HEADER RNA BINDING PROTEIN 19-JUL-02 1M7C TITLE STUCTURAL MODEL OF E. COLI HFQ COMPND MOL_ID: 1; COMPND 2 MOLECULE: HFQ PROTEIN; COMPND 3 CHAIN: A, B, C, D, E, F; COMPND 4 FRAGMENT: SM-LIKE N-TERMINAL REGION SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_COMMON: BACTERIA KEYWDS RNA BINDING PROTEIN, MRNA STABILITY, POLYADENAYLATION, SM- KEYWDS 2 LIKE EXPDTA THEORETICAL MODEL AUTHOR V.ARLUISON,P.DERREUMAUX,F.ALLEMAND,M.FOLICHON,E.HAJNSDORF, AUTHOR 2 P.REGNIER REVDAT 1 07-AUG-02 1M7C 0 JRNL AUTH V.ARLUISON,P.DERREUMAUX,F.ALLEMAND,M.FOLICHON, JRNL AUTH 2 E.HAJNSDORF,P.REGNIER JRNL TITL STRUCTURAL MODELLING OF THE SM-LIKE PROTEIN HFQ JRNL TITL 2 FROM ESCHERICHIA COLI. JRNL REF J.MOL.BIOL. V. 320 705 2002 JRNL REFN ASTM JMOBAK UK ISSN 0022-2836 REMARK 1 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NULL REMARK 3 AUTHORS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1M7C COMPLIES WITH FORMAT V. 2.3, 09-JULY-1998 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 23-JUL-2002. REMARK 100 THE RCSB ID CODE IS RCSB016686. REMARK 220 REMARK 220 EXPERIMENTAL DETAILS REMARK 220 EXPERIMENT TYPE : THEORETICAL MODELLING REMARK 220 REMARK 220 REMARK: STRUCTURAL MODELLING, FOLD RECOGNITION METHOD, REMARK 220 OPTIMISED SEQUENCE-STRUCTURE ALIGNMENT, SWISS MODEL, REMARK 220 CHARMM, PROCHECK; FOLD RECOGNITION METHOD: TOPITS, 3D- REMARK 220 PSSM, GENTHREADER, 123D AND FISCHER'S METHOD, AUTHORS: REMARK 220 ROST, B., SCHNEIDER, R. & SANDER, C. (1997). J.MOL.BIOL. REMARK 220 270, 471-80. KELLEY, L.A., MACCALLUM, R.M. & STERNBERG, REMARK 220 M.J.E. (2000). J.MOL.BIOL. 299, 501-522. JONES, D.T. REMARK 220 (1999). J.MOL.BIOL. 287, 797-815. ALEXANDROV, N.N., REMARK 220 NUSSINOV, R. & ZIMMER, R.; MODELISATION: SWISS MODEL, REMARK 220 AUTHORS: GUEX, N. & PEITSCH, M.C. (1997). REMARK 220 ELECTROPHORESIS 18, 2714-23.; CHARMM: CHARMM19 WITH EEF1 REMARK 220 SOLVENT MODEL; STEREOCHEMICAL VERIFICATIONS: PROCHECK, REMARK 220 AUTHORS: LASKOWSKI, R.A., MACARTHUR, M.W., MOSS, D.S. & REMARK 220 THORNTON, J.M. (1993) J.APP.CRYST. 26, 283. THE REMARK 220 PREDICTED MODEL DEVIATES BY 1.77 A FROM THE EXPERIMENTAL REMARK 220 STRUCTURE OF HFQ FROM S. AUREUS (SCHUMACHER, M.A., REMARK 220 PEARSON, R.F., MOLLER, T., VALENTIN-HANSEN, P., BRENNAN, REMARK 220 R.G. (2002) EMBO J 21:3546-3556) VIA THE PROCESS OF REMARK 220 BLIND PREDICTION. REMARK 225 REMARK 225 THEORETICAL MODEL REMARK 225 THE COORDINATES IN THIS ENTRY REPRESENT A MODEL STRUCTURE. REMARK 225 PROTEIN DATA BANK CONVENTIONS REQUIRE THAT CRYST1 AND REMARK 225 SCALE RECORDS BE INCLUDED, BUT THE VALUES ON THESE REMARK 225 RECORDS ARE MEANINGLESS. 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 REMARK 500 N PRO C 192 SD MET D 249 2.10 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),F6.3) REMARK 500 REMARK 500 EXPECTED VALUES: ENGH AND HUBER, 1991 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 PRO C 192 N PRO C 192 CA 0.535 REMARK 500 PRO C 192 CA PRO C 192 CB 0.949 REMARK 500 PRO C 192 CB PRO C 192 CG 0.972 REMARK 500 PRO C 192 CG PRO C 192 CD 0.973 REMARK 500 PRO C 192 CD PRO C 192 N 0.531 REMARK 500 MET D 249 CG MET D 249 SD 1.069 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: ENGH AND HUBER, 1991 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 PRO C 192 CA - N - CD ANGL. DEV. = 15.0 DEGREES REMARK 500 MET D 249 CB - CG - SD ANGL. DEV. = 28.4 DEGREES REMARK 500 MET D 249 CG - SD - CE ANGL. DEV. = 45.4 DEGREES DBREF 1M7C A 1 68 UNP P25521 HFQ_ECOLI 8 75 DBREF 1M7C B 69 136 UNP P25521 HFQ_ECOLI 8 75 DBREF 1M7C C 137 204 UNP P25521 HFQ_ECOLI 8 75 DBREF 1M7C D 205 272 UNP P25521 HFQ_ECOLI 8 75 DBREF 1M7C E 273 340 UNP P25521 HFQ_ECOLI 8 75 DBREF 1M7C F 341 408 UNP P25521 HFQ_ECOLI 8 75 SEQRES 1 A 68 ASP PRO PHE LEU ASN ALA LEU ARG ARG GLU ARG VAL PRO SEQRES 2 A 68 VAL SER ILE TYR LEU VAL ASN GLY ILE LYS LEU GLN GLY SEQRES 3 A 68 GLN ILE GLU SER PHE ASP GLN PHE VAL ILE LEU LEU LYS SEQRES 4 A 68 ASN THR VAL SER GLN MET VAL TYR LYS HIS ALA ILE SER SEQRES 5 A 68 THR VAL VAL PRO SER ARG PRO VAL SER HIS HIS SER ASN SEQRES 6 A 68 ASN ALA GLY SEQRES 1 B 68 ASP PRO PHE LEU ASN ALA LEU ARG ARG GLU ARG VAL PRO SEQRES 2 B 68 VAL SER ILE TYR LEU VAL ASN GLY ILE LYS LEU GLN GLY SEQRES 3 B 68 GLN ILE GLU SER PHE ASP GLN PHE VAL ILE LEU LEU LYS SEQRES 4 B 68 ASN THR VAL SER GLN MET VAL TYR LYS HIS ALA ILE SER SEQRES 5 B 68 THR VAL VAL PRO SER ARG PRO VAL SER HIS HIS SER ASN SEQRES 6 B 68 ASN ALA GLY SEQRES 1 C 68 ASP PRO PHE LEU ASN ALA LEU ARG ARG GLU ARG VAL PRO SEQRES 2 C 68 VAL SER ILE TYR LEU VAL ASN GLY ILE LYS LEU GLN GLY SEQRES 3 C 68 GLN ILE GLU SER PHE ASP GLN PHE VAL ILE LEU LEU LYS SEQRES 4 C 68 ASN THR VAL SER GLN MET VAL TYR LYS HIS ALA ILE SER SEQRES 5 C 68 THR VAL VAL PRO SER ARG PRO VAL SER HIS HIS SER ASN SEQRES 6 C 68 ASN ALA GLY SEQRES 1 D 68 ASP PRO PHE LEU ASN ALA LEU ARG ARG GLU ARG VAL PRO SEQRES 2 D 68 VAL SER ILE TYR LEU VAL ASN GLY ILE LYS LEU GLN GLY SEQRES 3 D 68 GLN ILE GLU SER PHE ASP GLN PHE VAL ILE LEU LEU LYS SEQRES 4 D 68 ASN THR VAL SER GLN MET VAL TYR LYS HIS ALA ILE SER SEQRES 5 D 68 THR VAL VAL PRO SER ARG PRO VAL SER HIS HIS SER ASN SEQRES 6 D 68 ASN ALA GLY SEQRES 1 E 68 ASP PRO PHE LEU ASN ALA LEU ARG ARG GLU ARG VAL PRO SEQRES 2 E 68 VAL SER ILE TYR LEU VAL ASN GLY ILE LYS LEU GLN GLY SEQRES 3 E 68 GLN ILE GLU SER PHE ASP GLN PHE VAL ILE LEU LEU LYS SEQRES 4 E 68 ASN THR VAL SER GLN MET VAL TYR LYS HIS ALA ILE SER SEQRES 5 E 68 THR VAL VAL PRO SER ARG PRO VAL SER HIS HIS SER ASN SEQRES 6 E 68 ASN ALA GLY SEQRES 1 F 68 ASP PRO PHE LEU ASN ALA LEU ARG ARG GLU ARG VAL PRO SEQRES 2 F 68 VAL SER ILE TYR LEU VAL ASN GLY ILE LYS LEU GLN GLY SEQRES 3 F 68 GLN ILE GLU SER PHE ASP GLN PHE VAL ILE LEU LEU LYS SEQRES 4 F 68 ASN THR VAL SER GLN MET VAL TYR LYS HIS ALA ILE SER SEQRES 5 F 68 THR VAL VAL PRO SER ARG PRO VAL SER HIS HIS SER ASN SEQRES 6 F 68 ASN ALA GLY HELIX 1 1 ASP A 1 ARG A 9 1 9 HELIX 2 2 ALA A 50 SER A 52 5 3 HELIX 3 3 HIS A 62 GLY A 68 1 7 HELIX 4 4 ASP B 69 ARG B 76 1 8 HELIX 5 5 HIS B 130 GLY B 136 1 7 HELIX 6 6 ASP C 137 ARG C 144 1 8 HELIX 7 7 ALA C 186 SER C 188 5 3 HELIX 8 8 HIS C 198 GLY C 204 1 7 HELIX 9 9 ASP D 205 ARG D 212 1 8 HELIX 10 10 HIS D 266 GLY D 272 1 7 HELIX 11 11 ASP E 273 ARG E 280 1 8 HELIX 12 12 ALA E 322 SER E 324 5 3 HELIX 13 13 HIS E 334 GLY E 340 1 7 HELIX 14 14 ASP F 341 ARG F 348 1 8 HELIX 15 15 HIS F 402 GLY F 408 1 7 SHEET 1 A 2 SER A 15 TYR A 17 0 SHEET 2 A 2 LYS A 23 GLN A 25 -1 O LEU A 24 N ILE A 16 SHEET 1 B 3 GLN A 27 PHE A 31 0 SHEET 2 B 3 ILE A 36 ASN A 40 -1 O LEU A 38 N SER A 30 SHEET 3 B 3 GLN A 44 LYS A 48 -1 O MET A 45 N LYS A 39 SHEET 1 C 6 PRO A 56 SER A 57 0 SHEET 2 C 6 GLN B 112 LYS B 116 -1 O GLN B 112 N SER A 57 SHEET 3 C 6 ILE B 104 ASN B 108 -1 N LYS B 107 O MET B 113 SHEET 4 C 6 LYS B 91 PHE B 99 -1 N GLN B 95 O ASN B 108 SHEET 5 C 6 VAL B 80 LEU B 86 -1 N ILE B 84 O LEU B 92 SHEET 6 C 6 SER B 120 THR B 121 -1 O THR B 121 N TYR B 85 SHEET 1 D 4 PRO C 149 TYR C 153 0 SHEET 2 D 4 LYS C 159 PHE C 167 -1 O LEU C 160 N ILE C 152 SHEET 3 D 4 ILE C 172 ASN C 176 -1 O ASN C 176 N GLN C 163 SHEET 4 D 4 GLN C 180 LYS C 184 -1 O MET C 181 N LYS C 175 SHEET 1 E 6 PRO C 192 SER C 193 0 SHEET 2 E 6 GLN D 248 LYS D 252 -1 O GLN D 248 N SER C 193 SHEET 3 E 6 ILE D 240 ASN D 244 -1 N LYS D 243 O MET D 249 SHEET 4 E 6 LYS D 227 PHE D 235 -1 N GLN D 231 O ASN D 244 SHEET 5 E 6 PRO D 217 LEU D 222 -1 N ILE D 220 O LEU D 228 SHEET 6 E 6 SER D 256 THR D 257 -1 O THR D 257 N TYR D 221 SHEET 1 F 4 PRO E 285 TYR E 289 0 SHEET 2 F 4 LYS E 295 PHE E 303 -1 O LEU E 296 N ILE E 288 SHEET 3 F 4 ILE E 308 ASN E 312 -1 O LEU E 310 N SER E 302 SHEET 4 F 4 GLN E 316 LYS E 320 -1 O MET E 317 N LYS E 311 SHEET 1 G 6 PRO E 328 SER E 329 0 SHEET 2 G 6 GLN F 384 LYS F 388 -1 O GLN F 384 N SER E 329 SHEET 3 G 6 ILE F 376 ASN F 380 -1 N LYS F 379 O MET F 385 SHEET 4 G 6 LYS F 363 PHE F 371 -1 N GLN F 367 O ASN F 380 SHEET 5 G 6 PRO F 353 LEU F 358 -1 N ILE F 356 O LEU F 364 SHEET 6 G 6 SER F 392 THR F 393 -1 O THR F 393 N TYR F 357 CISPEP 1 ARG A 58 PRO A 59 0 -7.85 CISPEP 2 ARG B 126 PRO B 127 0 -9.36 CISPEP 3 ARG C 194 PRO C 195 0 -8.32 CISPEP 4 VAL D 246 SER D 247 0 -7.82 CISPEP 5 ARG D 262 PRO D 263 0 -8.05 CISPEP 6 ARG E 330 PRO E 331 0 -1.66 CISPEP 7 ARG F 398 PRO F 399 0 -7.28 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 MASTER 89 0 0 15 31 0 0 6 0 0 0 36 END