HEADER RIBOSOMAL PROTEIN 07-APR-09 2KHI TITLE NMR STRUCTURE OF THE DOMAIN 4 OF THE E. COLI RIBOSOMAL PROTEIN S1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: 30S RIBOSOMAL PROTEIN S1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 267-361; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 GENE: RPSA, SSYF, B0911, JW0894; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET15B KEYWDS RIBOSOMAL PROTEIN S1, ACETYLATION, PHOSPHOPROTEIN, RIBONUCLEOPROTEIN, KEYWDS 2 RIBOSOMAL PROTEIN, RNA-BINDING EXPDTA SOLUTION NMR NUMMDL 12 AUTHOR P.SALAH,M.BISAGLIA,P.ALIPRANDI,M.UZAN,C.SIZUN,F.BONTEMS REVDAT 3 16-MAR-22 2KHI 1 REMARK SEQADV REVDAT 2 27-OCT-09 2KHI 1 JRNL REVDAT 1 20-OCT-09 2KHI 0 JRNL AUTH P.SALAH,M.BISAGLIA,P.ALIPRANDI,M.UZAN,C.SIZUN,F.BONTEMS JRNL TITL PROBING THE RELATIONSHIP BETWEEN GRAM-NEGATIVE AND JRNL TITL 2 GRAM-POSITIVE S1 PROTEINS BY SEQUENCE ANALYSIS JRNL REF NUCLEIC ACIDS RES. V. 37 5578 2009 JRNL REFN ISSN 0305-1048 JRNL PMID 19605565 JRNL DOI 10.1093/NAR/GKP547 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : INCA, INCA REMARK 3 AUTHORS : GILQUIN B. (INCA), GILQUIN B. (INCA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2KHI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 09-APR-09. REMARK 100 THE DEPOSITION ID IS D_1000101127. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303 REMARK 210 PH : 6.8 REMARK 210 IONIC STRENGTH : 200 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.5-0.7MM [U-100% 15N] DOMAIN 4 REMARK 210 OF THE E. COLI RIBOSOMAL PROTEIN REMARK 210 S1-1, 95% H2O, 5% D2O; 0.5-0.7MM REMARK 210 [U-100% 13C; U-100% 15N] DOMAIN REMARK 210 4 OF THE E. COLI RIBOSOMAL REMARK 210 PROTEIN S1-2, 95% H2O/5% D2O; REMARK 210 0.5-0.7MM [U-100% 15N] DOMAIN 4 REMARK 210 OF THE E. COLI RIBOSOMAL PROTEIN REMARK 210 S1-3, 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 15N-NOESY-HSQC; 13CALIPHATIC REMARK 210 -NOESY-HSQC; 2D-NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS, REMARK 210 SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 12 REMARK 210 CONFORMERS, SELECTION CRITERIA : 12 STRUCTURES FOR LOWEST 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 1-12 REMARK 465 RES C SSSEQI REMARK 465 MET A 247 REMARK 465 GLY A 248 REMARK 465 SER A 249 REMARK 465 SER A 250 REMARK 465 HIS A 251 REMARK 465 HIS A 252 REMARK 465 HIS A 253 REMARK 465 HIS A 254 REMARK 465 HIS A 255 REMARK 465 HIS A 256 REMARK 465 SER A 257 REMARK 465 SER A 258 REMARK 465 GLY A 259 REMARK 465 LEU A 260 REMARK 465 VAL A 261 REMARK 465 PRO A 262 REMARK 465 ARG A 263 REMARK 465 GLY A 264 REMARK 465 SER A 265 REMARK 465 HIS A 266 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 O ARG A 283 H GLU A 295 1.58 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 1 CYS A 292 CA - CB - SG ANGL. DEV. = 7.2 DEGREES REMARK 500 1 PHE A 293 N - CA - CB ANGL. DEV. = 11.2 DEGREES REMARK 500 1 SER A 319 CB - CA - C ANGL. DEV. = 13.1 DEGREES REMARK 500 1 LYS A 320 N - CA - CB ANGL. DEV. = 12.4 DEGREES REMARK 500 1 LEU A 346 N - CA - CB ANGL. DEV. = 14.4 DEGREES REMARK 500 2 CYS A 292 CA - CB - SG ANGL. DEV. = 6.7 DEGREES REMARK 500 2 SER A 319 CB - CA - C ANGL. DEV. = 14.2 DEGREES REMARK 500 2 ILE A 342 N - CA - C ANGL. DEV. = -16.6 DEGREES REMARK 500 3 CYS A 292 CA - CB - SG ANGL. DEV. = 8.2 DEGREES REMARK 500 3 LEU A 346 N - CA - C ANGL. DEV. = 17.8 DEGREES REMARK 500 4 VAL A 284 CA - CB - CG2 ANGL. DEV. = -9.2 DEGREES REMARK 500 4 LEU A 346 N - CA - CB ANGL. DEV. = 13.7 DEGREES REMARK 500 5 CYS A 292 CB - CA - C ANGL. DEV. = 9.0 DEGREES REMARK 500 5 CYS A 292 CA - CB - SG ANGL. DEV. = 6.7 DEGREES REMARK 500 5 VAL A 294 CA - CB - CG1 ANGL. DEV. = 10.1 DEGREES REMARK 500 5 GLU A 298 C - N - CA ANGL. DEV. = 21.4 DEGREES REMARK 500 5 PHE A 357 CB - CG - CD1 ANGL. DEV. = -4.5 DEGREES REMARK 500 6 TYR A 274 CB - CG - CD2 ANGL. DEV. = -4.0 DEGREES REMARK 500 6 TYR A 274 CB - CG - CD1 ANGL. DEV. = 4.3 DEGREES REMARK 500 6 CYS A 349 C - N - CA ANGL. DEV. = 17.9 DEGREES REMARK 500 7 ARG A 339 N - CA - CB ANGL. DEV. = -11.8 DEGREES REMARK 500 7 PHE A 357 CB - CG - CD2 ANGL. DEV. = -4.9 DEGREES REMARK 500 7 PHE A 357 CB - CG - CD1 ANGL. DEV. = 4.8 DEGREES REMARK 500 8 TYR A 290 CB - CG - CD2 ANGL. DEV. = -4.7 DEGREES REMARK 500 8 TYR A 290 CB - CG - CD1 ANGL. DEV. = 5.0 DEGREES REMARK 500 8 LEU A 346 N - CA - CB ANGL. DEV. = 15.4 DEGREES REMARK 500 8 THR A 360 N - CA - CB ANGL. DEV. = 12.1 DEGREES REMARK 500 9 CYS A 349 N - CA - CB ANGL. DEV. = 10.8 DEGREES REMARK 500 9 PHE A 357 CB - CG - CD2 ANGL. DEV. = -6.2 DEGREES REMARK 500 9 PHE A 357 CB - CG - CD1 ANGL. DEV. = 6.2 DEGREES REMARK 500 10 LEU A 346 N - CA - CB ANGL. DEV. = 14.1 DEGREES REMARK 500 11 LEU A 346 N - CA - CB ANGL. DEV. = 14.9 DEGREES REMARK 500 11 PHE A 357 CB - CG - CD2 ANGL. DEV. = -5.6 DEGREES REMARK 500 11 PHE A 357 CB - CG - CD1 ANGL. DEV. = 5.8 DEGREES REMARK 500 12 ILE A 342 N - CA - C ANGL. DEV. = -16.8 DEGREES 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 ILE A 270 -34.03 65.07 REMARK 500 1 ALA A 271 93.97 -164.77 REMARK 500 1 GLU A 276 119.21 93.27 REMARK 500 1 TYR A 290 46.76 -156.92 REMARK 500 1 ILE A 296 -103.59 -81.53 REMARK 500 1 VAL A 306 -37.43 -36.49 REMARK 500 1 MET A 309 -51.61 -176.18 REMARK 500 1 ASP A 310 -56.36 90.81 REMARK 500 1 TRP A 311 50.79 -67.30 REMARK 500 1 ASN A 313 -57.02 116.05 REMARK 500 1 ILE A 316 -45.98 72.99 REMARK 500 1 PRO A 318 38.35 -62.50 REMARK 500 1 SER A 319 24.84 87.43 REMARK 500 1 VAL A 321 64.78 82.28 REMARK 500 1 LEU A 333 -136.65 -123.00 REMARK 500 1 ARG A 340 50.46 74.91 REMARK 500 1 LEU A 346 -90.07 -138.89 REMARK 500 1 LYS A 347 23.95 101.35 REMARK 500 1 CYS A 349 164.88 95.28 REMARK 500 1 ASN A 352 64.44 91.45 REMARK 500 1 PHE A 357 71.80 -64.13 REMARK 500 1 THR A 360 62.72 169.51 REMARK 500 2 ALA A 269 -68.93 -107.81 REMARK 500 2 ALA A 271 -108.25 89.16 REMARK 500 2 LYS A 272 -78.64 -147.33 REMARK 500 2 TYR A 290 44.44 -152.11 REMARK 500 2 ILE A 296 -83.25 -60.15 REMARK 500 2 VAL A 306 -51.83 -27.25 REMARK 500 2 MET A 309 -62.17 -99.79 REMARK 500 2 ASP A 310 -57.98 -168.57 REMARK 500 2 ASN A 313 -80.68 150.60 REMARK 500 2 ILE A 316 -33.00 71.78 REMARK 500 2 PRO A 318 44.39 -64.17 REMARK 500 2 SER A 319 13.50 87.67 REMARK 500 2 VAL A 321 62.24 74.53 REMARK 500 2 LEU A 333 -135.35 -122.98 REMARK 500 2 ARG A 340 53.21 75.32 REMARK 500 2 LYS A 347 -102.25 -108.32 REMARK 500 2 CYS A 349 173.67 70.84 REMARK 500 2 ASN A 352 94.32 123.01 REMARK 500 2 PRO A 353 -99.16 -83.88 REMARK 500 2 PHE A 357 -167.78 66.41 REMARK 500 2 THR A 360 147.90 178.16 REMARK 500 3 ALA A 269 42.43 -87.37 REMARK 500 3 ALA A 271 -43.12 54.71 REMARK 500 3 GLU A 276 123.50 84.03 REMARK 500 3 TYR A 290 48.46 -153.30 REMARK 500 3 ILE A 296 48.98 -91.25 REMARK 500 3 GLU A 297 173.56 79.95 REMARK 500 3 GLU A 308 66.50 -104.09 REMARK 500 REMARK 500 THIS ENTRY HAS 265 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 7 HIS A 305 0.10 SIDE CHAIN REMARK 500 10 TYR A 290 0.10 SIDE CHAIN REMARK 500 11 TYR A 274 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL DBREF 2KHI A 267 361 UNP P0AG67 RS1_ECOLI 267 361 SEQADV 2KHI MET A 247 UNP P0AG67 EXPRESSION TAG SEQADV 2KHI GLY A 248 UNP P0AG67 EXPRESSION TAG SEQADV 2KHI SER A 249 UNP P0AG67 EXPRESSION TAG SEQADV 2KHI SER A 250 UNP P0AG67 EXPRESSION TAG SEQADV 2KHI HIS A 251 UNP P0AG67 EXPRESSION TAG SEQADV 2KHI HIS A 252 UNP P0AG67 EXPRESSION TAG SEQADV 2KHI HIS A 253 UNP P0AG67 EXPRESSION TAG SEQADV 2KHI HIS A 254 UNP P0AG67 EXPRESSION TAG SEQADV 2KHI HIS A 255 UNP P0AG67 EXPRESSION TAG SEQADV 2KHI HIS A 256 UNP P0AG67 EXPRESSION TAG SEQADV 2KHI SER A 257 UNP P0AG67 EXPRESSION TAG SEQADV 2KHI SER A 258 UNP P0AG67 EXPRESSION TAG SEQADV 2KHI GLY A 259 UNP P0AG67 EXPRESSION TAG SEQADV 2KHI LEU A 260 UNP P0AG67 EXPRESSION TAG SEQADV 2KHI VAL A 261 UNP P0AG67 EXPRESSION TAG SEQADV 2KHI PRO A 262 UNP P0AG67 EXPRESSION TAG SEQADV 2KHI ARG A 263 UNP P0AG67 EXPRESSION TAG SEQADV 2KHI GLY A 264 UNP P0AG67 EXPRESSION TAG SEQADV 2KHI SER A 265 UNP P0AG67 EXPRESSION TAG SEQADV 2KHI HIS A 266 UNP P0AG67 EXPRESSION TAG SEQRES 1 A 115 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 115 LEU VAL PRO ARG GLY SER HIS TRP VAL ALA ILE ALA LYS SEQRES 3 A 115 ARG TYR PRO GLU GLY THR LYS LEU THR GLY ARG VAL THR SEQRES 4 A 115 ASN LEU THR ASP TYR GLY CYS PHE VAL GLU ILE GLU GLU SEQRES 5 A 115 GLY VAL GLU GLY LEU VAL HIS VAL SER GLU MET ASP TRP SEQRES 6 A 115 THR ASN LYS ASN ILE HIS PRO SER LYS VAL VAL ASN VAL SEQRES 7 A 115 GLY ASP VAL VAL GLU VAL MET VAL LEU ASP ILE ASP GLU SEQRES 8 A 115 GLU ARG ARG ARG ILE SER LEU GLY LEU LYS GLN CYS LYS SEQRES 9 A 115 ALA ASN PRO TRP GLN GLN PHE ALA GLU THR HIS SHEET 1 A 5 GLU A 301 HIS A 305 0 SHEET 2 A 5 GLY A 291 GLU A 295 -1 N VAL A 294 O GLY A 302 SHEET 3 A 5 LYS A 279 THR A 288 -1 N ARG A 283 O GLU A 295 SHEET 4 A 5 VAL A 327 LEU A 333 -1 O VAL A 330 N LEU A 280 SHEET 5 A 5 SER A 343 LEU A 344 -1 O SER A 343 N LEU A 333 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