PDB Short entry for 2DNM HEADER RNA BINDING PROTEIN 26-APR-06 2DNM TITLE SOLUTION STRUCTURE OF RNA BINDING DOMAIN IN SRP46 SPLICING FACTOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: SRP46 SPLICING FACTOR; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RNA RECOGNITION MOTIF; COMPND 5 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: SRP46; SOURCE 6 EXPRESSION_SYSTEM: CELL FREE SYNTHESIS; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: P050829-09; SOURCE 9 OTHER_DETAILS: CELL-FREE PROTEIN SYNTHESIS KEYWDS RRM DOMAIN, RBD, STRUCTURAL GENOMICS, NPPSFA, NATIONAL PROJECT ON KEYWDS 2 PROTEIN STRUCTURAL AND FUNCTIONAL ANALYSES, RIKEN STRUCTURAL KEYWDS 3 GENOMICS/PROTEOMICS INITIATIVE, RSGI, RNA BINDING PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR K.TSUDA,Y.MUTO,M.INOUE,T.KIGAWA,T.TERADA,M.SHIROUZU,S.YOKOYAMA,RIKEN AUTHOR 2 STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE (RSGI) REVDAT 3 09-MAR-22 2DNM 1 REMARK SEQADV REVDAT 2 24-FEB-09 2DNM 1 VERSN REVDAT 1 26-OCT-06 2DNM 0 JRNL AUTH K.TSUDA,Y.MUTO,M.INOUE,T.KIGAWA,T.TERADA,M.SHIROUZU, JRNL AUTH 2 S.YOKOYAMA JRNL TITL SOLUTION STRUCTURE OF RNA BINDING DOMAIN IN SRP46 SPLICING JRNL TITL 2 FACTOR JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XWINNMR 3.5, CYANA 2.0.17 REMARK 3 AUTHORS : BRUKER (XWINNMR), GUNTERT,P (CYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2DNM COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 10-MAY-06. REMARK 100 THE DEPOSITION ID IS D_1000025624. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : 120MM REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.12MM 13C-15N PROTEIN, 20MM D REMARK 210 -TRIS-HCL(PH7.0), 100MM NACL, REMARK 210 1MM D-DTT, 0.02% NAN; 90% H2O, REMARK 210 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY; 3D_13C REMARK 210 -SEPARATED_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 20030801, NMRVIEW 5.0.4, REMARK 210 KUJIRA 0.9742, CYANA 2.0.17 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS, REMARK 210 RESTRAINTED MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION, STRUCTURES WITH REMARK 210 THE LOWEST ENERGY, STRUCTURES REMARK 210 WITH THE LEAST RESTRAINT REMARK 210 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: 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 SER A 3 130.25 -37.12 REMARK 500 1 PRO A 8 37.04 -78.77 REMARK 500 1 ARG A 39 159.40 -43.58 REMARK 500 1 PRO A 46 154.44 -47.99 REMARK 500 1 PRO A 54 97.53 -47.38 REMARK 500 1 ARG A 66 -61.51 -98.73 REMARK 500 1 MET A 75 -74.58 -59.33 REMARK 500 1 ASP A 76 111.10 -34.39 REMARK 500 1 PRO A 100 101.57 -45.54 REMARK 500 2 VAL A 10 95.70 -35.58 REMARK 500 2 TYR A 37 -64.36 -106.52 REMARK 500 2 PRO A 46 155.04 -47.32 REMARK 500 2 ALA A 74 -73.33 -34.04 REMARK 500 2 ASP A 76 106.57 -35.28 REMARK 500 2 ALA A 90 120.59 -34.66 REMARK 500 2 LEU A 97 138.94 -170.96 REMARK 500 2 SER A 101 92.69 -69.24 REMARK 500 3 ILE A 14 122.07 -35.02 REMARK 500 3 THR A 25 137.85 -38.95 REMARK 500 3 TYR A 37 -60.96 -99.89 REMARK 500 3 ARG A 39 173.53 -51.88 REMARK 500 3 PRO A 46 153.53 -48.96 REMARK 500 3 GLU A 48 156.12 -44.63 REMARK 500 3 GLU A 72 -75.13 -66.82 REMARK 500 3 MET A 75 -69.31 -96.13 REMARK 500 3 ASP A 76 98.80 -34.39 REMARK 500 3 ARG A 86 79.86 -107.98 REMARK 500 3 VAL A 87 74.92 -100.36 REMARK 500 3 ARG A 94 156.13 -40.13 REMARK 500 4 ASP A 11 -71.88 -83.39 REMARK 500 4 ARG A 24 -32.20 -36.02 REMARK 500 4 ARG A 39 175.33 -59.73 REMARK 500 4 GLU A 48 158.60 -43.15 REMARK 500 4 LYS A 52 48.53 -108.65 REMARK 500 4 ARG A 55 -71.29 -41.16 REMARK 500 4 GLU A 72 -70.12 -59.55 REMARK 500 4 MET A 75 -70.03 -75.37 REMARK 500 4 ASP A 76 99.55 -34.51 REMARK 500 4 ALA A 90 -73.77 -64.47 REMARK 500 4 PRO A 100 41.19 -77.01 REMARK 500 4 SER A 101 102.10 -43.90 REMARK 500 5 SER A 3 151.32 -35.27 REMARK 500 5 PRO A 54 98.33 -46.95 REMARK 500 5 GLU A 72 -74.15 -63.84 REMARK 500 5 ALA A 74 -72.01 -50.98 REMARK 500 5 ASP A 76 117.91 -34.43 REMARK 500 5 ASP A 96 82.85 -69.83 REMARK 500 5 SER A 98 108.87 -45.92 REMARK 500 6 SER A 3 -55.74 -123.36 REMARK 500 6 SER A 6 -61.57 -124.07 REMARK 500 REMARK 500 THIS ENTRY HAS 192 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: HSO002000005.1 RELATED DB: TARGETDB DBREF 2DNM A 8 97 UNP Q6PF01 Q6PF01_HUMAN 8 97 SEQADV 2DNM GLY A 1 UNP Q6PF01 CLONING ARTIFACT SEQADV 2DNM SER A 2 UNP Q6PF01 CLONING ARTIFACT SEQADV 2DNM SER A 3 UNP Q6PF01 CLONING ARTIFACT SEQADV 2DNM GLY A 4 UNP Q6PF01 CLONING ARTIFACT SEQADV 2DNM SER A 5 UNP Q6PF01 CLONING ARTIFACT SEQADV 2DNM SER A 6 UNP Q6PF01 CLONING ARTIFACT SEQADV 2DNM GLY A 7 UNP Q6PF01 CLONING ARTIFACT SEQADV 2DNM SER A 98 UNP Q6PF01 CLONING ARTIFACT SEQADV 2DNM GLY A 99 UNP Q6PF01 CLONING ARTIFACT SEQADV 2DNM PRO A 100 UNP Q6PF01 CLONING ARTIFACT SEQADV 2DNM SER A 101 UNP Q6PF01 CLONING ARTIFACT SEQADV 2DNM SER A 102 UNP Q6PF01 CLONING ARTIFACT SEQADV 2DNM GLY A 103 UNP Q6PF01 CLONING ARTIFACT SEQRES 1 A 103 GLY SER SER GLY SER SER GLY PRO ASP VAL ASP GLY MET SEQRES 2 A 103 ILE THR LEU LYS VAL ASP ASN LEU THR TYR ARG THR SER SEQRES 3 A 103 PRO ASP SER LEU ARG ARG VAL PHE GLU LYS TYR GLY ARG SEQRES 4 A 103 VAL GLY ASP VAL TYR ILE PRO ARG GLU PRO HIS THR LYS SEQRES 5 A 103 ALA PRO ARG GLY PHE ALA PHE VAL ARG PHE HIS ASP ARG SEQRES 6 A 103 ARG ASP ALA GLN ASP ALA GLU ALA ALA MET ASP GLY ALA SEQRES 7 A 103 GLU LEU ASP GLY ARG GLU LEU ARG VAL GLN VAL ALA ARG SEQRES 8 A 103 TYR GLY ARG ARG ASP LEU SER GLY PRO SER SER GLY HELIX 1 1 SER A 26 GLU A 35 1 10 HELIX 2 2 ARG A 66 ASP A 76 1 11 SHEET 1 A 4 VAL A 40 TYR A 44 0 SHEET 2 A 4 ALA A 58 PHE A 62 -1 O PHE A 59 N TYR A 44 SHEET 3 A 4 THR A 15 ASP A 19 -1 N LEU A 16 O VAL A 60 SHEET 4 A 4 ARG A 86 VAL A 89 -1 O GLN A 88 N LYS A 17 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