HEADER SPLICING 17-NOV-16 5MF9 TITLE SOLUTION STRUCTURE OF THE RBM5 OCRE DOMAIN IN COMPLEX WITH POLYPROLINE TITLE 2 SMN PEPTIDE. COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA-BINDING PROTEIN 5; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 451-511; COMPND 5 SYNONYM: PROTEIN G15,PUTATIVE TUMOR SUPPRESSOR LUCA15,RNA-BINDING COMPND 6 MOTIF PROTEIN 5,RENAL CARCINOMA ANTIGEN NY-REN-9; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: SURVIVAL MOTOR NEURON PROTEIN; COMPND 10 CHAIN: B; COMPND 11 SYNONYM: COMPONENT OF GEMS 1,GEMIN-1; COMPND 12 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: RBM5, H37, LUCA15; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 GENE: SMN1, SMN, SMNT, SMN2, SMNC; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS OCRE, POLY PROLINE BINDING DOMAIN, SMN, ALTERNATIVE SPLICING, KEYWDS 2 SPLICING EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR A.MOURAO,M.SATTLER,S.BONNAL,S.KOMAL,L.WARNER,R.BORDONNE,J.VALCARCEL REVDAT 3 31-JAN-18 5MF9 1 REMARK REVDAT 2 06-SEP-17 5MF9 1 REMARK REVDAT 1 07-DEC-16 5MF9 0 JRNL AUTH A.MOURAO,S.BONNAL,S.KOMAL,L.WARNER,R.BORDONNE,J.VALCARCEL, JRNL AUTH 2 M.SATTLER JRNL TITL STRUCTURAL BASIS FOR THE RECOGNITION OFSPLICEOSOMAL SMN B B JRNL TITL 2 PROTEINS BY THERBM5 OCRE DOMAIN IN SPLICING REGULATION JRNL REF ELIFE V. 5 1 2016 JRNL REFN ESSN 2050-084X JRNL PMID 27894420 JRNL DOI 10.7554/ELIFE.14707 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : ARIA 1.2 REMARK 3 AUTHORS : LINGE, O'DONOGHUE AND NILGES REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5MF9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 18-NOV-16. REMARK 100 THE DEPOSITION ID IS D_1200002334. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 50 REMARK 210 PRESSURE : 1 BAR REMARK 210 SAMPLE CONTENTS : 2 MM [U-99% 15N] 15N, 2 MM [U REMARK 210 -99% 13C; U-99% 15N] 13C_15N, 2 REMARK 210 MM [U-13C; U-15N] UNLABEL, 90% REMARK 210 H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D 1H-13C NOESY ALIPHATIC; 3D 1H REMARK 210 -13C HSQC AROMATIC; 2D 1H-15N REMARK 210 HSQC; 2D 1H-1H NOESY; 3D HNCA; REMARK 210 3D CBCA(CO)NH; 3D HNCACB; 3D REMARK 210 HNCO; 3D HCCH-TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 600 MHZ; 900 MHZ REMARK 210 SPECTROMETER MODEL : DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CNS, NMRVIEW, NMRPIPE REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY 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: 1000 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 5340 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -5.0 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: 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 HD2 TYR A 32 HA PRO B 105 1.18 REMARK 500 HZ2 LYS A 6 OE1 GLU A 56 1.59 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 TYR A 41 CE1 TYR A 41 CZ 0.092 REMARK 500 2 TYR A 41 CZ TYR A 41 CE2 -0.091 REMARK 500 3 TYR A 32 CE1 TYR A 32 CZ 0.111 REMARK 500 3 TYR A 32 CZ TYR A 32 CE2 -0.122 REMARK 500 6 TYR A 32 CE1 TYR A 32 CZ 0.124 REMARK 500 6 TYR A 32 CZ TYR A 32 CE2 -0.128 REMARK 500 7 TYR A 32 CE1 TYR A 32 CZ 0.148 REMARK 500 7 TYR A 32 CZ TYR A 32 CE2 -0.151 REMARK 500 7 TYR A 48 CE1 TYR A 48 CZ -0.166 REMARK 500 7 TYR A 48 CZ TYR A 48 CE2 0.155 REMARK 500 8 TYR A 48 CE1 TYR A 48 CZ -0.192 REMARK 500 8 TYR A 48 CZ TYR A 48 CE2 0.183 REMARK 500 9 TYR A 48 CE1 TYR A 48 CZ -0.191 REMARK 500 9 TYR A 48 CZ TYR A 48 CE2 0.179 REMARK 500 10 TYR A 32 CE1 TYR A 32 CZ 0.130 REMARK 500 10 TYR A 32 CZ TYR A 32 CE2 -0.136 REMARK 500 10 TYR A 41 CE1 TYR A 41 CZ 0.116 REMARK 500 10 TYR A 41 CZ TYR A 41 CE2 -0.117 REMARK 500 10 TYR A 50 CE1 TYR A 50 CZ -0.096 REMARK 500 10 TYR A 50 CZ TYR A 50 CE2 0.099 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 2 -45.66 -150.39 REMARK 500 1 ALA A 8 -159.81 -150.37 REMARK 500 1 ALA A 61 33.70 -87.94 REMARK 500 1 ALA A 62 58.13 -92.55 REMARK 500 1 MET B 101 -152.25 -162.18 REMARK 500 1 ARG B 102 170.90 -55.10 REMARK 500 1 ILE B 108 53.70 32.99 REMARK 500 2 TYR A 7 -78.13 -134.10 REMARK 500 2 ALA A 8 -144.77 48.51 REMARK 500 2 MET B 101 -158.56 -128.36 REMARK 500 2 ILE B 108 52.38 35.20 REMARK 500 3 MET A 3 91.42 -66.86 REMARK 500 3 TYR A 7 28.64 -158.49 REMARK 500 3 ALA A 8 -127.28 -133.94 REMARK 500 3 ALA A 62 68.40 -153.87 REMARK 500 3 ILE B 108 43.45 38.25 REMARK 500 4 LYS A 6 33.63 -86.51 REMARK 500 4 TYR A 7 19.71 -156.31 REMARK 500 4 ALA A 8 -108.80 -119.49 REMARK 500 4 ALA A 61 45.46 -83.03 REMARK 500 4 ILE B 108 55.74 31.09 REMARK 500 5 ALA A 2 90.79 62.47 REMARK 500 5 LYS A 6 -70.80 -87.01 REMARK 500 5 TYR A 7 -85.46 -141.84 REMARK 500 5 ALA A 8 -112.21 50.05 REMARK 500 5 ALA A 61 43.53 -88.78 REMARK 500 5 ALA A 62 48.99 -98.10 REMARK 500 5 ILE B 108 48.16 35.32 REMARK 500 6 ILE B 108 43.91 36.67 REMARK 500 7 ALA A 8 -90.43 -147.77 REMARK 500 7 GLN A 38 -5.48 72.13 REMARK 500 7 ILE B 108 51.47 35.50 REMARK 500 8 ALA A 2 -79.53 -154.55 REMARK 500 8 LYS A 6 32.46 -85.28 REMARK 500 8 ALA A 8 -85.54 -121.29 REMARK 500 8 ALA A 62 -33.05 -176.17 REMARK 500 8 ILE B 108 50.84 31.36 REMARK 500 9 THR A 5 99.63 -65.18 REMARK 500 9 TYR A 7 -71.84 -151.93 REMARK 500 9 ALA A 8 -174.06 62.68 REMARK 500 9 ALA A 62 -30.89 -136.58 REMARK 500 9 MET B 101 -59.41 -177.78 REMARK 500 9 ILE B 108 46.14 35.88 REMARK 500 10 THR A 5 74.38 61.13 REMARK 500 10 ALA A 8 -145.54 52.48 REMARK 500 10 GLN A 38 -21.54 73.32 REMARK 500 10 MET B 101 -156.56 -78.66 REMARK 500 10 ILE B 108 51.64 29.15 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 TYR A 41 0.08 SIDE CHAIN REMARK 500 4 TYR A 39 0.09 SIDE CHAIN REMARK 500 5 TYR A 39 0.09 SIDE CHAIN REMARK 500 6 TYR A 15 0.05 SIDE CHAIN REMARK 500 6 TYR A 39 0.08 SIDE CHAIN REMARK 500 7 TYR A 39 0.08 SIDE CHAIN REMARK 500 8 TYR A 39 0.10 SIDE CHAIN REMARK 500 9 TYR A 39 0.10 SIDE CHAIN REMARK 500 10 TYR A 41 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 34067 RELATED DB: BMRB REMARK 900 SOLUTION STRUCTURE OF THE RBM5 OCRE DOMAIN IN COMPLEX WITH REMARK 900 POLYPROLINE SMN PEPTIDE. DBREF 5MF9 A 4 64 UNP P52756 RBM5_HUMAN 451 511 DBREF 5MF9 B 100 110 UNP Q16637 SMN_HUMAN 216 226 SEQADV 5MF9 GLY A 1 UNP P52756 EXPRESSION TAG SEQADV 5MF9 ALA A 2 UNP P52756 EXPRESSION TAG SEQADV 5MF9 MET A 3 UNP P52756 EXPRESSION TAG SEQADV 5MF9 MET B 101 UNP Q16637 PRO 217 CONFLICT SEQADV 5MF9 ARG B 102 UNP Q16637 PRO 218 CONFLICT SEQADV 5MF9 GLY B 107 UNP Q16637 PRO 223 CONFLICT SEQADV 5MF9 ILE B 108 UNP Q16637 PRO 224 CONFLICT SEQADV 5MF9 ARG B 109 UNP Q16637 PRO 225 CONFLICT SEQADV 5MF9 GLY B 110 UNP Q16637 PRO 226 CONFLICT SEQRES 1 A 64 GLY ALA MET GLY THR LYS TYR ALA VAL PRO ASP THR SER SEQRES 2 A 64 THR TYR GLN TYR ASP GLU SER SER GLY TYR TYR TYR ASP SEQRES 3 A 64 PRO THR THR GLY LEU TYR TYR ASP PRO ASN SER GLN TYR SEQRES 4 A 64 TYR TYR ASN SER LEU THR GLN GLN TYR LEU TYR TRP ASP SEQRES 5 A 64 GLY GLU LYS GLU THR TYR VAL PRO ALA ALA GLU SER SEQRES 1 B 11 GLY MET ARG PRO PRO PRO PRO GLY ILE ARG GLY SHEET 1 AA1 6 GLN A 16 ASP A 18 0 SHEET 2 AA1 6 TYR A 23 ASP A 26 -1 O TYR A 25 N GLN A 16 SHEET 3 AA1 6 LEU A 31 TYR A 33 -1 O LEU A 31 N ASP A 26 SHEET 4 AA1 6 TYR A 40 ASN A 42 -1 O TYR A 41 N TYR A 32 SHEET 5 AA1 6 GLN A 47 TRP A 51 -1 O GLN A 47 N ASN A 42 SHEET 6 AA1 6 TYR A 58 PRO A 60 -1 O VAL A 59 N TYR A 50 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