HEADER RNA BINDING PROTEIN/RNA 12-DEC-13 4CIO TITLE RRM DOMAIN FROM C. ELEGANS SUP-12 BOUND TO GGUGUGC RNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN SUP-12, ISOFORM A; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RRM DOMAIN, RESIDUES 28-121; COMPND 5 SYNONYM: SUP-12; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: 5'-R(*GP*GP*UP*GP*UP*GP*CP)-3'; COMPND 9 CHAIN: B; COMPND 10 FRAGMENT: SUP-12 BINDING MOTIF; COMPND 11 OTHER_DETAILS: THE HEPTAMER SEQUENCE IS DERIVED FROM THE INTRON COMPND 12 BETWEEN EXONS 4 AND 5B FROM THE C. ELEGANS EGL-15 GENE. SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CAENORHABDITIS ELEGANS; SOURCE 3 ORGANISM_TAXID: 6239; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_VARIANT: PLYSY; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET-HIS1A; SOURCE 10 MOL_ID: 2; SOURCE 11 SYNTHETIC: YES; SOURCE 12 ORGANISM_SCIENTIFIC: CAENORHABDITIS ELEGANS; SOURCE 13 ORGANISM_TAXID: 6239 KEYWDS RNA BINDING PROTEIN-RNA COMPLEX, MUSCLE, DEVELOPMENT EXPDTA SOLUTION NMR NUMMDL 15 AUTHOR S.AMRANE,C.D.MACKERETH REVDAT 2 17-SEP-14 4CIO 1 JRNL REVDAT 1 03-SEP-14 4CIO 0 JRNL AUTH S.AMRANE,K.REBORA,I.ZNIBER,D.DUPUY,C.D.MACKERETH JRNL TITL BACKBONE-INDEPENDENT NUCLEIC ACID BINDING BY SPLICING JRNL TITL 2 FACTOR SUP-12 REVEALS KEY ASPECTS OF MOLECULAR RECOGNITION JRNL REF NAT.COMMUN. V. 5 4595 2014 JRNL REFN ISSN 2041-1723 JRNL PMID 25183497 JRNL DOI 10.1038/NCOMMS5595 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU,READ, REMARK 3 : RICE,SIMONSON,WARREN REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4CIO COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 13-DEC-13. REMARK 100 THE PDBE ID CODE IS EBI-59211. 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 : 300MM REMARK 210 PRESSURE : 1.0 ATM REMARK 210 SAMPLE CONTENTS : 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 15C-NOESY, DOUBLE-FILTERED REMARK 210 1H,1H-TOCSY, DOUBLE- REMARK 210 FILTERED 1H,1H-NOESY, HALF- REMARK 210 FILTERED 1H,1H-NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE, SPARKY REMARK 210 METHOD USED : ARIA1.2 REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 125 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 15 REMARK 210 CONFORMERS, SELECTION CRITERIA : LOWEST ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 8 REMARK 210 REMARK 210 REMARK: THE STRUCTURE WAS DETERMINED BY USING MULTI- REMARK 210 DIMENSIONAL NMR SPECTRSOCOPY WITH 15N-, 13C,15N-, OR 2H- REMARK 210 LABELED SUP-12 IN COMPLEX WITH A NATURAL ABUNDANCE GGUGUGC REMARK 210 RNA LIGAND. THE CHEMICAL SHIFTS HAVE BEEN DEPOSITED REMARK 210 PREVIOUSLY IN THE BMRB AS ENTRY 18846. 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: PQS 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 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 7 TYR A 44 CE2 TYR A 44 CZ -0.080 REMARK 500 8 TYR A 78 CE2 TYR A 78 CZ -0.081 REMARK 500 10 TYR A 78 CE2 TYR A 78 CZ -0.080 REMARK 500 12 TYR A 111 CE1 TYR A 111 CZ 0.110 REMARK 500 12 TYR A 111 CE2 TYR A 111 CZ -0.120 REMARK 500 14 TYR A 78 CE1 TYR A 78 CZ 0.096 REMARK 500 14 TYR A 78 CE2 TYR A 78 CZ -0.104 REMARK 500 15 TYR A 78 CE1 TYR A 78 CZ 0.083 REMARK 500 15 TYR A 78 CE2 TYR A 78 CZ -0.088 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 ALA A 26 -76.08 -118.39 REMARK 500 1 TYR A 44 1.87 -69.09 REMARK 500 1 ASN A 71 -61.77 -108.09 REMARK 500 1 THR A 118 86.74 44.90 REMARK 500 1 ASN A 119 80.40 77.70 REMARK 500 2 ALA A 26 13.33 -158.25 REMARK 500 2 MET A 27 85.03 58.66 REMARK 500 2 LYS A 74 -63.72 -102.21 REMARK 500 2 SER A 75 -69.26 -160.44 REMARK 500 2 ARG A 76 -25.17 76.63 REMARK 500 2 PRO A 116 32.43 -96.73 REMARK 500 2 ARG A 117 -57.53 -151.58 REMARK 500 2 VAL A 120 85.91 59.72 REMARK 500 3 GLN A 73 79.81 57.68 REMARK 500 3 SER A 75 102.64 -54.75 REMARK 500 3 ASN A 97 68.40 -152.61 REMARK 500 3 THR A 118 176.06 60.49 REMARK 500 3 VAL A 120 -40.98 74.99 REMARK 500 4 ASP A 31 80.84 64.66 REMARK 500 4 GLN A 73 81.65 57.57 REMARK 500 4 ASN A 97 64.14 34.35 REMARK 500 4 ARG A 117 -40.47 -179.10 REMARK 500 4 VAL A 120 -73.46 71.17 REMARK 500 5 ALA A 26 177.01 67.35 REMARK 500 5 SER A 29 -67.11 179.60 REMARK 500 5 ARG A 30 -41.26 -150.31 REMARK 500 5 ASP A 31 153.56 74.82 REMARK 500 5 PHE A 34 -176.12 123.79 REMARK 500 5 THR A 35 -40.79 61.22 REMARK 500 5 ARG A 70 -17.03 -49.37 REMARK 500 5 SER A 75 -122.87 -175.54 REMARK 500 5 ARG A 76 -50.31 129.54 REMARK 500 5 ASN A 97 63.42 38.95 REMARK 500 6 ARG A 30 84.62 65.17 REMARK 500 6 GLN A 73 14.41 59.12 REMARK 500 6 SER A 75 -108.53 -163.24 REMARK 500 6 ARG A 76 -19.06 112.23 REMARK 500 6 VAL A 120 -84.84 -91.76 REMARK 500 7 ARG A 30 92.03 54.42 REMARK 500 7 THR A 32 16.37 57.61 REMARK 500 7 GLN A 57 -9.83 -57.41 REMARK 500 7 ARG A 70 -4.75 -57.89 REMARK 500 7 GLN A 73 -92.16 62.60 REMARK 500 7 LYS A 74 78.26 55.16 REMARK 500 7 SER A 75 107.82 -35.80 REMARK 500 7 ASN A 97 39.98 -154.66 REMARK 500 7 ASP A 101 30.00 45.07 REMARK 500 7 ARG A 117 19.72 -141.78 REMARK 500 7 VAL A 120 107.04 67.62 REMARK 500 8 ALA A 26 -160.16 62.00 REMARK 500 REMARK 500 THIS ENTRY HAS 116 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 PRO A 98 ILE A 99 10 149.10 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 2 G B 2 0.05 SIDE CHAIN REMARK 500 4 TYR A 111 0.05 SIDE CHAIN REMARK 500 10 TYR A 54 0.05 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4CH0 RELATED DB: PDB REMARK 900 RRM DOMAIN FROM C. ELEGANS SUP-12 REMARK 900 RELATED ID: 4CH1 RELATED DB: PDB REMARK 900 RRM DOMAIN FROM C. ELEGANS SUP-12 REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE SAMPLE CONTAINS AN ADDITIONAL GLY-ALA-MET- AT THE N- REMARK 999 TERMINUS FOLLOWING CLEAVAGE BY TEV PROTEASE DBREF 4CIO A 28 121 UNP O45189 O45189_CAEEL 28 121 DBREF 4CIO B 1 7 PDB 4CIO 4CIO 1 7 SEQADV 4CIO GLY A 25 UNP O45189 EXPRESSION TAG SEQADV 4CIO ALA A 26 UNP O45189 EXPRESSION TAG SEQADV 4CIO MET A 27 UNP O45189 EXPRESSION TAG SEQRES 1 A 97 GLY ALA MET GLY SER ARG ASP THR MET PHE THR LYS ILE SEQRES 2 A 97 PHE VAL GLY GLY LEU PRO TYR HIS THR SER ASP LYS THR SEQRES 3 A 97 LEU HIS GLU TYR PHE GLU GLN PHE GLY ASP ILE GLU GLU SEQRES 4 A 97 ALA VAL VAL ILE THR ASP ARG ASN THR GLN LYS SER ARG SEQRES 5 A 97 GLY TYR GLY PHE VAL THR MET LYS ASP ARG ALA SER ALA SEQRES 6 A 97 GLU ARG ALA CYS LYS ASP PRO ASN PRO ILE ILE ASP GLY SEQRES 7 A 97 ARG LYS ALA ASN VAL ASN LEU ALA TYR LEU GLY ALA LYS SEQRES 8 A 97 PRO ARG THR ASN VAL GLN SEQRES 1 B 7 G G U G U G C HELIX 1 1 SER A 47 GLU A 56 1 10 HELIX 2 2 ASP A 85 ASP A 95 1 11 HELIX 3 3 TYR A 111 GLY A 113 5 3 SHEET 1 AA 4 ILE A 61 THR A 68 0 SHEET 2 AA 4 SER A 75 MET A 83 -1 N GLY A 77 O ILE A 67 SHEET 3 AA 4 LYS A 36 GLY A 40 -1 O ILE A 37 N VAL A 81 SHEET 4 AA 4 ASN A 106 LEU A 109 -1 O ASN A 106 N GLY A 40 SHEET 1 AB 2 ILE A 99 ILE A 100 0 SHEET 2 AB 2 ARG A 103 LYS A 104 -1 O ARG A 103 N ILE A 100 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