HEADER RNA BINDING PROTEIN 27-FEB-17 5UZM TITLE CRYSTAL STRUCTURE OF GLORUND QRRM2 DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: AT27789P; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: RESIDUES 142-234; COMPND 5 SYNONYM: GLORUND,ISOFORM A,ISOFORM B; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DROSOPHILA MELANOGASTER; SOURCE 3 ORGANISM_COMMON: FRUIT FLY; SOURCE 4 ORGANISM_TAXID: 7227; SOURCE 5 GENE: GLO, CG6946, DMEL_CG6946; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS QUASI-RNA RECOGNITION MOTIF, QRRM, RNA BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR T.TERAMOTO,T.M.T.HALL REVDAT 4 04-OCT-23 5UZM 1 REMARK REVDAT 3 19-APR-17 5UZM 1 JRNL REVDAT 2 29-MAR-17 5UZM 1 JRNL REVDAT 1 22-MAR-17 5UZM 0 JRNL AUTH J.V.TAMAYO,T.TERAMOTO,S.CHATTERJEE,T.M.HALL,E.R.GAVIS JRNL TITL THE DROSOPHILA HNRNP F/H HOMOLOG GLORUND USES TWO DISTINCT JRNL TITL 2 RNA-BINDING MODES TO DIVERSIFY TARGET RECOGNITION. JRNL REF CELL REP V. 19 150 2017 JRNL REFN ESSN 2211-1247 JRNL PMID 28380354 JRNL DOI 10.1016/J.CELREP.2017.03.022 REMARK 2 REMARK 2 RESOLUTION. 1.55 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.10.1_2155) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.55 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 32.54 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.240 REMARK 3 COMPLETENESS FOR RANGE (%) : 93.0 REMARK 3 NUMBER OF REFLECTIONS : 23924 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.196 REMARK 3 R VALUE (WORKING SET) : 0.193 REMARK 3 FREE R VALUE : 0.239 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.070 REMARK 3 FREE R VALUE TEST SET COUNT : 1214 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 32.5491 - 3.2270 0.98 2759 145 0.1680 0.2369 REMARK 3 2 3.2270 - 2.5617 0.99 2677 163 0.1987 0.2185 REMARK 3 3 2.5617 - 2.2380 0.99 2682 141 0.1946 0.2292 REMARK 3 4 2.2380 - 2.0334 0.98 2651 147 0.1894 0.2185 REMARK 3 5 2.0334 - 1.8877 0.98 2634 147 0.2053 0.2462 REMARK 3 6 1.8877 - 1.7764 0.97 2602 141 0.2220 0.2964 REMARK 3 7 1.7764 - 1.6874 0.94 2515 135 0.2427 0.2722 REMARK 3 8 1.6874 - 1.6140 0.84 2279 106 0.2425 0.3074 REMARK 3 9 1.6140 - 1.5518 0.70 1911 89 0.2452 0.3053 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.200 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 25.940 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.011 1523 REMARK 3 ANGLE : 1.070 2048 REMARK 3 CHIRALITY : 0.065 218 REMARK 3 PLANARITY : 0.007 274 REMARK 3 DIHEDRAL : 25.327 939 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5UZM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-FEB-17. REMARK 100 THE DEPOSITION ID IS D_1000226671. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-FEB-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23996 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.550 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.4 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : 0.05000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 34.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 2KG0 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.85 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.08 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M AMMONIUM ACETATE, 20% V/V PEG REMARK 280 3350, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 14.48450 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 350 REMARK 350 BIOMOLECULE: 2 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: B 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. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 GLY A 138 REMARK 465 SER A 139 REMARK 465 HIS A 140 REMARK 465 MET A 141 REMARK 465 HIS A 142 REMARK 465 GLY A 233 REMARK 465 ALA A 234 REMARK 465 GLY B 138 REMARK 465 SER B 139 REMARK 465 HIS B 140 REMARK 465 MET B 141 REMARK 465 HIS B 142 REMARK 465 GLY B 143 REMARK 465 GLY B 233 REMARK 465 ALA B 234 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 PHE A 146 47.30 -84.23 REMARK 500 SER A 223 -154.20 -143.93 REMARK 500 SER B 223 -149.85 -140.31 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5UZG RELATED DB: PDB REMARK 900 5UZG IS SAME PROTEIN BUT DIFFERENT DOMAIN (REGION). REMARK 900 RELATED ID: 5UZN RELATED DB: PDB DBREF 5UZM A 142 234 UNP Q9VGH5 Q9VGH5_DROME 142 234 DBREF 5UZM B 142 234 UNP Q9VGH5 Q9VGH5_DROME 142 234 SEQADV 5UZM GLY A 138 UNP Q9VGH5 EXPRESSION TAG SEQADV 5UZM SER A 139 UNP Q9VGH5 EXPRESSION TAG SEQADV 5UZM HIS A 140 UNP Q9VGH5 EXPRESSION TAG SEQADV 5UZM MET A 141 UNP Q9VGH5 EXPRESSION TAG SEQADV 5UZM GLY B 138 UNP Q9VGH5 EXPRESSION TAG SEQADV 5UZM SER B 139 UNP Q9VGH5 EXPRESSION TAG SEQADV 5UZM HIS B 140 UNP Q9VGH5 EXPRESSION TAG SEQADV 5UZM MET B 141 UNP Q9VGH5 EXPRESSION TAG SEQRES 1 A 97 GLY SER HIS MET HIS GLY THR ALA PHE VAL VAL LYS LEU SEQRES 2 A 97 ARG GLY LEU PRO TYR ALA VAL THR GLU GLN GLN ILE GLU SEQRES 3 A 97 GLU PHE PHE SER GLY LEU ASP ILE LYS THR ASP ARG GLU SEQRES 4 A 97 GLY ILE LEU PHE VAL MET ASP ARG ARG GLY ARG ALA THR SEQRES 5 A 97 GLY GLU ALA PHE VAL GLN PHE GLU SER GLN ASP ASP THR SEQRES 6 A 97 GLU GLN ALA LEU GLY ARG ASN ARG GLU LYS ILE GLY HIS SEQRES 7 A 97 ARG TYR ILE GLU ILE PHE ARG SER SER ILE ALA GLU MET SEQRES 8 A 97 LYS ARG ALA THR GLY ALA SEQRES 1 B 97 GLY SER HIS MET HIS GLY THR ALA PHE VAL VAL LYS LEU SEQRES 2 B 97 ARG GLY LEU PRO TYR ALA VAL THR GLU GLN GLN ILE GLU SEQRES 3 B 97 GLU PHE PHE SER GLY LEU ASP ILE LYS THR ASP ARG GLU SEQRES 4 B 97 GLY ILE LEU PHE VAL MET ASP ARG ARG GLY ARG ALA THR SEQRES 5 B 97 GLY GLU ALA PHE VAL GLN PHE GLU SER GLN ASP ASP THR SEQRES 6 B 97 GLU GLN ALA LEU GLY ARG ASN ARG GLU LYS ILE GLY HIS SEQRES 7 B 97 ARG TYR ILE GLU ILE PHE ARG SER SER ILE ALA GLU MET SEQRES 8 B 97 LYS ARG ALA THR GLY ALA FORMUL 3 HOH *127(H2 O) HELIX 1 AA1 THR A 158 PHE A 166 1 9 HELIX 2 AA2 ASP A 174 GLU A 176 5 3 HELIX 3 AA3 SER A 198 GLY A 207 1 10 HELIX 4 AA4 SER A 224 THR A 232 1 9 HELIX 5 AA5 THR B 158 PHE B 166 1 9 HELIX 6 AA6 SER B 198 GLY B 207 1 10 HELIX 7 AA7 SER B 224 THR B 232 1 9 SHEET 1 AA1 4 ILE A 178 MET A 182 0 SHEET 2 AA1 4 ALA A 188 GLN A 195 -1 O PHE A 193 N LEU A 179 SHEET 3 AA1 4 VAL A 147 ARG A 151 -1 N LEU A 150 O ALA A 192 SHEET 4 AA1 4 GLU A 219 ARG A 222 -1 O PHE A 221 N LYS A 149 SHEET 1 AA2 2 LYS A 212 ILE A 213 0 SHEET 2 AA2 2 ARG A 216 TYR A 217 -1 O ARG A 216 N ILE A 213 SHEET 1 AA3 4 ILE B 178 MET B 182 0 SHEET 2 AA3 4 ALA B 188 PHE B 196 -1 O PHE B 193 N LEU B 179 SHEET 3 AA3 4 PHE B 146 ARG B 151 -1 N PHE B 146 O PHE B 196 SHEET 4 AA3 4 GLU B 219 ARG B 222 -1 O PHE B 221 N LYS B 149 SHEET 1 AA4 2 LYS B 212 ILE B 213 0 SHEET 2 AA4 2 ARG B 216 TYR B 217 -1 O ARG B 216 N ILE B 213 CRYST1 45.770 28.969 69.520 90.00 106.77 90.00 P 1 21 1 4 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 0.021848 0.000000 0.006586 0.00000 SCALE2 0.000000 0.034520 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015024 0.00000