HEADER RNA 16-DEC-19 6VA4 TITLE SOLUTION STRUCTURE OF THE TAU PRE-MRNA EXON 10 SPLICING REGULATORY TITLE 2 ELEMENT BOUND TO MIP COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA (5'-R(*CP*CP*GP*GP*CP*AP*GP*UP*GP*UP*G)-3'); COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: RNA (5'-R(*CP*AP*CP*AP*CP*GP*UP*CP*GP*G)-3'); COMPND 7 CHAIN: B; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 4 ORGANISM_COMMON: HUMAN; SOURCE 5 ORGANISM_TAXID: 9606; SOURCE 6 MOL_ID: 2; SOURCE 7 SYNTHETIC: YES; SOURCE 8 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 9 ORGANISM_COMMON: HUMAN; SOURCE 10 ORGANISM_TAXID: 9606 KEYWDS ADENINE BULGE, RNA COMPLEX, A-FORM TAU RNA HAIRPIN, RNA, MIP EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR J.L.CHEN,M.A.FOUNTAIN,M.D.DISNEY REVDAT 3 16-MAR-22 6VA4 1 REMARK REVDAT 2 27-MAY-20 6VA4 1 JRNL REVDAT 1 20-MAY-20 6VA4 0 JRNL AUTH J.L.CHEN,P.ZHANG,M.ABE,H.AIKAWA,L.ZHANG,A.J.FRANK, JRNL AUTH 2 T.ZEMBRYSKI,C.HUBBS,H.PARK,J.WITHKA,C.STEPPAN,L.ROGERS, JRNL AUTH 3 S.CABRAL,M.PETTERSSON,T.T.WAGER,M.A.FOUNTAIN,G.RUMBAUGH, JRNL AUTH 4 J.L.CHILDS-DISNEY,M.D.DISNEY JRNL TITL DESIGN, OPTIMIZATION, AND STUDY OF SMALL MOLECULES THAT JRNL TITL 2 TARGET TAU PRE-MRNA AND AFFECT SPLICING. JRNL REF J.AM.CHEM.SOC. V. 142 8706 2020 JRNL REFN ESSN 1520-5126 JRNL PMID 32364710 JRNL DOI 10.1021/JACS.0C00768 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : AMBER 16 REMARK 3 AUTHORS : CASE, DARDEN, CHEATHAM III, SIMMERLING, WANG, REMARK 3 DUKE, LUO, AND KOLLMAN REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6VA4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-DEC-19. REMARK 100 THE DEPOSITION ID IS D_1000245651. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.0 REMARK 210 IONIC STRENGTH : 10 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 0.4 MM WT TAU RNA, 0.6 MM MIP, REMARK 210 10 MM KH2PO4/K2HPO4, 0.05 MM REMARK 210 EDTA, 100% D2O; 0.4 MM WT TAU REMARK 210 RNA, 0.6 MM MIP, 10 MM KH2PO4/ REMARK 210 K2HPO4, 0.05 MM EDTA, 95% H2O/5% REMARK 210 D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : D2O 2D 1H-1H NOESY; D2O 2D DQF REMARK 210 -COSY; H2O 2D 1H-1H NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 700 MHZ; 850 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE III REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE, TOPSPIN, SPARKY, AMBER REMARK 210 16 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 60 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 C A 1 N3 - C2 - O2 ANGL. DEV. = -4.8 DEGREES REMARK 500 1 C A 2 N3 - C2 - O2 ANGL. DEV. = -5.0 DEGREES REMARK 500 1 C A 5 N3 - C2 - O2 ANGL. DEV. = -4.8 DEGREES REMARK 500 1 A A 6 C4 - C5 - C6 ANGL. DEV. = -3.0 DEGREES REMARK 500 1 A A 6 C5 - C6 - N1 ANGL. DEV. = 3.6 DEGREES REMARK 500 1 A A 6 N1 - C6 - N6 ANGL. DEV. = -5.6 DEGREES REMARK 500 1 C B 12 N3 - C2 - O2 ANGL. DEV. = -5.2 DEGREES REMARK 500 1 A B 13 C4 - C5 - C6 ANGL. DEV. = -3.2 DEGREES REMARK 500 1 A B 13 C5 - C6 - N1 ANGL. DEV. = 3.4 DEGREES REMARK 500 1 A B 13 N1 - C6 - N6 ANGL. DEV. = -4.8 DEGREES REMARK 500 1 C B 14 N3 - C2 - O2 ANGL. DEV. = -5.2 DEGREES REMARK 500 1 A B 15 C4 - C5 - C6 ANGL. DEV. = -3.1 DEGREES REMARK 500 1 A B 15 C5 - C6 - N1 ANGL. DEV. = 3.7 DEGREES REMARK 500 1 A B 15 N1 - C6 - N6 ANGL. DEV. = -4.9 DEGREES REMARK 500 1 C B 16 N3 - C2 - O2 ANGL. DEV. = -4.8 DEGREES REMARK 500 1 C B 19 N3 - C2 - O2 ANGL. DEV. = -4.8 DEGREES REMARK 500 2 C A 1 N3 - C2 - O2 ANGL. DEV. = -5.2 DEGREES REMARK 500 2 C A 2 N3 - C2 - O2 ANGL. DEV. = -4.8 DEGREES REMARK 500 2 C A 5 N3 - C2 - O2 ANGL. DEV. = -4.5 DEGREES REMARK 500 2 A A 6 C4 - C5 - C6 ANGL. DEV. = -3.0 DEGREES REMARK 500 2 A A 6 C5 - C6 - N1 ANGL. DEV. = 3.5 DEGREES REMARK 500 2 A A 6 N1 - C6 - N6 ANGL. DEV. = -5.0 DEGREES REMARK 500 2 C B 12 N3 - C2 - O2 ANGL. DEV. = -4.8 DEGREES REMARK 500 2 A B 13 C4 - C5 - C6 ANGL. DEV. = -3.3 DEGREES REMARK 500 2 A B 13 C5 - C6 - N1 ANGL. DEV. = 3.8 DEGREES REMARK 500 2 A B 13 N1 - C6 - N6 ANGL. DEV. = -4.8 DEGREES REMARK 500 2 C B 14 N3 - C2 - O2 ANGL. DEV. = -4.6 DEGREES REMARK 500 2 A B 15 C4 - C5 - C6 ANGL. DEV. = -3.2 DEGREES REMARK 500 2 A B 15 C5 - C6 - N1 ANGL. DEV. = 3.3 DEGREES REMARK 500 2 A B 15 N1 - C6 - N6 ANGL. DEV. = -5.5 DEGREES REMARK 500 2 C B 16 N3 - C2 - O2 ANGL. DEV. = -5.3 DEGREES REMARK 500 2 C B 19 N3 - C2 - O2 ANGL. DEV. = -5.1 DEGREES REMARK 500 3 C A 1 N3 - C2 - O2 ANGL. DEV. = -5.1 DEGREES REMARK 500 3 C A 2 N3 - C2 - O2 ANGL. DEV. = -4.9 DEGREES REMARK 500 3 C A 5 N3 - C2 - O2 ANGL. DEV. = -5.0 DEGREES REMARK 500 3 A A 6 C4 - C5 - C6 ANGL. DEV. = -3.3 DEGREES REMARK 500 3 A A 6 C5 - C6 - N1 ANGL. DEV. = 3.8 DEGREES REMARK 500 3 A A 6 N1 - C6 - N6 ANGL. DEV. = -5.4 DEGREES REMARK 500 3 C B 12 N3 - C2 - O2 ANGL. DEV. = -4.9 DEGREES REMARK 500 3 A B 13 C4 - C5 - C6 ANGL. DEV. = -3.2 DEGREES REMARK 500 3 A B 13 C5 - C6 - N1 ANGL. DEV. = 3.5 DEGREES REMARK 500 3 A B 13 N1 - C6 - N6 ANGL. DEV. = -4.8 DEGREES REMARK 500 3 C B 14 N3 - C2 - O2 ANGL. DEV. = -5.1 DEGREES REMARK 500 3 A B 15 C5 - C6 - N1 ANGL. DEV. = 3.6 DEGREES REMARK 500 3 A B 15 N1 - C6 - N6 ANGL. DEV. = -4.3 DEGREES REMARK 500 3 C B 16 N3 - C2 - O2 ANGL. DEV. = -4.8 DEGREES REMARK 500 3 C B 19 N3 - C2 - O2 ANGL. DEV. = -5.0 DEGREES REMARK 500 4 C A 1 N3 - C2 - O2 ANGL. DEV. = -4.8 DEGREES REMARK 500 4 C A 2 N3 - C2 - O2 ANGL. DEV. = -4.9 DEGREES REMARK 500 4 C A 5 N3 - C2 - O2 ANGL. DEV. = -4.8 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 322 ANGLE DEVIATIONS. 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 1 A B 13 0.06 SIDE CHAIN REMARK 500 2 A A 6 0.06 SIDE CHAIN REMARK 500 3 G A 4 0.05 SIDE CHAIN REMARK 500 3 A B 13 0.06 SIDE CHAIN REMARK 500 3 A B 15 0.06 SIDE CHAIN REMARK 500 4 A B 13 0.07 SIDE CHAIN REMARK 500 6 C A 5 0.10 SIDE CHAIN REMARK 500 6 G A 7 0.06 SIDE CHAIN REMARK 500 8 C A 5 0.06 SIDE CHAIN REMARK 500 9 A B 13 0.05 SIDE CHAIN REMARK 500 10 G A 7 0.06 SIDE CHAIN REMARK 500 10 A B 13 0.06 SIDE CHAIN REMARK 500 10 A B 15 0.06 SIDE CHAIN REMARK 500 11 A B 13 0.07 SIDE CHAIN REMARK 500 12 A B 13 0.05 SIDE CHAIN REMARK 500 12 A B 15 0.07 SIDE CHAIN REMARK 500 13 C A 1 0.07 SIDE CHAIN REMARK 500 13 U A 8 0.07 SIDE CHAIN REMARK 500 13 A B 13 0.06 SIDE CHAIN REMARK 500 13 C B 16 0.07 SIDE CHAIN REMARK 500 14 C A 1 0.07 SIDE CHAIN REMARK 500 14 A B 15 0.07 SIDE CHAIN REMARK 500 15 C A 5 0.08 SIDE CHAIN REMARK 500 15 G A 7 0.07 SIDE CHAIN REMARK 500 15 A B 13 0.06 SIDE CHAIN REMARK 500 16 C A 1 0.06 SIDE CHAIN REMARK 500 16 G A 4 0.06 SIDE CHAIN REMARK 500 17 A B 13 0.06 SIDE CHAIN REMARK 500 17 A B 15 0.05 SIDE CHAIN REMARK 500 18 A B 13 0.06 SIDE CHAIN REMARK 500 19 G A 7 0.05 SIDE CHAIN REMARK 500 20 C A 1 0.06 SIDE CHAIN REMARK 500 20 G A 9 0.06 SIDE CHAIN REMARK 500 20 A B 13 0.06 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue QSY B 101 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 30700 RELATED DB: BMRB REMARK 900 SOLUTION STRUCTURE OF THE TAU PRE-MRNA EXON 10 SPLICING REGULATORY REMARK 900 ELEMENT BOUND TO MIP DBREF 6VA4 A 1 11 PDB 6VA4 6VA4 1 11 DBREF 6VA4 B 12 21 PDB 6VA4 6VA4 12 21 SEQRES 1 A 11 C C G G C A G U G U G SEQRES 1 B 10 C A C A C G U C G G HET QSY B 101 56 HETNAM QSY N-[3-(8-METHOXY-4-OXO-4,5-DIHYDRO-3H-PYRIMIDO[5,4- HETNAM 2 QSY B]INDOL-3-YL)PROPYL]-N-METHYLCYCLOHEXANAMINIUM FORMUL 3 QSY C21 H29 N4 O2 1+ SITE 1 AC1 5 C A 5 A A 6 G A 7 C B 16 SITE 2 AC1 5 G B 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 MODEL 1