HEADER RNA BINDING PROTEIN 21-JAN-15 2MY7 TITLE NMR STRUCTURE OF UNFOLDING INTERMEDIATE STATE OF RRM-3 DOMAIN OF ETR-3 COMPND MOL_ID: 1; COMPND 2 MOLECULE: CUGBP ELAV-LIKE FAMILY MEMBER 2; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 416-508; COMPND 5 SYNONYM: CELF-2, BRUNO-LIKE PROTEIN 3, CUG TRIPLET REPEAT RNA-BINDING COMPND 6 PROTEIN 2, CUG-BP2, CUG-BP- AND ETR-3-LIKE FACTOR 2, ELAV-TYPE RNA- COMPND 7 BINDING PROTEIN 3, ETR-3, NEUROBLASTOMA APOPTOSIS-RELATED RNA-BINDING COMPND 8 PROTEIN, HNAPOR, RNA-BINDING PROTEIN BRUNOL-3; COMPND 9 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: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS ETR 3 RRM-3, INTERMEDIATE STATE, PROTEIN FOLDING, RNA BINDING PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR H.P.BHATT,A.K.GANGULY,N.S.BHAVESH REVDAT 4 14-JUN-23 2MY7 1 REMARK REVDAT 3 24-AUG-22 2MY7 1 JRNL REVDAT 2 01-JAN-20 2MY7 1 JRNL REMARK SEQADV REVDAT 1 04-FEB-15 2MY7 0 SPRSDE 04-FEB-15 2MY7 2MIK JRNL AUTH H.BHATT,A.K.GANGULY,S.SHARMA,G.S.KUSHWAHA,M.FIROZ KHAN, JRNL AUTH 2 S.SEN,N.S.BHAVESH JRNL TITL STRUCTURE OF AN UNFOLDING INTERMEDIATE OF AN RRM DOMAIN OF JRNL TITL 2 ETR-3 REVEALS ITS NATIVE-LIKE FOLD. JRNL REF BIOPHYS.J. V. 118 352 2020 JRNL REFN ESSN 1542-0086 JRNL PMID 31866002 JRNL DOI 10.1016/J.BPJ.2019.11.3392 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : TOPSPIN, CYANA REMARK 3 AUTHORS : BRUKER BIOSPIN (TOPSPIN), GUNTERT, MUMENTHALER AND REMARK 3 WUTHRICH (CYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: WATER REFINEMENT REMARK 4 REMARK 4 2MY7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-JAN-15. REMARK 100 THE DEPOSITION ID IS D_1000104192. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 0.02 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1 MM [U-99% 13C; U-99% 15N] RRM3 REMARK 210 INTERMEDIATE STATE, 50 MM SODIUM REMARK 210 CHLORIDE, 20 MM SODIUM PHOSPHATE, REMARK 210 6 M UREA, 95% H2O/5% D2O; 1 MM REMARK 210 [U-99% 15N] RRM3 INTERMEDIATE REMARK 210 STATE, 50 MM SODIUM CHLORIDE, 20 REMARK 210 MM SODIUM PHOSPHATE, 6 M UREA, REMARK 210 95% H2O/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 HNCA; 3D HNCACB; 3D REMARK 210 1H-15N NOESY; 3D 1H-13C NOESY REMARK 210 ALIPHATIC; 3D 1H-13C NOESY REMARK 210 AROMATIC; 3D HNCO REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 700 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : TOPSPIN, CARA, CYANA REMARK 210 METHOD USED : DGSA-DISTANCE GEOMETRY SIMULATED REMARK 210 ANNEALING, MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS 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 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 9 TYR A 453 CB - CG - CD1 ANGL. DEV. = 3.6 DEGREES REMARK 500 11 GLU A 403 N - CA - CB ANGL. DEV. = -11.4 DEGREES REMARK 500 14 PHE A 416 CB - CG - CD1 ANGL. DEV. = 5.0 DEGREES REMARK 500 16 PHE A 416 CB - CG - CD1 ANGL. DEV. = 4.4 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 GLU A 403 102.18 -28.61 REMARK 500 1 LYS A 446 -83.60 -148.47 REMARK 500 1 ASP A 454 -75.29 -34.73 REMARK 500 1 PRO A 456 -11.45 -35.03 REMARK 500 1 PHE A 469 108.00 -54.66 REMARK 500 1 LYS A 481 105.83 -57.47 REMARK 500 2 GLU A 403 102.19 -27.15 REMARK 500 2 HIS A 411 32.15 72.60 REMARK 500 2 ASP A 439 105.10 -56.85 REMARK 500 2 ASN A 443 62.93 74.21 REMARK 500 2 LYS A 446 -80.09 -164.17 REMARK 500 2 ASP A 454 -82.31 -9.57 REMARK 500 2 PRO A 456 -38.29 -24.77 REMARK 500 2 ILE A 463 -39.74 -39.89 REMARK 500 2 LYS A 481 104.80 -55.28 REMARK 500 2 SER A 483 -161.10 63.80 REMARK 500 2 LYS A 484 18.51 -157.48 REMARK 500 2 LYS A 488 87.29 59.42 REMARK 500 3 GLU A 403 104.35 -21.21 REMARK 500 3 ASP A 439 100.43 -51.07 REMARK 500 3 ASP A 454 -93.87 15.50 REMARK 500 3 LYS A 481 103.29 -56.39 REMARK 500 3 SER A 483 91.51 50.50 REMARK 500 3 LYS A 484 107.55 -59.48 REMARK 500 3 LYS A 488 94.47 67.44 REMARK 500 4 GLU A 403 101.45 -30.40 REMARK 500 4 ASP A 454 -81.02 -26.47 REMARK 500 4 PRO A 456 -6.87 -33.44 REMARK 500 4 SER A 483 124.15 -39.34 REMARK 500 5 GLU A 403 105.60 -29.14 REMARK 500 5 HIS A 411 31.03 75.51 REMARK 500 5 ASP A 439 107.05 -57.68 REMARK 500 5 LYS A 446 -82.51 -154.33 REMARK 500 5 ASP A 454 -76.14 -27.82 REMARK 500 5 PRO A 456 -12.80 -33.65 REMARK 500 5 LYS A 481 104.68 -53.12 REMARK 500 5 SER A 483 -51.82 77.85 REMARK 500 5 ASP A 486 -176.02 83.19 REMARK 500 5 LYS A 488 145.85 74.86 REMARK 500 6 GLU A 403 106.61 -29.15 REMARK 500 6 ASP A 439 98.29 -61.07 REMARK 500 6 LYS A 446 -87.92 -160.40 REMARK 500 6 ASP A 454 -82.30 -19.60 REMARK 500 6 PRO A 456 -13.16 -35.41 REMARK 500 6 LYS A 481 106.46 -55.87 REMARK 500 6 SER A 483 79.57 36.90 REMARK 500 7 GLU A 403 105.31 -30.75 REMARK 500 7 ASP A 454 -79.40 -29.18 REMARK 500 7 PRO A 456 -6.39 -27.05 REMARK 500 7 LYS A 481 101.03 -49.96 REMARK 500 REMARK 500 THIS ENTRY HAS 172 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 PHE A 416 GLY A 417 1 -149.85 REMARK 500 PHE A 416 GLY A 417 5 -146.30 REMARK 500 GLN A 441 THR A 442 14 -148.48 REMARK 500 PHE A 416 GLY A 417 18 -147.83 REMARK 500 LYS A 399 GLU A 400 19 149.32 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 6 TYR A 453 0.07 SIDE CHAIN REMARK 500 10 TYR A 453 0.08 SIDE CHAIN REMARK 500 16 TYR A 453 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 19685 RELATED DB: BMRB REMARK 900 RELATED ID: 2MY8 RELATED DB: PDB DBREF 2MY7 A 398 490 UNP O95319 CELF2_HUMAN 416 508 SEQADV 2MY7 GLY A -3 UNP O95319 EXPRESSION TAG SEQADV 2MY7 SER A -2 UNP O95319 EXPRESSION TAG SEQADV 2MY7 HIS A -1 UNP O95319 EXPRESSION TAG SEQADV 2MY7 MET A 0 UNP O95319 EXPRESSION TAG SEQRES 1 A 97 GLY SER HIS MET GLN LYS GLU GLY PRO GLU GLY ALA ASN SEQRES 2 A 97 LEU PHE ILE TYR HIS LEU PRO GLN GLU PHE GLY ASP GLN SEQRES 3 A 97 ASP ILE LEU GLN MET PHE MET PRO PHE GLY ASN VAL ILE SEQRES 4 A 97 SER ALA LYS VAL PHE ILE ASP LYS GLN THR ASN LEU SER SEQRES 5 A 97 LYS CYS PHE GLY PHE VAL SER TYR ASP ASN PRO VAL SER SEQRES 6 A 97 ALA GLN ALA ALA ILE GLN ALA MET ASN GLY PHE GLN ILE SEQRES 7 A 97 GLY MET LYS ARG LEU LYS VAL GLN LEU LYS ARG SER LYS SEQRES 8 A 97 ASN ASP SER LYS PRO TYR HELIX 1 1 GLY A 417 PHE A 425 1 9 HELIX 2 2 SER A 458 GLN A 464 1 7 SHEET 1 A 2 GLN A 470 ILE A 471 0 SHEET 2 A 2 LYS A 474 ARG A 475 -1 O LYS A 474 N ILE A 471 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