 511693; SOURCE 4 VARIANT: CODONPLUS KEYWDS HEPATITIS DELTA VIRUS, HDV, DELTA60, S-HDAG, RNA INTERACTION, VIRAL KEYWDS 2 PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR Y.YANG,L.DELCOURTE,M.L.FOGERON,A.BOCKMANN,L.LECOQ REVDAT 2 14-MAY-25 9FLG 1 JRNL REVDAT 1 16-APR-25 9FLG 0 JRNL AUTH Y.YANG,L.DELCOURTE,C.VAN BELLEGHEM,S.FONTE,K.GERARD, JRNL AUTH 2 S.BACONNAIS,M.CALLON,E.LE CAM,M.L.FOGERON,M.LEVRERO, JRNL AUTH 3 C.FAIVRE-MOSKALENKO,A.BOCKMANN,L.LECOQ JRNL TITL STRUCTURE AND NUCLEIC ACID INTERACTIONS OF THE S DELTA 60 JRNL TITL 2 DOMAIN OF THE HEPATITIS DELTA VIRUS SMALL ANTIGEN. JRNL REF PROC.NATL.ACAD.SCI.USA V. 122 90122 2025 JRNL REFN ESSN 1091-6490 JRNL PMID 40324079 JRNL DOI 10.1073/PNAS.2411890122 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER, ADAMS, CLORE, GROS, NILGES AND READ REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 9FLG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 05-JUN-24. REMARK 100 THE DEPOSITION ID IS D_1292134518. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298; 298 REMARK 210 PH : 6.7; 6.5 REMARK 210 IONIC STRENGTH : 50 MM NACL; 50 MM NACL REMARK 210 PRESSURE : 1 ATM; 1 ATM REMARK 210 SAMPLE CONTENTS : 160 UM [U-100% 13C; U-100% 15N] REMARK 210 DELTA60 DOMAIN OF THE HEPATITIS REMARK 210 DELTA VIRUS SMALL ANTIGEN, 90% REMARK 210 H2O/10% D2O; 200 UM [U-100% 13C; REMARK 210 U-100% 15N] DELTA60 DOMAIN OF REMARK 210 THE HEPATITIS DELTA VIRUS SMALL REMARK 210 ANTIGEN, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D SOFAST; 3D 13C-NOESY-HSQC; 3D REMARK 210 15N-NOESY-HSQC; 3D B-HNCO; 3D BT- REMARK 210 HNCACO; 3D HNCACB; 3D C(CO)NH; REMARK 210 3D H(CCO)NH; 2D HC-HSQC; 3D HCCH- REMARK 210 TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 950 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE III REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CCPNMR ANALYSIS 2.5, TOPSPIN REMARK 210 4.3, ARIA 2 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 20 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 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 LYS A 61 -175.67 60.46 REMARK 500 1 GLU A 66 -53.13 -153.45 REMARK 500 1 PRO A 70 -164.48 -67.14 REMARK 500 1 ARG A 73 -162.79 55.48 REMARK 500 1 ASP A 82 -76.61 65.96 REMARK 500 1 PHE A 94 -168.03 -120.13 REMARK 500 1 LYS A 120 -169.56 -100.92 REMARK 500 1 ARG A 143 -32.64 -151.52 REMARK 500 1 VAL A 144 18.53 54.69 REMARK 500 1 VAL A 149 -58.18 77.09 REMARK 500 1 VAL A 152 -62.58 -106.28 REMARK 500 1 PRO A 154 105.14 -56.50 REMARK 500 1 GLU A 156 -76.72 -106.04 REMARK 500 1 PRO A 169 39.95 -87.71 REMARK 500 1 GLN A 172 175.49 66.25 REMARK 500 1 PRO A 175 158.73 -48.62 REMARK 500 1 GLU A 184 -48.87 -138.87 REMARK 500 1 ILE A 188 -73.37 -126.59 REMARK 500 1 ARG A 189 -59.40 -145.89 REMARK 500 2 PRO A 57 29.44 -78.95 REMARK 500 2 ASP A 62 -60.69 174.78 REMARK 500 2 GLU A 66 -66.07 -145.77 REMARK 500 2 PRO A 70 -176.31 -67.82 REMARK 500 2 ALA A 71 177.93 58.29 REMARK 500 2 LEU A 90 -54.20 -125.12 REMARK 500 2 PHE A 94 -159.41 -92.00 REMARK 500 2 ARG A 143 -20.51 -157.91 REMARK 500 2 PHE A 167 135.54 73.39 REMARK 500 2 GLN A 172 -175.83 64.32 REMARK 500 2 LEU A 186 -65.84 69.83 REMARK 500 2 ARG A 189 -48.53 70.48 REMARK 500 2 PHE A 194 76.14 62.51 REMARK 500 3 LEU A 58 -61.94 71.90 REMARK 500 3 LYS A 61 -167.30 66.90 REMARK 500 3 GLU A 66 -48.28 -156.61 REMARK 500 3 ALA A 68 81.82 59.56 REMARK 500 3 PRO A 70 -152.75 -61.49 REMARK 500 3 THR A 76 -162.99 53.79 REMARK 500 3 LEU A 90 -44.01 -149.27 REMARK 500 3 ARG A 143 -23.14 159.04 REMARK 500 3 VAL A 144 137.72 85.10 REMARK 500 3 ALA A 145 174.56 70.11 REMARK 500 3 VAL A 149 80.67 56.15 REMARK 500 3 GLU A 156 -169.23 69.64 REMARK 500 3 PRO A 178 129.38 -31.03 REMARK 500 3 ARG A 181 116.60 -161.78 REMARK 500 3 ASP A 187 134.95 66.93 REMARK 500 3 ARG A 189 -60.82 70.08 REMARK 500 4 LYS A 61 -80.88 -144.00 REMARK 500 4 ASP A 62 -42.69 -165.19 REMARK 500 REMARK 500 THIS ENTRY HAS 359 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 51340 RELATED DB: BMRB DBREF 9FLG A 56 195 UNP O39946 O39946_HDV 56 195 SEQADV 9FLG PRO A 57 UNP O39946 ILE 57 CONFLICT SEQADV 9FLG SER A 60 UNP O39946 LYS 60 CONFLICT SEQRES 1 A 140 GLY PRO LEU GLY SER LYS ASP LYS ASP GLY GLU GLY ALA SEQRES 2 A 140 PRO PRO ALA LYS ARG ALA ARG THR ASP GLN MET GLU VAL SEQRES 3 A 140 ASP SER GLY PRO GLY LYS ARG PRO LEU ARG GLY GLY PHE SEQRES 4 A 140 THR ASP LYS GLU ARG GLN ASP HIS ARG ARG ARG LYS ALA SEQRES 5 A 140 LEU GLU ASN LYS LYS LYS GLN LEU SER ALA GLY GLY LYS SEQRES 6 A 140 ASN LEU SER LYS GLU GLU GLU GLU GLU LEU ARG ARG LEU SEQRES 7 A 140 THR GLU GLU ASP GLU ARG ARG GLU ARG ARG VAL ALA GLY SEQRES 8 A 140 PRO PRO VAL GLY GLY VAL ASN PRO LEU GLU GLY GLY SER SEQRES 9 A 140 ARG GLY ALA PRO GLY GLY GLY PHE VAL PRO ASN LEU GLN SEQRES 10 A 140 GLY VAL PRO GLU SER PRO PHE SER ARG THR GLY GLU GLY SEQRES 11 A 140 LEU ASP ILE ARG GLY ASN GLN GLY PHE PRO HELIX 1 AA1 THR A 95 GLY A 118 1 24 HELIX 2 AA2 SER A 123 ARG A 143 1 21 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 TER 2118 PRO A 195 ENDMDL MODEL 2 TER 2118 PRO A 195 ENDMDL MODEL 3 TER 2118 PRO A 195 ENDMDL MODEL 4 TER 2118 PRO A 195 ENDMDL MODEL 5 TER 2118 PRO A 195 ENDMDL MODEL 6 TER 2118 PRO A 195 ENDMDL MODEL 7 TER 2118 PRO A 195 ENDMDL MODEL 8 TER 2118 PRO A 195 ENDMDL MODEL 9 TER 2118 PRO A 195 ENDMDL MODEL 10 TER 2118 PRO A 195 ENDMDL MODEL 11 TER 2118 PRO A 195 ENDMDL MODEL 12 TER 2118 PRO A 195 ENDMDL MODEL 13 TER 2118 PRO A 195 ENDMDL MODEL 14 TER 2118 PRO A 195 ENDMDL MODEL 15 TER 2118 PRO A 195 ENDMDL MODEL 16 TER 2118 PRO A 195 ENDMDL MODEL 17 TER 2118 PRO A 195 ENDMDL MODEL 18 TER 2118 PRO A 195 ENDMDL MODEL 19 TER 2118 PRO A 195 ENDMDL MODEL 20 TER 2118 PRO A 195 ENDMDL MASTER 158 0 0 2 0 0 0 6 1064 1 0 11 END