HEADER RNA 22-MAY-13 2M8K TITLE A PYRIMIDINE MOTIF TRIPLE HELIX IN THE KLUYVEROMYCES LACTIS TELOMERASE TITLE 2 RNA PSEUDOKNOT IS ESSENTIAL FOR FUNCTION IN VIVO COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA (48-MER); COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES KEYWDS TELOMERASE, PSEUDOKNOT, RNA TRIPLEX, RNA EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR D.D.CASH,O.COHEN,N.KIM,K.SHEFER,Y.BROWN,N.B.ULYANOV,Y.TZFATI,J.FEIGON REVDAT 4 14-JUN-23 2M8K 1 REMARK REVDAT 3 17-JUL-13 2M8K 1 JRNL REVDAT 2 03-JUL-13 2M8K 1 JRNL REVDAT 1 19-JUN-13 2M8K 0 JRNL AUTH D.D.CASH,O.COHEN-ZONTAG,N.K.KIM,K.SHEFER,Y.BROWN, JRNL AUTH 2 N.B.ULYANOV,Y.TZFATI,J.FEIGON JRNL TITL PYRIMIDINE MOTIF TRIPLE HELIX IN THE KLUYVEROMYCES LACTIS JRNL TITL 2 TELOMERASE RNA PSEUDOKNOT IS ESSENTIAL FOR FUNCTION IN VIVO. JRNL REF PROC.NATL.ACAD.SCI.USA V. 110 10970 2013 JRNL REFN ISSN 0027-8424 JRNL PMID 23776224 JRNL DOI 10.1073/PNAS.1309590110 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR NIH, X-PLOR NIH REMARK 3 AUTHORS : SCHWIETERS, KUSZEWSKI, TJANDRA AND CLORE (X-PLOR REMARK 3 NIH), SCHWIETERS, KUSZEWSKI, TJANDRA AND CLORE (X- REMARK 3 PLOR NIH) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2M8K COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 23-MAY-13. REMARK 100 THE DEPOSITION ID IS D_1000103344. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 283; 298 REMARK 210 PH : 6.3; 6.3 REMARK 210 IONIC STRENGTH : 10; 10 REMARK 210 PRESSURE : AMBIENT; AMBIENT REMARK 210 SAMPLE CONTENTS : 1 MM RNA (48-MER), 10 MM TRIS, REMARK 210 0.5 MM MAGNESIUM CHLORIDE, 90% REMARK 210 H2O/10% D2O; 1 MM RNA (48-MER), REMARK 210 10 MM TRIS, 0.5 MM MAGNESIUM REMARK 210 CHLORIDE, 100% D2O; 1 MM [U-98% REMARK 210 13C; U-98% 15N]-ADE,URI RNA (48- REMARK 210 MER), 10 MM TRIS, 0.5 MM REMARK 210 MAGNESIUM CHLORIDE, 90% H2O/10% REMARK 210 D2O; 1 MM [U-98% 13C; U-98% 15N]- REMARK 210 ADE,URI RNA (48-MER), 10 MM TRIS, REMARK 210 0.5 MM MAGNESIUM CHLORIDE, 100% REMARK 210 D2O; 1 MM [U-98% 13C; U-98% 15N]- REMARK 210 CYT,GUA RNA (48-MER), 10 MM TRIS, REMARK 210 0.5 MM MAGNESIUM CHLORIDE, 90% REMARK 210 H2O/10% D2O; 1 MM [U-98% 13C; U- REMARK 210 98% 15N]-CYT,GUA RNA (48-MER), REMARK 210 10 MM TRIS, 0.5 MM MAGNESIUM REMARK 210 CHLORIDE, 100% D2O; 1 MM [U-98% REMARK 210 13C; U-98% 15N]-ADE,URI,CYT,GUA REMARK 210 RNA (48-MER), 10 MM TRIS, 0.5 MM REMARK 210 MAGNESIUM CHLORIDE, 90% H2O/10% REMARK 210 D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 11ECHO NOESY; 2D 13C REMARK 210 FILTERED/EDITED NOESY; 2D NOESY REMARK 210 PRESAT; 2D HCCH-COSY, 3D HCCH- REMARK 210 TOCSY; 2D HCCH COSY, 3D HCCH- REMARK 210 TOCSY; 2D 1H-13C HSQC; 2D REMARK 210 HNNOESY; HNN-COSY; 2D 1H-15N REMARK 210 HSQC; 2D 1H-1H TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ; 600 MHZ; 500 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE; DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : MOLMOL, NMRDRAW, SPARKY, REMARK 210 XWINNMR, TOPSPIN REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 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: 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: 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 O2' C A 27 H5' C A 28 1.42 REMARK 500 H1' U A 31 OP2 U A 32 1.51 REMARK 500 OP1 C A 28 H5 C A 30 1.55 REMARK 500 O2' C A 30 H5' U A 31 1.57 REMARK 500 H4' U A 31 O5' U A 32 1.58 REMARK 500 H2 A A 25 O4 U A 33 1.58 REMARK 500 O2' C A 29 H5' C A 30 1.60 REMARK 500 O2' A A 26 O4 U A 31 2.16 REMARK 500 REMARK 500 REMARK: NULL 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 G A 1 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 1 G A 1 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES REMARK 500 1 G A 2 N7 - C8 - N9 ANGL. DEV. = 4.4 DEGREES REMARK 500 1 G A 2 C8 - N9 - C4 ANGL. DEV. = -2.4 DEGREES REMARK 500 1 C A 6 C2 - N3 - C4 ANGL. DEV. = 3.0 DEGREES REMARK 500 1 A A 12 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 1 G A 13 N7 - C8 - N9 ANGL. DEV. = 4.4 DEGREES REMARK 500 1 G A 13 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES REMARK 500 1 G A 15 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 1 G A 15 C8 - N9 - C4 ANGL. DEV. = -2.7 DEGREES REMARK 500 1 A A 16 N7 - C8 - N9 ANGL. DEV. = 3.8 DEGREES REMARK 500 1 A A 24 N7 - C8 - N9 ANGL. DEV. = 3.6 DEGREES REMARK 500 1 A A 25 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 1 A A 26 N7 - C8 - N9 ANGL. DEV. = 3.5 DEGREES REMARK 500 1 G A 34 N7 - C8 - N9 ANGL. DEV. = 4.8 DEGREES REMARK 500 1 G A 34 C8 - N9 - C4 ANGL. DEV. = -2.4 DEGREES REMARK 500 1 G A 36 N7 - C8 - N9 ANGL. DEV. = 4.8 DEGREES REMARK 500 1 A A 38 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 1 A A 39 N7 - C8 - N9 ANGL. DEV. = 3.9 DEGREES REMARK 500 1 A A 40 N7 - C8 - N9 ANGL. DEV. = 3.8 DEGREES REMARK 500 1 A A 41 N7 - C8 - N9 ANGL. DEV. = 3.8 DEGREES REMARK 500 1 A A 42 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 1 A A 45 N7 - C8 - N9 ANGL. DEV. = 3.9 DEGREES REMARK 500 1 A A 48 N7 - C8 - N9 ANGL. DEV. = 3.6 DEGREES REMARK 500 2 G A 1 N7 - C8 - N9 ANGL. DEV. = 4.7 DEGREES REMARK 500 2 G A 1 C8 - N9 - C4 ANGL. DEV. = -2.7 DEGREES REMARK 500 2 G A 2 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 2 G A 2 C8 - N9 - C4 ANGL. DEV. = -2.4 DEGREES REMARK 500 2 C A 6 C2 - N3 - C4 ANGL. DEV. = 3.0 DEGREES REMARK 500 2 A A 12 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 2 G A 13 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 2 G A 13 C8 - N9 - C4 ANGL. DEV. = -2.7 DEGREES REMARK 500 2 G A 15 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 2 G A 15 C8 - N9 - C4 ANGL. DEV. = -2.7 DEGREES REMARK 500 2 A A 16 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 2 A A 24 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 2 A A 25 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 2 A A 26 N7 - C8 - N9 ANGL. DEV. = 3.6 DEGREES REMARK 500 2 G A 34 N7 - C8 - N9 ANGL. DEV. = 4.9 DEGREES REMARK 500 2 G A 34 C8 - N9 - C4 ANGL. DEV. = -2.5 DEGREES REMARK 500 2 G A 36 N7 - C8 - N9 ANGL. DEV. = 4.6 DEGREES REMARK 500 2 G A 36 C8 - N9 - C4 ANGL. DEV. = -2.5 DEGREES REMARK 500 2 A A 38 N7 - C8 - N9 ANGL. DEV. = 3.8 DEGREES REMARK 500 2 A A 39 N7 - C8 - N9 ANGL. DEV. = 3.8 DEGREES REMARK 500 2 A A 40 N7 - C8 - N9 ANGL. DEV. = 3.8 DEGREES REMARK 500 2 A A 41 N7 - C8 - N9 ANGL. DEV. = 3.8 DEGREES REMARK 500 2 A A 42 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 2 A A 45 N7 - C8 - N9 ANGL. DEV. = 4.0 DEGREES REMARK 500 2 A A 48 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 3 G A 1 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 492 ANGLE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 19260 RELATED DB: BMRB DBREF 2M8K A 1 48 PDB 2M8K 2M8K 1 48 SEQRES 1 A 48 G G U U U C U U U U U A G SEQRES 2 A 48 U G A U U U U U C C A A A SEQRES 3 A 48 C C C C U U U G U G C A A SEQRES 4 A 48 A A A U C A U U A 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