2AWQ - Header Asymmetric Unit

HEADER RNA 01-SEP-05 2AWQ

TITLE SOLUTION STRUCTURE OF PSEUDOURIDINE-32 MODIFIED ANTICODON TITLE 2 STEM-LOOP OF E. COLI TRNAPHE

COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-R(*GP*GP*GP*GP*AP*(PSU) COMPND 3 P*UP*GP*AP*AP*AP*AP*UP*CP*CP*CP*C)-3'; COMPND 4 CHAIN: A; COMPND 5 FRAGMENT: ANTICODON ARM; COMPND 6 ENGINEERED: YES; COMPND 7 OTHER_DETAILS: PSEUDOURIDINE-MODIFIED ANTICODON ARM OF E. COMPND 8 COLI TRNAPHE

SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: PREPARED BY IN VITRO TRANSCRIPTION AND SOURCE 4 ENZYMATICALLY PSEUDOURIDYLATED

KEYWDS TRI-LOOP,WATSON-CRICK TYPE PSI32-A38 BASE PAIR, RNA

EXPDTA SOLUTION NMR

NUMMDL 10

AUTHOR J.CABELLO-VILLEGAS,E.P.NIKONOWICZ

REVDAT 2 24-FEB-09 2AWQ 1 VERSN REVDAT 1 17-JAN-06 2AWQ 0

JRNL AUTH J.CABELLO-VILLEGAS,E.P.NIKONOWICZ JRNL TITL SOLUTION STRUCTURE OF PSI32-MODIFIED ANTICODON JRNL TITL 2 STEM-LOOP OF ESCHERICHIA COLI TRNAPHE. JRNL REF NUCLEIC ACIDS RES. V. 33 6961 2005 JRNL REFN ISSN 0305-1048 JRNL PMID 16377777 JRNL DOI 10.1093/NAR/GKI1004

REMARK 1

REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.

REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.851 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: STRUCTURE DETERMINED USING NOE REMARK 3 DERIVED DISTANCE CONSTRAINTS, AND TORSIONAL ANGLE RESTRAINTS REMARK 3 DERIVED FROM J-COUPLINGS. HYDROGEN BONDS DERIVED FROM NOESY REMARK 3 AND NN-COSY DATA.

REMARK 4 REMARK 4 2AWQ COMPLIES WITH FORMAT V. 3.15, 01-DEC-08

REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-SEP-05. REMARK 100 THE RCSB ID CODE IS RCSB034404.

REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298; 285 REMARK 210 PH : 6.8; 6.8 REMARK 210 IONIC STRENGTH : 10 MM NACL, 10 MM POTASSIUM REMARK 210 PHOSPHATE; 10 MM NACL, 10 MM REMARK 210 POTASSIUM PHOSPHATE REMARK 210 PRESSURE : AMBIENT; AMBIENT REMARK 210 SAMPLE CONTENTS : 2.3 MM C-13 LABELED RNA REMARK 210 HAIRPIN, 10 MM NACL, 10 MM REMARK 210 POTASSIUM PHOSPHATE, PH 6.8; REMARK 210 2.8 MM N-15 LABELED RNA REMARK 210 HAIRPIN, 10 MM NACL, 10 MM REMARK 210 POTASSIUM PHOSPHATE, PH 6.8 REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_13C-SEPARATED_NOESY, HCCH- REMARK 210 TOCSY, CCH-RELAY, 3D_15N- REMARK 210 SEPARATED_NOESY, DQF-COSY, HP- REMARK 210 HETCOR REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ, 600 MHZ REMARK 210 SPECTROMETER MODEL : AMX, INOVA REMARK 210 SPECTROMETER MANUFACTURER : BRUKER, VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : FELIX 2000 REMARK 210 METHOD USED : TORSION ANGLE RANDOMIZATION REMARK 210 SIMULATED ANNEALING AND REMARK 210 MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 75 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH ACCEPTABLE REMARK 210 COVALENT GEOMETRY,STRUCTURES REMARK 210 WITH FAVORABLE NON-BOND REMARK 210 ENERGY,STRUCTURES WITH THE REMARK 210 LEAST RESTRAINT VIOLATIONS, REMARK 210 STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: PSEUDOURIDINE ASSIGNED USING CCH-RELAY TYPE REMARK 210 EXPERIMENTS. BASE PAIRING DETERMINED FROM INTERRESIDUE N-N REMARK 210 SCALAR CORRELATIONS. DISTANCES DERIVED FROM MULTIPLE MIXING REMARK 210 TIME NOESY EXPERIMENTS.

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 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. = -2.8 DEGREES REMARK 500 1 G A 2 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 1 G A 2 C8 - N9 - C4 ANGL. DEV. = -2.8 DEGREES REMARK 500 1 G A 3 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 1 G A 3 C8 - N9 - C4 ANGL. DEV. = -2.9 DEGREES REMARK 500 1 G A 4 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 1 G A 4 C8 - N9 - C4 ANGL. DEV. = -2.9 DEGREES REMARK 500 1 A A 5 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 1 A A 5 C8 - N9 - C4 ANGL. DEV. = -2.4 DEGREES REMARK 500 1 G A 8 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 1 G A 8 C8 - N9 - C4 ANGL. DEV. = -2.9 DEGREES REMARK 500 1 A A 9 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 1 A A 9 C8 - N9 - C4 ANGL. DEV. = -2.4 DEGREES REMARK 500 1 A A 10 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 1 A A 10 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES REMARK 500 1 A A 11 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 1 A A 11 C8 - N9 - C4 ANGL. DEV. = -2.4 DEGREES REMARK 500 1 A A 12 N7 - C8 - N9 ANGL. DEV. = 3.6 DEGREES REMARK 500 2 G A 1 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 2 G A 1 C8 - N9 - C4 ANGL. DEV. = -2.9 DEGREES REMARK 500 2 G A 2 N7 - C8 - N9 ANGL. DEV. = 4.6 DEGREES REMARK 500 2 G A 2 C8 - N9 - C4 ANGL. DEV. = -2.9 DEGREES REMARK 500 2 G A 3 N7 - C8 - N9 ANGL. DEV. = 4.4 DEGREES REMARK 500 2 G A 3 C8 - N9 - C4 ANGL. DEV. = -2.8 DEGREES REMARK 500 2 G A 4 N7 - C8 - N9 ANGL. DEV. = 4.6 DEGREES REMARK 500 2 G A 4 C8 - N9 - C4 ANGL. DEV. = -2.9 DEGREES REMARK 500 2 A A 5 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 2 G A 8 N7 - C8 - N9 ANGL. DEV. = 4.6 DEGREES REMARK 500 2 G A 8 C8 - N9 - C4 ANGL. DEV. = -2.9 DEGREES REMARK 500 2 A A 9 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 2 A A 9 C8 - N9 - C4 ANGL. DEV. = -2.4 DEGREES REMARK 500 2 A A 10 N7 - C8 - N9 ANGL. DEV. = 3.6 DEGREES REMARK 500 2 A A 10 C8 - N9 - C4 ANGL. DEV. = -2.5 DEGREES REMARK 500 2 A A 11 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 2 A A 11 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES REMARK 500 2 A A 12 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 2 A A 12 C8 - N9 - C4 ANGL. DEV. = -2.5 DEGREES REMARK 500 3 G A 1 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 3 G A 1 C8 - N9 - C4 ANGL. DEV. = -2.9 DEGREES REMARK 500 3 G A 2 N7 - C8 - N9 ANGL. DEV. = 4.6 DEGREES REMARK 500 3 G A 2 C8 - N9 - C4 ANGL. DEV. = -2.9 DEGREES REMARK 500 3 G A 3 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 3 G A 3 C8 - N9 - C4 ANGL. DEV. = -2.9 DEGREES REMARK 500 3 G A 4 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 3 G A 4 C8 - N9 - C4 ANGL. DEV. = -2.8 DEGREES REMARK 500 3 A A 5 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 3 A A 5 C8 - N9 - C4 ANGL. DEV. = -2.4 DEGREES REMARK 500 3 G A 8 N7 - C8 - N9 ANGL. DEV. = 4.6 DEGREES REMARK 500 3 G A 8 C8 - N9 - C4 ANGL. DEV. = -2.9 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 188 ANGLE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL

DBREF 2AWQ A 1 17 PDB 2AWQ 2AWQ 1 17

SEQRES 1 A 17 G G G G A PSU U G A A A A U SEQRES 2 A 17 C C C C

MODRES 2AWQ PSU A 6 U PSEUDOURIDINE-5'-MONOPHOSPHATE

HET PSU A 6 30

HETNAM PSU PSEUDOURIDINE-5'-MONOPHOSPHATE

FORMUL 1 PSU C9 H13 N2 O9 P

LINK O3' A A 5 P PSU A 6 1555 1555 1.62 LINK O3' PSU A 6 P U A 7 1555 1555 1.62

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