HEADER RNA BINDING PROTEIN 28-OCT-16 5M8I TITLE SOLUTION STRUCTURE OF CUG-BP2 RRM3 IN COMPLEX WITH 5'-UUUAA-3' RNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: CUGBP ELAV-LIKE FAMILY MEMBER 2; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: CELF-2,BRUNO-LIKE PROTEIN 3,CUG TRIPLET REPEAT RNA-BINDING COMPND 5 PROTEIN 2,CUG-BP2,CUG-BP- AND ETR-3-LIKE FACTOR 2,ELAV-TYPE RNA- COMPND 6 BINDING PROTEIN 3,ETR-3,NEUROBLASTOMA APOPTOSIS-RELATED RNA-BINDING COMPND 7 PROTEIN,HNAPOR,RNA-BINDING PROTEIN BRUNOL-3; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: YES; COMPND 10 MOL_ID: 2; COMPND 11 MOLECULE: RNA (5'-R(*UP*UP*UP*AP*A)-3'); COMPND 12 CHAIN: B; COMPND 13 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: CELF2, BRUNOL3, CUGBP2, ETR3, NAPOR; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_COMMON: HUMAN; SOURCE 12 ORGANISM_TAXID: 9606 KEYWDS RNA BINDING PROTEIN, RNA, RNA RECOGNITION MOTIF EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR N.DIARRA DIT KONTE,F.F.DAMBERGER,F.H.T.ALLAIN REVDAT 3 14-JUN-23 5M8I 1 REMARK REVDAT 2 08-MAY-19 5M8I 1 REMARK REVDAT 1 11-OCT-17 5M8I 0 JRNL AUTH N.DIARRA DIT KONTE,M.KREPL,F.F.DAMBERGER,N.RIPIN,O.DUSS, JRNL AUTH 2 J.SPONER,F.H.ALLAIN JRNL TITL AROMATIC SIDE-CHAIN CONFORMATIONAL SWITCH ON THE SURFACE OF JRNL TITL 2 THE RNA RECOGNITION MOTIF ENABLES RNA DISCRIMINATION. JRNL REF NAT COMMUN V. 8 654 2017 JRNL REFN ESSN 2041-1723 JRNL PMID 28935965 JRNL DOI 10.1038/S41467-017-00631-3 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : AMBER REMARK 3 AUTHORS : CASE, DARDEN, CHEATHAM III, SIMMERLING, WANG, REMARK 3 DUKE, LUO, ... AND KOLLMAN REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5M8I COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 01-NOV-16. REMARK 100 THE DEPOSITION ID IS D_1200001710. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 5.8 REMARK 210 IONIC STRENGTH : 130 REMARK 210 PRESSURE : AMBIENT PA REMARK 210 SAMPLE CONTENTS : 0.6 MM [U-99% 13C; U-99% 15N] REMARK 210 CUG-BP2 THIRD RNA RECOGNITION REMARK 210 MOTIF, 1.8 MM UNLABELED 5'-UUUAA- REMARK 210 3' RNA, 95% H2O/5% D2O; 0.8 MM REMARK 210 [U-99% 13C; U-99% 15N] CUG-BP2 REMARK 210 THIRD RNA RECOGNITION MOTIF, 0.8 REMARK 210 MM NON-LABELED 5'-UUUAA-3' RNA, REMARK 210 95% H2O/5% D2O; 0.8 MM [U-99% REMARK 210 15N] CUG-BP2 THIRD RNA REMARK 210 RECOGNITION MOTIF, 0.8 MM NON- REMARK 210 LABELED 5'-UUUAA-3' RNA, 95% H2O/ REMARK 210 5% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC REMARK 210 ALIPHATIC; 2D 1H-13C HSQC REMARK 210 AROMATIC; 3D 1H-15N NOESY; 3D 1H- REMARK 210 13C NOESY ALIPHATIC; 3D F1 13C- REMARK 210 FILTERED 1H-1H NOESY 13C-1H HSQC REMARK 210 AROMATIC; 3D F1 13C-FILTERED 1H- REMARK 210 1H NOESY 13C-1H HSQC ALIPHATIC; REMARK 210 NATURAL ABUNDANCE 2D 13C-1H HSQC; REMARK 210 2D F2 13C-FILTERED 1H-1H NOESY; REMARK 210 2D 1H-1H NOESY; 2D 1H-1H TOCSY; REMARK 210 3D HNHA; 2D 1H-15N HSQC LONG REMARK 210 RANGE; 3D 1H-13C NOESY AROMATIC REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 700 MHZ; 750 MHZ; 900 REMARK 210 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE III; AVANCE III HD REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : TOPSPIN, SPARKY, CANDID, CYANA REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 50 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY AND LEAST RESTRAINTS REMARK 210 VIOLATION 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1270 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 8530 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -4.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 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 2 A B 118 O4' - C1' - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 2 A B 119 O4' - C1' - N9 ANGL. DEV. = 5.5 DEGREES REMARK 500 3 A B 119 O4' - C1' - N9 ANGL. DEV. = 4.3 DEGREES REMARK 500 4 A B 119 O4' - C1' - N9 ANGL. DEV. = 4.4 DEGREES REMARK 500 5 A B 119 O4' - C1' - N9 ANGL. DEV. = 4.2 DEGREES REMARK 500 8 A B 119 O4' - C1' - N9 ANGL. DEV. = 5.0 DEGREES REMARK 500 9 A B 119 O4' - C1' - N9 ANGL. DEV. = 5.2 DEGREES REMARK 500 14 A B 118 O4' - C1' - N9 ANGL. DEV. = 4.8 DEGREES REMARK 500 15 A B 118 O4' - C1' - N9 ANGL. DEV. = 4.2 DEGREES REMARK 500 16 A B 118 O4' - C1' - N9 ANGL. DEV. = 4.8 DEGREES REMARK 500 17 A B 119 O4' - C1' - N9 ANGL. DEV. = 4.3 DEGREES REMARK 500 18 A B 119 O4' - C1' - N9 ANGL. DEV. = 4.4 DEGREES REMARK 500 19 A B 118 O4' - C1' - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 20 A B 118 O4' - C1' - N9 ANGL. DEV. = 4.9 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 HIS A 7 17.80 57.38 REMARK 500 1 HIS A 8 173.83 58.51 REMARK 500 1 SER A 11 5.13 -152.69 REMARK 500 1 MET A 21 173.79 49.37 REMARK 500 2 HIS A 5 19.92 55.92 REMARK 500 3 HIS A 5 173.11 59.74 REMARK 500 3 PRO A 16 21.52 -75.77 REMARK 500 3 ALA A 29 36.59 -90.76 REMARK 500 4 HIS A 5 -3.16 -153.63 REMARK 500 4 ARG A 17 20.30 -143.61 REMARK 500 4 MET A 21 156.05 57.05 REMARK 500 5 HIS A 20 18.44 -155.14 REMARK 500 6 HIS A 8 13.03 -141.99 REMARK 500 6 SER A 11 165.11 58.54 REMARK 500 6 SER A 19 156.83 59.87 REMARK 500 6 ALA A 29 36.62 -96.28 REMARK 500 7 SER A 3 13.29 55.74 REMARK 500 7 HIS A 6 -177.02 57.53 REMARK 500 7 HIS A 8 167.00 60.86 REMARK 500 7 HIS A 10 166.41 60.74 REMARK 500 7 SER A 12 18.20 57.68 REMARK 500 8 SER A 19 178.81 58.55 REMARK 500 9 HIS A 6 169.36 59.06 REMARK 500 9 SER A 19 -43.49 -164.29 REMARK 500 10 HIS A 8 -175.87 57.11 REMARK 500 10 SER A 19 150.56 57.53 REMARK 500 11 SER A 4 13.08 -155.18 REMARK 500 11 ALA A 29 39.76 -91.11 REMARK 500 12 HIS A 5 165.64 60.01 REMARK 500 12 ALA A 29 39.24 -93.13 REMARK 500 13 HIS A 9 -4.15 -150.04 REMARK 500 13 MET A 21 -178.51 55.25 REMARK 500 13 ALA A 29 39.90 -93.42 REMARK 500 14 HIS A 6 -5.78 -158.24 REMARK 500 14 ARG A 17 77.41 51.56 REMARK 500 14 HIS A 20 24.02 -75.57 REMARK 500 15 HIS A 5 -6.01 -154.49 REMARK 500 15 HIS A 9 1.72 -150.58 REMARK 500 16 HIS A 8 -12.12 -151.68 REMARK 500 17 SER A 4 153.25 61.95 REMARK 500 17 HIS A 5 43.78 -82.17 REMARK 500 17 SER A 19 163.75 58.74 REMARK 500 17 PRO A 26 -178.52 -68.69 REMARK 500 18 PRO A 16 22.55 -73.20 REMARK 500 18 ALA A 29 38.76 -92.99 REMARK 500 19 HIS A 9 -29.28 -155.18 REMARK 500 19 ARG A 17 -14.89 61.37 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 11 A B 118 0.05 SIDE CHAIN REMARK 500 14 A B 118 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 34057 RELATED DB: BMRB REMARK 900 SOLUTION STRUCTURE OF CUG-BP2 RRM3 IN COMPLEX WITH 5'-UUUAA-3' RNA DBREF 5M8I A 22 114 UNP O95319 CELF2_HUMAN 429 521 DBREF 5M8I B 115 119 PDB 5M8I 5M8I 115 119 SEQADV 5M8I MET A 1 UNP O95319 INITIATING METHIONINE SEQADV 5M8I GLY A 2 UNP O95319 EXPRESSION TAG SEQADV 5M8I SER A 3 UNP O95319 EXPRESSION TAG SEQADV 5M8I SER A 4 UNP O95319 EXPRESSION TAG SEQADV 5M8I HIS A 5 UNP O95319 EXPRESSION TAG SEQADV 5M8I HIS A 6 UNP O95319 EXPRESSION TAG SEQADV 5M8I HIS A 7 UNP O95319 EXPRESSION TAG SEQADV 5M8I HIS A 8 UNP O95319 EXPRESSION TAG SEQADV 5M8I HIS A 9 UNP O95319 EXPRESSION TAG SEQADV 5M8I HIS A 10 UNP O95319 EXPRESSION TAG SEQADV 5M8I SER A 11 UNP O95319 EXPRESSION TAG SEQADV 5M8I SER A 12 UNP O95319 EXPRESSION TAG SEQADV 5M8I GLY A 13 UNP O95319 EXPRESSION TAG SEQADV 5M8I LEU A 14 UNP O95319 EXPRESSION TAG SEQADV 5M8I VAL A 15 UNP O95319 EXPRESSION TAG SEQADV 5M8I PRO A 16 UNP O95319 EXPRESSION TAG SEQADV 5M8I ARG A 17 UNP O95319 EXPRESSION TAG SEQADV 5M8I GLY A 18 UNP O95319 EXPRESSION TAG SEQADV 5M8I SER A 19 UNP O95319 EXPRESSION TAG SEQADV 5M8I HIS A 20 UNP O95319 EXPRESSION TAG SEQADV 5M8I MET A 21 UNP O95319 EXPRESSION TAG SEQADV 5M8I TRP A 114 UNP O95319 TYR 521 ENGINEERED MUTATION SEQRES 1 A 114 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 114 LEU VAL PRO ARG GLY SER HIS MET GLN LYS GLU GLY PRO SEQRES 3 A 114 GLU GLY ALA ASN LEU PHE ILE TYR HIS LEU PRO GLN GLU SEQRES 4 A 114 PHE GLY ASP GLN ASP ILE LEU GLN MET PHE MET PRO PHE SEQRES 5 A 114 GLY ASN VAL ILE SER ALA LYS VAL PHE ILE ASP LYS GLN SEQRES 6 A 114 THR ASN LEU SER LYS CYS PHE GLY PHE VAL SER TYR ASP SEQRES 7 A 114 ASN PRO VAL SER ALA GLN ALA ALA ILE GLN ALA MET ASN SEQRES 8 A 114 GLY PHE GLN ILE GLY MET LYS ARG LEU LYS VAL GLN LEU SEQRES 9 A 114 LYS ARG SER LYS ASN ASP SER LYS PRO TRP SEQRES 1 B 5 U U U A A HELIX 1 AA1 GLY A 41 MET A 50 1 10 HELIX 2 AA2 PRO A 51 GLY A 53 5 3 HELIX 3 AA3 ASN A 79 ASN A 91 1 13 SHEET 1 AA1 4 VAL A 55 ILE A 62 0 SHEET 2 AA1 4 SER A 69 TYR A 77 -1 O PHE A 74 N LYS A 59 SHEET 3 AA1 4 ASN A 30 TYR A 34 -1 N LEU A 31 O VAL A 75 SHEET 4 AA1 4 LYS A 101 GLN A 103 -1 O GLN A 103 N PHE A 32 SHEET 1 AA2 2 GLN A 94 ILE A 95 0 SHEET 2 AA2 2 LYS A 98 ARG A 99 -1 O LYS A 98 N ILE A 95 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