HEADER RNA BINDING 01-MAR-05 2BL5 TITLE SOLUTION STRUCTURE OF THE KH-QUA2 REGION OF THE XENOPUS STAR-GSG TITLE 2 QUAKING PROTEIN. COMPND MOL_ID: 1; COMPND 2 MOLECULE: MGC83862 PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: KH-QUA2 REGION, RESIDUES 82-215; COMPND 5 SYNONYM: QUAKING PROTEIN; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: XENOPUS LAEVIS; SOURCE 3 ORGANISM_COMMON: AFRICAN CLAWED FROG; SOURCE 4 ORGANISM_TAXID: 8355; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 OTHER_DETAILS: GENE EXPRESSION WAS INDUCED BY THE ADDITION OF IPTG SOURCE 9 TO A FINAL CONCENTRATION OF 0.5 MM AND THE CELLS WERE INCUBATED FOR SOURCE 10 3 H AT 37 DEGREES C. THE CELLS WERE HARVESTED BY CENTRIFUGATION AT SOURCE 11 6000 RPM FOR 20 MIN AND STORED AT -20 DEGREES C UNTIL REQUIRED. THE SOURCE 12 CELLS WERE RESUSPENDED IN TE BUFFER (CONTAINING 1 MM EDTA, 25 MM SOURCE 13 TRIS) AT PH 8.0 AND THEN BROKEN IN A FRENCH PRESS. THE CELL DEBRIS SOURCE 14 WAS REMOVED BY CENTRIFUGATION AT 40000 G FOR 30 MIN, FOLLOWING WHICH SOURCE 15 THE PELLET WAS RESUSPENDED IN 50 ML OF 20 MM SODIUM PHOSPHATE SOURCE 16 CONTAINING 10 PER CENT TRITON X-100 AND 100 MM SODIUM CHLORIDE. THE SOURCE 17 CRUDE EXTRACT WAS ADDED TO 6 ML OF NI-NTA RESIN (QIAGEN), MIXED FOR SOURCE 18 2 H AT 4 DEGREES C, SPUN DOWN AT 5000 G FOR 10 MIN AND THE SOURCE 19 SUPERNATANT DISCARDED. THE BEADS WERE LOADED ON TO A COLUMN, WASHED SOURCE 20 WITH 2 VOLUMES OF RESUSPENSION BUFFER AND THEN 2 VOLUMES OF ELUTION SOURCE 21 BUFFER (CONTAINING 500 MM IMIDAZOLE, 50 MM SODIUM CHLORIDE AND 20 MM SOURCE 22 SODIUM PHOSPHATE). THE ELUATE WAS DESALTED ON A SEPHADEX G-25 PD-10 SOURCE 23 COLUMN (PHARMACIA) AND THEN CONCENTRATED TO 1 MM USING A BIOMAX 10K SOURCE 24 MEMBRANE TO A FINAL VOLUME OF 500 MICROLITRES. THE PROTEIN PRODUCT SOURCE 25 CORRESPONDS TO RESIDUES 81 TO 214 OF FULL LENGTH PXQUA, WITH A C- SOURCE 26 TERMINAL HIS6 EXTENSION KEYWDS STAR PROTEINS, GSG PROTEINS, QUAKING, RNA BINDING EXPDTA SOLUTION NMR NUMMDL 17 AUTHOR M.L.MAGUIRE,G.GULER-GANE,D.NIETLISPACH,A.R.C.RAINE,A.M.ZORN, AUTHOR 2 N.STANDART,R.W.BROADHURST REVDAT 3 15-MAY-24 2BL5 1 REMARK REVDAT 2 24-FEB-09 2BL5 1 VERSN REVDAT 1 14-APR-05 2BL5 0 JRNL AUTH M.L.MAGUIRE,G.GULER-GANE,D.NIETLISPACH,A.R.C.RAINE,A.M.ZORN, JRNL AUTH 2 N.STANDART,R.W.BROADHURST JRNL TITL SOLUTION STRUCTURE AND BACKBONE DYNAMICS OF THE KH-QUA2 JRNL TITL 2 REGION OF THE XENOPUS STAR/GSG QUAKING PROTEIN JRNL REF J.MOL.BIOL. V. 348 265 2005 JRNL REFN ISSN 0022-2836 JRNL PMID 15811367 JRNL DOI 10.1016/J.JMB.2005.02.058 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : ARIA 1.2 REMARK 3 AUTHORS : LINGE,HABECK,REIPING,NILGES REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REFINEMENT DETAILS CAN BE FOUND IN THE REMARK 3 JRNL CITATION ABOVE. REMARK 4 REMARK 4 2BL5 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 01-MAR-05. REMARK 100 THE DEPOSITION ID IS D_1290022993. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298.0 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 50 REMARK 210 PRESSURE : 1.0 ATM REMARK 210 SAMPLE CONTENTS : 90% WATER/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 15N-TOCSY-HSQC; 15N-NOESY- HSQC; REMARK 210 HNCACB; CBCACONH; HNCO; HCCH- REMARK 210 TOCSY; 13C- NOESY-HSQCHCCH-TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : DMX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : ANSIG REMARK 210 METHOD USED : ARIA REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 50 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 17 REMARK 210 CONFORMERS, SELECTION CRITERIA : NO DISTANCE RESTRAINT VIOLATIONS REMARK 210 GREATER THAN 0.5 ANGSTROMS AND REMARK 210 NO DIHEDRAL ANGLE RESTRAINT REMARK 210 VIOLATIONS GREATER THAN 5 DEGREES REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: STRUCTURE WAS DETERMINED USING A 13C,15N-LABELLED PROTEIN REMARK 210 SAMPLE 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 1-17 REMARK 465 RES C SSSEQI REMARK 465 HIS A 136 REMARK 465 HIS A 137 REMARK 465 HIS A 138 REMARK 465 HIS A 139 REMARK 465 HIS A 140 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (RES=RESIDUE NAME; REMARK 470 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 470 MODELS 1-17 REMARK 470 RES CSSEQI ATOMS REMARK 470 HIS A 135 CA C O CB CG ND1 CD2 REMARK 470 HIS A 135 CE1 NE2 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 HB2 CYS A 39 HD21 LEU A 88 1.15 REMARK 500 HA MET A 112 HB2 GLU A 116 1.24 REMARK 500 HB3 GLN A 3 HD13 LEU A 74 1.31 REMARK 500 HG CYS A 39 HD11 LEU A 88 1.33 REMARK 500 HZ1 LYS A 11 OD1 ASP A 70 1.57 REMARK 500 O LEU A 33 HG1 THR A 37 1.58 REMARK 500 REMARK 500 REMARK: NULL 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),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 2 PHE A 18 CZ PHE A 18 CE2 0.139 REMARK 500 7 PHE A 18 CZ PHE A 18 CE2 0.116 REMARK 500 9 PHE A 18 CE1 PHE A 18 CZ -0.115 REMARK 500 9 PHE A 18 CZ PHE A 18 CE2 0.145 REMARK 500 12 PHE A 18 CE1 PHE A 18 CZ -0.148 REMARK 500 12 PHE A 18 CZ PHE A 18 CE2 0.170 REMARK 500 14 PHE A 18 CZ PHE A 18 CE2 0.117 REMARK 500 15 PHE A 18 CZ PHE A 18 CE2 0.132 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 PRO A 9 97.60 -66.15 REMARK 500 1 ARG A 50 24.69 -57.84 REMARK 500 1 PRO A 62 -32.50 -28.16 REMARK 500 1 ASP A 79 165.24 172.20 REMARK 500 1 PRO A 101 14.79 -67.61 REMARK 500 1 ASP A 107 -55.21 69.49 REMARK 500 1 ILE A 119 -72.50 -71.18 REMARK 500 1 ARG A 125 -66.91 66.99 REMARK 500 1 LYS A 130 86.35 -159.44 REMARK 500 1 ALA A 133 61.19 -102.55 REMARK 500 1 LEU A 134 -70.48 -76.73 REMARK 500 2 TYR A 13 78.30 -119.74 REMARK 500 2 ARG A 50 26.54 -65.36 REMARK 500 2 PRO A 62 -33.88 -22.34 REMARK 500 2 ASP A 79 142.52 -179.16 REMARK 500 2 ALA A 102 -78.11 77.69 REMARK 500 2 ALA A 118 10.31 179.91 REMARK 500 2 ILE A 119 -72.54 61.64 REMARK 500 2 ARG A 125 -53.61 71.26 REMARK 500 2 LEU A 134 -96.46 57.47 REMARK 500 3 LYS A 46 91.95 -61.58 REMARK 500 3 ARG A 50 28.09 -63.74 REMARK 500 3 PRO A 62 -32.94 -26.43 REMARK 500 3 ASP A 79 131.46 166.13 REMARK 500 3 LEU A 99 4.71 -67.35 REMARK 500 3 PRO A 101 7.24 -62.89 REMARK 500 3 ALA A 102 -37.16 81.53 REMARK 500 3 GLU A 104 177.75 63.56 REMARK 500 3 ALA A 118 39.81 -149.50 REMARK 500 3 ILE A 119 -99.60 33.22 REMARK 500 3 TYR A 124 -111.84 27.52 REMARK 500 3 ARG A 125 -57.97 64.68 REMARK 500 3 ALA A 133 -45.97 75.09 REMARK 500 3 LEU A 134 -90.15 64.32 REMARK 500 4 ARG A 50 29.38 -67.03 REMARK 500 4 PRO A 62 -33.18 -27.44 REMARK 500 4 ASP A 79 161.03 172.95 REMARK 500 4 LEU A 99 5.77 -67.89 REMARK 500 4 ALA A 102 -162.86 64.50 REMARK 500 4 GLU A 104 -75.95 -112.44 REMARK 500 4 ASP A 107 -44.32 77.50 REMARK 500 4 LEU A 114 -64.89 -94.57 REMARK 500 4 ALA A 118 78.56 68.29 REMARK 500 4 TYR A 124 -82.92 -84.84 REMARK 500 4 ARG A 125 -30.59 67.74 REMARK 500 4 LEU A 134 65.36 61.20 REMARK 500 5 ARG A 50 27.56 -79.99 REMARK 500 5 PRO A 62 -34.51 -27.40 REMARK 500 5 ASP A 79 150.73 168.25 REMARK 500 5 ALA A 102 -58.07 77.17 REMARK 500 REMARK 500 THIS ENTRY HAS 179 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 14 PHE A 16 0.09 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL DBREF 2BL5 A 1 134 UNP Q6IRN2 Q6IRN2_XENLA 82 215 DBREF 2BL5 A 135 140 PDB 2BL5 2BL5 135 140 SEQRES 1 A 140 GLN LEU GLN GLU LYS LEU TYR VAL PRO VAL LYS GLU TYR SEQRES 2 A 140 PRO ASP PHE ASN PHE VAL GLY ARG ILE LEU GLY PRO ARG SEQRES 3 A 140 GLY LEU THR ALA LYS GLN LEU GLU ALA GLU THR GLY CYS SEQRES 4 A 140 LYS ILE MET VAL ARG GLY LYS GLY SER MET ARG ASP LYS SEQRES 5 A 140 LYS LYS GLU GLU GLN ASN ARG GLY LYS PRO ASN TRP GLU SEQRES 6 A 140 HIS LEU ASN GLU ASP LEU HIS VAL LEU ILE THR VAL GLU SEQRES 7 A 140 ASP ALA GLN ASN ARG ALA GLU LEU LYS LEU LYS ARG ALA SEQRES 8 A 140 VAL GLU GLU VAL LYS LYS LEU LEU VAL PRO ALA ALA GLU SEQRES 9 A 140 GLY GLU ASP SER LEU LYS LYS MET LYS LEU MET GLU LEU SEQRES 10 A 140 ALA ILE LEU ASN GLY THR TYR ARG ASP ALA ASN LEU LYS SEQRES 11 A 140 SER PRO ALA LEU HIS HIS HIS HIS HIS HIS HELIX 1 1 ASN A 17 LEU A 23 1 7 HELIX 2 2 ARG A 26 GLY A 38 1 13 HELIX 3 3 ASP A 51 GLN A 57 1 7 HELIX 4 4 LYS A 61 HIS A 66 1 6 HELIX 5 5 GLN A 81 LEU A 99 1 19 HELIX 6 6 ASP A 107 MET A 115 1 9 HELIX 7 7 GLU A 116 ILE A 119 5 4 HELIX 8 8 ARG A 125 LYS A 130 5 6 SHEET 1 AA 3 LEU A 2 TYR A 7 0 SHEET 2 AA 3 HIS A 72 VAL A 77 -1 O VAL A 73 N LEU A 6 SHEET 3 AA 3 CYS A 39 ARG A 44 -1 O LYS A 40 N THR A 76 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