HEADER RNA BINDING PROTEIN/RNA 17-JUN-10 2RRA TITLE SOLUTION STRUCTURE OF RNA BINDING DOMAIN IN HUMAN TRA2 BETA PROTEIN IN TITLE 2 COMPLEX WITH RNA (GAAGAA) COMPND MOL_ID: 1; COMPND 2 MOLECULE: CDNA FLJ40872 FIS, CLONE TUTER2000283, HIGHLY SIMILAR TO COMPND 3 HOMO SAPIENS TRANSFORMER-2-BETA (SFRS10) GENE; COMPND 4 CHAIN: A; COMPND 5 FRAGMENT: RNA RECOGNITION MOTIF; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: 5'-R(*GP*AP*AP*GP*AP*A)-3'; COMPND 9 CHAIN: B; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: VECTOR; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: P040517-05; SOURCE 9 MOL_ID: 2; SOURCE 10 SYNTHETIC: YES KEYWDS RRM DOMAIN, RBD, PROTEIN-RNA COMPLEX, RNA BINDING PROTEIN-RNA KEYWDS 2 COMPLEX, STRUCTURAL GENOMICS, NPPSFA, NATIONAL PROJECT ON PROTEIN KEYWDS 3 STRUCTURAL AND FUNCTIONAL ANALYSES, RIKEN STRUCTURAL KEYWDS 4 GENOMICS/PROTEOMICS INITIATIVE, RSGI EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR K.TSUDA,K.KUWASAKO,M.TAKAHASHI,T.SOMEYA,M.INOUE,T.KIGAWA,T.TERADA, AUTHOR 2 M.SHIROUZU,S.SUGANO,Y.MUTO,S.YOKOYAMA,RIKEN STRUCTURAL AUTHOR 3 GENOMICS/PROTEOMICS INITIATIVE (RSGI) REVDAT 2 01-MAY-24 2RRA 1 REMARK SEQADV REVDAT 1 27-APR-11 2RRA 0 JRNL AUTH K.TSUDA,T.SOMEYA,K.KUWASAKO,M.TAKAHASHI,F.HE,S.UNZAI, JRNL AUTH 2 M.INOUE,T.HARADA,S.WATANABE,T.TERADA,N.KOBAYASHI,M.SHIROUZU, JRNL AUTH 3 T.KIGAWA,A.TANAKA,S.SUGANO,P.GUNTERT,S.YOKOYAMA,Y.MUTO JRNL TITL STRUCTURAL BASIS FOR THE DUAL RNA-RECOGNITION MODES OF HUMAN JRNL TITL 2 TRA2-BETA RRM. JRNL REF NUCLEIC ACIDS RES. V. 39 1538 2011 JRNL REFN ISSN 0305-1048 JRNL PMID 20926394 JRNL DOI 10.1093/NAR/GKQ854 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : AMBER 9 REMARK 3 AUTHORS : CASE, DARDEN, CHEATHAM, III, SIMMERLING, WANG, REMARK 3 DUKE, LUO, KOLLM REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2RRA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 25-JUN-10. REMARK 100 THE DEPOSITION ID IS D_1000150191. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 283 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : 100 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1 MM [U-100% 13C; U-100% 15N] REMARK 210 HUMAN TRANSFORMER 2 BETA-1, 2 MM REMARK 210 RNA (5'-R(GAAGAA)-3')-2, 90% H2O/ REMARK 210 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D 1H-15N NOESY; 3D 1H-13C REMARK 210 NOESY; 2D 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 : XWINNMR 3.6, NMRPIPE 20060801, REMARK 210 NMRVIEW 5.0.4, KUJIRA 0.9843, REMARK 210 CYANA 2.1 REMARK 210 METHOD USED : DGSA-DISTANCE GEOMETRY SIMULATED REMARK 210 ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 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: DIMERIC 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 1 ARG A 178 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 1 ARG A 187 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 1 A B 2 C4 - C5 - C6 ANGL. DEV. = -3.1 DEGREES REMARK 500 1 A B 2 C5 - C6 - N1 ANGL. DEV. = 3.6 DEGREES REMARK 500 1 A B 2 N1 - C6 - N6 ANGL. DEV. = -5.4 DEGREES REMARK 500 1 A B 3 C4 - C5 - C6 ANGL. DEV. = -3.0 DEGREES REMARK 500 1 A B 3 C5 - C6 - N1 ANGL. DEV. = 3.7 DEGREES REMARK 500 1 A B 3 N1 - C6 - N6 ANGL. DEV. = -5.4 DEGREES REMARK 500 1 A B 5 C4 - C5 - C6 ANGL. DEV. = -3.2 DEGREES REMARK 500 1 A B 5 C5 - C6 - N1 ANGL. DEV. = 3.8 DEGREES REMARK 500 1 A B 5 N1 - C6 - N6 ANGL. DEV. = -6.0 DEGREES REMARK 500 1 A B 6 C4 - C5 - C6 ANGL. DEV. = -3.2 DEGREES REMARK 500 1 A B 6 C5 - C6 - N1 ANGL. DEV. = 3.7 DEGREES REMARK 500 1 A B 6 N1 - C6 - N6 ANGL. DEV. = -6.7 DEGREES REMARK 500 2 ARG A 178 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 2 A B 2 O4' - C1' - N9 ANGL. DEV. = 7.1 DEGREES REMARK 500 2 A B 2 C5 - C6 - N1 ANGL. DEV. = 3.9 DEGREES REMARK 500 2 A B 2 N1 - C6 - N6 ANGL. DEV. = -5.6 DEGREES REMARK 500 2 A B 3 C4 - C5 - C6 ANGL. DEV. = -3.2 DEGREES REMARK 500 2 A B 3 C5 - C6 - N1 ANGL. DEV. = 3.7 DEGREES REMARK 500 2 A B 3 N1 - C6 - N6 ANGL. DEV. = -5.5 DEGREES REMARK 500 2 A B 5 C4 - C5 - C6 ANGL. DEV. = -3.4 DEGREES REMARK 500 2 A B 5 C5 - C6 - N1 ANGL. DEV. = 3.6 DEGREES REMARK 500 2 A B 5 N1 - C6 - N6 ANGL. DEV. = -6.7 DEGREES REMARK 500 2 A B 6 C4 - C5 - C6 ANGL. DEV. = -3.5 DEGREES REMARK 500 2 A B 6 C5 - C6 - N1 ANGL. DEV. = 3.8 DEGREES REMARK 500 2 A B 6 N1 - C6 - N6 ANGL. DEV. = -7.2 DEGREES REMARK 500 3 ARG A 178 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 3 A B 2 C4 - C5 - C6 ANGL. DEV. = -3.0 DEGREES REMARK 500 3 A B 2 C5 - C6 - N1 ANGL. DEV. = 3.7 DEGREES REMARK 500 3 A B 2 N1 - C6 - N6 ANGL. DEV. = -5.5 DEGREES REMARK 500 3 A B 3 C4 - C5 - C6 ANGL. DEV. = -3.1 DEGREES REMARK 500 3 A B 3 C5 - C6 - N1 ANGL. DEV. = 3.6 DEGREES REMARK 500 3 A B 3 N1 - C6 - N6 ANGL. DEV. = -5.3 DEGREES REMARK 500 3 G B 4 N1 - C6 - O6 ANGL. DEV. = -3.6 DEGREES REMARK 500 3 A B 5 C4 - C5 - C6 ANGL. DEV. = -3.0 DEGREES REMARK 500 3 A B 5 N1 - C6 - N6 ANGL. DEV. = -4.6 DEGREES REMARK 500 3 A B 6 C5 - C6 - N1 ANGL. DEV. = 3.7 DEGREES REMARK 500 3 A B 6 N1 - C6 - N6 ANGL. DEV. = -4.3 DEGREES REMARK 500 4 ARG A 111 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 4 TYR A 165 CB - CG - CD2 ANGL. DEV. = -4.0 DEGREES REMARK 500 4 ARG A 178 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 4 G B 1 O4' - C1' - N9 ANGL. DEV. = 5.5 DEGREES REMARK 500 4 A B 2 C4 - C5 - C6 ANGL. DEV. = -3.1 DEGREES REMARK 500 4 A B 2 C5 - C6 - N1 ANGL. DEV. = 3.6 DEGREES REMARK 500 4 A B 2 N1 - C6 - N6 ANGL. DEV. = -5.4 DEGREES REMARK 500 4 A B 3 C4 - C5 - C6 ANGL. DEV. = -3.2 DEGREES REMARK 500 4 A B 3 C5 - C6 - N1 ANGL. DEV. = 3.7 DEGREES REMARK 500 4 A B 3 N1 - C6 - N6 ANGL. DEV. = -5.5 DEGREES REMARK 500 4 A B 5 C4 - C5 - C6 ANGL. DEV. = -3.1 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 262 ANGLE DEVIATIONS. 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 SER A 108 -7.89 68.03 REMARK 500 1 ASN A 113 60.52 -176.99 REMARK 500 2 SER A 108 146.92 -171.29 REMARK 500 2 ARG A 111 31.77 -75.56 REMARK 500 2 HIS A 200 2.60 -151.97 REMARK 500 3 ASN A 110 20.36 -152.58 REMARK 500 3 ASN A 113 39.34 -174.73 REMARK 500 3 ASN A 117 28.48 -149.22 REMARK 500 3 HIS A 200 -16.82 68.20 REMARK 500 4 ARG A 111 78.14 -69.53 REMARK 500 4 ALA A 112 37.92 -159.98 REMARK 500 4 ASN A 113 34.38 -168.52 REMARK 500 4 PRO A 116 125.17 -38.10 REMARK 500 5 ALA A 112 47.87 -80.45 REMARK 500 5 ASN A 113 32.02 -169.07 REMARK 500 6 SER A 104 17.75 55.46 REMARK 500 6 ASN A 113 58.25 31.69 REMARK 500 7 SER A 107 17.68 -147.83 REMARK 500 7 ASN A 113 63.85 -171.94 REMARK 500 8 SER A 104 -0.34 -140.56 REMARK 500 8 ASN A 113 58.39 178.99 REMARK 500 9 SER A 108 19.98 -145.55 REMARK 500 10 ALA A 112 37.65 -92.38 REMARK 500 10 ASN A 113 66.03 -178.15 REMARK 500 10 ARG A 198 96.71 -165.25 REMARK 500 11 ASN A 113 66.15 -159.14 REMARK 500 12 SER A 105 -49.83 -164.00 REMARK 500 12 ASN A 113 54.21 -177.62 REMARK 500 13 ASN A 113 61.89 39.18 REMARK 500 13 ARG A 156 16.30 59.81 REMARK 500 13 ARG A 198 105.63 -172.14 REMARK 500 14 ARG A 111 -1.96 71.24 REMARK 500 14 ALA A 112 41.92 -89.30 REMARK 500 14 ASN A 113 42.79 -170.11 REMARK 500 14 ASN A 117 30.80 -153.70 REMARK 500 15 ASN A 113 59.65 37.11 REMARK 500 16 SER A 104 -33.41 66.06 REMARK 500 16 SER A 105 -13.19 -152.41 REMARK 500 16 ASN A 113 66.33 -169.20 REMARK 500 17 SER A 104 177.83 69.45 REMARK 500 18 ASN A 113 57.94 32.80 REMARK 500 19 ASN A 113 57.87 35.76 REMARK 500 20 SER A 107 -43.74 71.24 REMARK 500 20 ALA A 112 26.25 -141.27 REMARK 500 20 ASN A 113 59.97 -162.59 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 A B 3 0.06 SIDE CHAIN REMARK 500 3 A B 6 0.05 SIDE CHAIN REMARK 500 4 A B 6 0.07 SIDE CHAIN REMARK 500 6 A B 5 0.06 SIDE CHAIN REMARK 500 8 A B 5 0.06 SIDE CHAIN REMARK 500 12 TYR A 165 0.07 SIDE CHAIN REMARK 500 13 G B 4 0.10 SIDE CHAIN REMARK 500 14 A B 5 0.06 SIDE CHAIN REMARK 500 15 A B 5 0.09 SIDE CHAIN REMARK 500 16 G B 4 0.05 SIDE CHAIN REMARK 500 17 A B 5 0.05 SIDE CHAIN REMARK 500 18 A B 5 0.05 SIDE CHAIN REMARK 500 19 A B 5 0.05 SIDE CHAIN REMARK 500 20 A B 5 0.06 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2RRB RELATED DB: PDB DBREF 2RRA A 109 201 UNP Q8N1H4 Q8N1H4_HUMAN 73 165 DBREF 2RRA B 1 6 PDB 2RRA 2RRA 1 6 SEQADV 2RRA GLY A 103 UNP Q8N1H4 EXPRESSION TAG SEQADV 2RRA SER A 104 UNP Q8N1H4 EXPRESSION TAG SEQADV 2RRA SER A 105 UNP Q8N1H4 EXPRESSION TAG SEQADV 2RRA GLY A 106 UNP Q8N1H4 EXPRESSION TAG SEQADV 2RRA SER A 107 UNP Q8N1H4 EXPRESSION TAG SEQADV 2RRA SER A 108 UNP Q8N1H4 EXPRESSION TAG SEQRES 1 A 99 GLY SER SER GLY SER SER GLY ASN ARG ALA ASN PRO ASP SEQRES 2 A 99 PRO ASN CYS CYS LEU GLY VAL PHE GLY LEU SER LEU TYR SEQRES 3 A 99 THR THR GLU ARG ASP LEU ARG GLU VAL PHE SER LYS TYR SEQRES 4 A 99 GLY PRO ILE ALA ASP VAL SER ILE VAL TYR ASP GLN GLN SEQRES 5 A 99 SER ARG ARG SER ARG GLY PHE ALA PHE VAL TYR PHE GLU SEQRES 6 A 99 ASN VAL ASP ASP ALA LYS GLU ALA LYS GLU ARG ALA ASN SEQRES 7 A 99 GLY MET GLU LEU ASP GLY ARG ARG ILE ARG VAL ASP PHE SEQRES 8 A 99 SER ILE THR LYS ARG PRO HIS THR SEQRES 1 B 6 G A A G A A HELIX 1 1 THR A 130 SER A 139 1 10 HELIX 2 2 LYS A 140 GLY A 142 5 3 HELIX 3 3 ASN A 168 ASN A 180 1 13 SHEET 1 A 4 ILE A 144 TYR A 151 0 SHEET 2 A 4 SER A 158 PHE A 166 -1 O PHE A 161 N VAL A 150 SHEET 3 A 4 CYS A 119 PHE A 123 -1 N VAL A 122 O ALA A 162 SHEET 4 A 4 ARG A 190 PHE A 193 -1 O ASP A 192 N GLY A 121 SHEET 1 B 2 GLU A 183 LEU A 184 0 SHEET 2 B 2 ARG A 187 ARG A 188 -1 O ARG A 187 N LEU A 184 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