HEADER RIBOSOMAL PROTEIN 06-AUG-20 7A05 TITLE NMR STRUCTURE OF D3-D4 DOMAINS OF VIBRIO VULNIFICUS RIBOSOMAL PROTEIN TITLE 2 S1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: 30S RIBOSOMAL PROTEIN S1; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: RIBOSOMAL PROTEIN S1 (DOMAIN 3 AND 4) FROM VIBRIO COMPND 6 VULNIFICUS - THE INITIAL SEQUENCE GAM IS INTRODUCED BY THE CLONING COMPND 7 VECTOR SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VIBRIO VULNIFICUS; SOURCE 3 ORGANISM_TAXID: 672; SOURCE 4 ATCC: 27562; SOURCE 5 GENE: RPSA, CRN34_17730, CRN52_15765, D8T49_21570, JS86_12670; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PKMTX KEYWDS RIBOSOMAL PROTEIN S1 DOMAIN 3 AND DOMAIN 4 VIBRIO VULNIFICUS OB-FOLD KEYWDS 2 MRNA BINDING RS1-D34, RIBOSOMAL PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR N.S.QURESHI,T.MATZEL,E.C.CETINER,S.SCHNIEDERS,H.R.A.JONKER, AUTHOR 2 H.SCHWALBE,B.FUERTIG REVDAT 5 17-JAN-24 7A05 1 REMARK REVDAT 4 14-JUN-23 7A05 1 REMARK REVDAT 3 28-JUL-21 7A05 1 JRNL REVDAT 2 14-JUL-21 7A05 1 JRNL REVDAT 1 23-JUN-21 7A05 0 JRNL AUTH N.S.QURESHI,T.MATZEL,E.C.CETINER,R.SCHNIEDERS,H.R.A.JONKER, JRNL AUTH 2 H.SCHWALBE,B.FURTIG JRNL TITL NMR STRUCTURE OF THE VIBRIO VULNIFICUS RIBOSOMAL PROTEIN S1 JRNL TITL 2 DOMAINS D3 AND D4 PROVIDES INSIGHTS INTO MOLECULAR JRNL TITL 3 RECOGNITION OF SINGLE-STRANDED RNAS. JRNL REF NUCLEIC ACIDS RES. V. 49 7753 2021 JRNL REFN ESSN 1362-4962 JRNL PMID 34223902 JRNL DOI 10.1093/NAR/GKAB562 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA 3.X, CNS 1.1, ARIA 1.2 HJ REMARK 3 AUTHORS : GUNTERT, MUMENTHALER AND WUTHRICH (CYANA), REMARK 3 BRUNGER, ADAMS, CLORE, GROS, NILGES AND READ (CNS), REMARK 3 LINGE, O'DONOGHUE AND NILGES (ARIA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: STRUCTURE DETERMINATION REMARK 4 REMARK 4 7A05 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 07-AUG-20. REMARK 100 THE DEPOSITION ID IS D_1292110584. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303 REMARK 210 PH : 7.2 REMARK 210 IONIC STRENGTH : 208 REMARK 210 PRESSURE : AMBIENT MBAR REMARK 210 SAMPLE CONTENTS : 1.3 MM [U-15N] RS1-D34, 25 MM REMARK 210 POTASSIUM PHOSPHATE, 150 MM REMARK 210 POTASSIUM CHLORIDE, 5 MM DTT, 95% REMARK 210 H2O/5% D2O; 0.9 MM [U-13C; U- REMARK 210 15N] RS1-D34, 25 MM POTASSIUM REMARK 210 PHOSPHATE, 150 MM POTASSIUM REMARK 210 CHLORIDE, 5 MM DTT, 95% H2O/5% REMARK 210 D2O; 0.7 MM [U-13C; U-15N; 60%- REMARK 210 2H] RS1-D34, 25 MM POTASSIUM REMARK 210 PHOSPHATE, 150 MM POTASSIUM REMARK 210 CHLORIDE, 5 MM DTT, 95% H2O/5% REMARK 210 D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D HNHA; 3D REMARK 210 HNCA; 3D HN(CO)CA; 3D HNCACB; 3D REMARK 210 HN(COCA)CB; 3D HNCO; 3D HN(CA)CO; REMARK 210 3D CC(CO)NH; 3D HCC(CO)NH; 3D REMARK 210 HCCH-TOCSY; 3D 1H-15N NOESY; 2D REMARK 210 1H-13C HSQC ALIPHATIC; 2D 1H-13C REMARK 210 HSQC AROMATIC; 3D 1H-13C NOESY REMARK 210 ALIPHATIC; 3D 1H-13C NOESY REMARK 210 AROMATIC; 2D 1H-15N IPAP-HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 700 MHZ; 800 MHZ; 900 REMARK 210 MHZ; 950 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : TOPSPIN 3.X 4.X, SPARKY 3.114, REMARK 210 TALOS-N, PALES REMARK 210 METHOD USED : SIMULATED ANNEALING WITH TORSIAN REMARK 210 ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 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 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 OD1 ASP A 310 HG1 THR A 312 1.57 REMARK 500 HZ3 LYS A 200 OD1 ASP A 215 1.59 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 GLU A 191 134.03 -39.10 REMARK 500 1 ARG A 250 -67.60 -28.22 REMARK 500 1 ASP A 251 -63.19 -109.92 REMARK 500 1 ARG A 252 -36.50 -136.88 REMARK 500 1 THR A 253 -79.55 -24.19 REMARK 500 1 THR A 288 -167.24 -125.71 REMARK 500 1 GLU A 298 99.38 -62.13 REMARK 500 2 GLU A 191 136.06 -38.15 REMARK 500 2 LYS A 226 -168.69 -78.76 REMARK 500 2 ARG A 250 -69.18 -27.27 REMARK 500 2 ARG A 252 -37.72 -135.90 REMARK 500 2 THR A 253 -42.86 -24.08 REMARK 500 2 GLU A 298 98.28 -68.67 REMARK 500 2 GLU A 334 108.03 -169.94 REMARK 500 3 ALA A 185 -166.90 -104.50 REMARK 500 3 GLU A 191 134.50 -39.20 REMARK 500 3 ARG A 250 -67.22 -28.48 REMARK 500 3 ASP A 251 -62.48 -109.36 REMARK 500 3 ARG A 252 -36.89 -137.77 REMARK 500 3 THR A 253 -88.13 -24.44 REMARK 500 3 THR A 288 -169.56 -125.09 REMARK 500 3 GLU A 298 98.62 -66.64 REMARK 500 3 GLU A 334 111.93 -167.02 REMARK 500 4 ARG A 250 -66.49 -29.69 REMARK 500 4 ASP A 251 -64.70 -108.24 REMARK 500 4 ARG A 252 -37.47 -137.06 REMARK 500 4 THR A 253 -67.04 -17.53 REMARK 500 4 THR A 288 -166.22 -125.92 REMARK 500 4 GLU A 297 -178.85 -174.86 REMARK 500 4 GLU A 298 107.00 -59.23 REMARK 500 4 GLU A 334 115.78 -164.22 REMARK 500 5 ALA A 185 -168.84 -112.63 REMARK 500 5 ARG A 252 -38.32 -136.01 REMARK 500 5 THR A 253 -68.95 -15.64 REMARK 500 5 THR A 288 -165.81 -118.93 REMARK 500 5 GLU A 334 110.35 -168.73 REMARK 500 6 ARG A 250 -68.48 -28.73 REMARK 500 6 ARG A 252 -37.64 -136.04 REMARK 500 6 THR A 253 -46.78 -21.13 REMARK 500 6 THR A 288 -168.14 -119.79 REMARK 500 6 GLU A 334 108.26 -167.52 REMARK 500 7 GLU A 191 135.43 -38.72 REMARK 500 7 ARG A 250 -65.61 -29.66 REMARK 500 7 ARG A 252 -36.96 -135.93 REMARK 500 7 THR A 253 -52.89 -20.61 REMARK 500 7 THR A 288 -167.47 -117.03 REMARK 500 7 GLU A 334 114.45 -167.07 REMARK 500 8 ALA A 185 -157.80 -83.43 REMARK 500 8 GLU A 191 128.70 -33.33 REMARK 500 8 ARG A 250 -67.81 -27.52 REMARK 500 REMARK 500 THIS ENTRY HAS 154 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 34549 RELATED DB: BMRB REMARK 900 NMR STRUCTURE OF D3-D4 DOMAINS OF VIBRIO VULNIFICUS RIBOSOMAL REMARK 900 PROTEIN S1 DBREF1 7A05 A 187 356 UNP A0A087IKW3_VIBVL DBREF2 7A05 A A0A087IKW3 187 356 SEQADV 7A05 GLY A 184 UNP A0A087IKW EXPRESSION TAG SEQADV 7A05 ALA A 185 UNP A0A087IKW EXPRESSION TAG SEQADV 7A05 MET A 186 UNP A0A087IKW EXPRESSION TAG SEQRES 1 A 173 GLY ALA MET GLU THR LEU GLN GLU GLY SER GLU VAL LYS SEQRES 2 A 173 GLY ILE VAL LYS ASN LEU THR ASP TYR GLY ALA PHE VAL SEQRES 3 A 173 ASP LEU GLY GLY VAL ASP GLY LEU LEU HIS ILE THR ASP SEQRES 4 A 173 MET ALA TRP LYS ARG VAL LYS HIS PRO SER GLU ILE VAL SEQRES 5 A 173 ASN VAL GLY ASP GLU ILE LEU VAL LYS VAL LEU LYS PHE SEQRES 6 A 173 ASP ARG ASP ARG THR ARG VAL SER LEU GLY LEU LYS GLN SEQRES 7 A 173 LEU GLY GLU ASP PRO TRP VAL ALA ILE ALA LYS ARG TYR SEQRES 8 A 173 PRO GLU GLY HIS LYS LEU SER GLY ARG VAL THR ASN LEU SEQRES 9 A 173 THR ASP TYR GLY CYS PHE VAL GLU ILE GLU GLU GLY VAL SEQRES 10 A 173 GLU GLY LEU VAL HIS VAL SER GLU MET ASP TRP THR ASN SEQRES 11 A 173 LYS ASN ILE HIS PRO SER LYS VAL VAL ASN VAL GLY ASP SEQRES 12 A 173 GLU VAL GLU VAL MET VAL LEU GLU ILE ASP GLU GLU ARG SEQRES 13 A 173 ARG ARG ILE SER LEU GLY LEU LYS GLN CYS LYS ALA ASN SEQRES 14 A 173 PRO TRP GLN SER HELIX 1 AA1 THR A 221 MET A 223 5 3 HELIX 2 AA2 HIS A 230 VAL A 235 1 6 HELIX 3 AA3 ALA A 269 TYR A 274 1 6 HELIX 4 AA4 SER A 307 MET A 309 5 3 HELIX 5 AA5 HIS A 317 VAL A 321 5 5 HELIX 6 AA6 LEU A 346 LYS A 350 5 5 SHEET 1 AA1 6 GLU A 194 LEU A 202 0 SHEET 2 AA1 6 GLY A 206 ASP A 210 -1 O ASP A 210 N ILE A 198 SHEET 3 AA1 6 ASP A 215 HIS A 219 -1 O GLY A 216 N VAL A 209 SHEET 4 AA1 6 VAL A 255 GLY A 258 1 O VAL A 255 N LEU A 217 SHEET 5 AA1 6 ASP A 239 PHE A 248 -1 N LEU A 246 O SER A 256 SHEET 6 AA1 6 GLU A 194 LEU A 202 -1 N VAL A 195 O VAL A 243 SHEET 1 AA2 6 LYS A 279 LEU A 287 0 SHEET 2 AA2 6 GLY A 291 GLU A 297 -1 O GLU A 295 N ARG A 283 SHEET 3 AA2 6 VAL A 300 HIS A 305 -1 O GLY A 302 N VAL A 294 SHEET 4 AA2 6 ARG A 341 GLY A 345 1 O LEU A 344 N LEU A 303 SHEET 5 AA2 6 GLU A 327 ASP A 336 -1 N GLU A 334 O SER A 343 SHEET 6 AA2 6 LYS A 279 LEU A 287 -1 N LEU A 280 O VAL A 330 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