HEADER RNA 22-JUL-04 1U3K TITLE THE SOLUTION STRUCTURE OF A SUBSTRATE OF ARCHAEAL PRE-TRNA SPLICING TITLE 2 ENDONUCLEASES COMPND MOL_ID: 1; COMPND 2 MOLECULE: ABISS7; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: RNA WAS PREPARED BY IN VITRO TRANSCRIPTION WITH T7 SOURCE 4 RNA POLYMERASE KEYWDS BULGE-HELIX-BULGE, RNA EXPDTA SOLUTION NMR NUMMDL 10 MDLTYP MINIMIZED AVERAGE AUTHOR E.C.POLLOCK,P.B.MOORE REVDAT 3 02-MAR-22 1U3K 1 REMARK REVDAT 2 24-FEB-09 1U3K 1 VERSN REVDAT 1 12-JUL-05 1U3K 0 JRNL AUTH E.C.POLLOCK,P.B.MOORE JRNL TITL THE SOLUTION STRUCTURE OF A SUBSTRATE OF ARCHAEAL PRE-TRNA JRNL TITL 2 SPLICING ENDONUCLEASES JRNL REF TO BE PUBLISHED JRNL REFN REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH J.L.DIENER,P.B.MOORE REMARK 1 TITL SOLUTION STRUCTURE OF A SUBSTRATE FOR THE ARCHAEAL PRE-TRNA REMARK 1 TITL 2 SPLICING ENDONUCLEASES: THE BULGE-HELIX-BULGE MOTIF REMARK 1 REF MOL.CELL V. 1 883 1998 REMARK 1 REFN ISSN 1097-2765 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.0 REMARK 3 AUTHORS : BRUNGER, ADAMS, CLORE, DELANO, GROS, GROSS REMARK 3 -KUNSTLEVE, JIANG, KUSZEWSKI, NILGES, PANNU, READ, REMARK 3 RICE, SIMONSON, WARREN REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1U3K COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-AUG-04. REMARK 100 THE DEPOSITION ID IS D_1000023200. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303 REMARK 210 PH : 7 REMARK 210 IONIC STRENGTH : 95MM REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : RNA MOLECULE, 1-2MM IN 80MM REMARK 210 NACL, 5MM PHOSPATE BUFFER PH 7, REMARK 210 D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : NOESY-HSQC; HCCH-COSY; ETC REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : UNITYPLUS REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : FELIX 97, SPARKY 3.0 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS, REMARK 210 MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 65 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH ACCEPTABLE REMARK 210 COVALENT GEOMETRY, 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: THIS STRUCTURE WAS DETERMINED WITH RESIDUAL DIPOLAR REMARK 210 COUPLING DATA 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 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 1 G A 1 N1 G A 1 C2 -0.051 REMARK 500 1 G A 2 N1 G A 2 C2 -0.056 REMARK 500 1 G A 3 N1 G A 3 C2 -0.050 REMARK 500 1 G A 5 N1 G A 5 C2 -0.053 REMARK 500 1 C A 10 C4 C A 10 N4 -0.058 REMARK 500 1 G A 12 N1 G A 12 C2 -0.056 REMARK 500 1 G A 14 N1 G A 14 C2 -0.057 REMARK 500 1 G A 15 N1 G A 15 C2 -0.049 REMARK 500 1 C A 17 C4 C A 17 N4 -0.056 REMARK 500 1 G A 18 N1 G A 18 C2 -0.091 REMARK 500 1 G A 18 C2 G A 18 N3 -0.049 REMARK 500 1 G A 18 C2 G A 18 N2 -0.066 REMARK 500 1 G A 20 N1 G A 20 C2 -0.055 REMARK 500 1 G A 22 N1 G A 22 C2 -0.054 REMARK 500 1 C A 25 C4 C A 25 N4 -0.063 REMARK 500 1 G A 26 N1 G A 26 C2 -0.058 REMARK 500 1 G A 27 N1 G A 27 C2 -0.049 REMARK 500 1 G A 29 N1 G A 29 C2 -0.059 REMARK 500 1 C A 36 C4 C A 36 N4 -0.056 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 N1 - C2 - N3 ANGL. DEV. = 4.8 DEGREES REMARK 500 1 G A 1 N1 - C2 - N2 ANGL. DEV. = -5.7 DEGREES REMARK 500 1 G A 2 N1 - C2 - N3 ANGL. DEV. = 4.9 DEGREES REMARK 500 1 G A 2 N1 - C2 - N2 ANGL. DEV. = -6.5 DEGREES REMARK 500 1 G A 3 N1 - C2 - N3 ANGL. DEV. = 4.5 DEGREES REMARK 500 1 G A 3 N1 - C2 - N2 ANGL. DEV. = -5.7 DEGREES REMARK 500 1 G A 5 N1 - C2 - N3 ANGL. DEV. = 5.0 DEGREES REMARK 500 1 G A 5 N1 - C2 - N2 ANGL. DEV. = -6.4 DEGREES REMARK 500 1 A A 6 C5 - C6 - N1 ANGL. DEV. = 3.5 DEGREES REMARK 500 1 A A 6 N1 - C6 - N6 ANGL. DEV. = -8.8 DEGREES REMARK 500 1 A A 6 C5 - C6 - N6 ANGL. DEV. = 5.3 DEGREES REMARK 500 1 C A 7 N3 - C4 - C5 ANGL. DEV. = 4.3 DEGREES REMARK 500 1 C A 9 C2 - N3 - C4 ANGL. DEV. = -3.6 DEGREES REMARK 500 1 C A 9 N3 - C4 - C5 ANGL. DEV. = 4.8 DEGREES REMARK 500 1 C A 9 N3 - C4 - N4 ANGL. DEV. = -5.9 DEGREES REMARK 500 1 C A 10 N3 - C4 - C5 ANGL. DEV. = 4.2 DEGREES REMARK 500 1 C A 10 N3 - C4 - N4 ANGL. DEV. = -5.0 DEGREES REMARK 500 1 A A 11 C4 - C5 - C6 ANGL. DEV. = -3.1 DEGREES REMARK 500 1 A A 11 C5 - C6 - N1 ANGL. DEV. = 3.5 DEGREES REMARK 500 1 A A 11 N1 - C6 - N6 ANGL. DEV. = -11.3 DEGREES REMARK 500 1 A A 11 C5 - C6 - N6 ANGL. DEV. = 7.8 DEGREES REMARK 500 1 G A 12 N1 - C2 - N3 ANGL. DEV. = 4.8 DEGREES REMARK 500 1 G A 12 N1 - C2 - N2 ANGL. DEV. = -6.9 DEGREES REMARK 500 1 A A 13 C5' - C4' - O4' ANGL. DEV. = 9.1 DEGREES REMARK 500 1 A A 13 C2' - C3' - O3' ANGL. DEV. = 11.9 DEGREES REMARK 500 1 A A 13 C4' - C3' - C2' ANGL. DEV. = -8.1 DEGREES REMARK 500 1 A A 13 N9 - C1' - C2' ANGL. DEV. = 8.1 DEGREES REMARK 500 1 A A 13 O4' - C1' - N9 ANGL. DEV. = -10.0 DEGREES REMARK 500 1 A A 13 C5 - C6 - N1 ANGL. DEV. = 3.9 DEGREES REMARK 500 1 A A 13 N1 - C6 - N6 ANGL. DEV. = -10.8 DEGREES REMARK 500 1 A A 13 C5 - C6 - N6 ANGL. DEV. = 6.7 DEGREES REMARK 500 1 G A 14 N1 - C2 - N3 ANGL. DEV. = 4.8 DEGREES REMARK 500 1 G A 14 C2 - N3 - C4 ANGL. DEV. = -3.4 DEGREES REMARK 500 1 G A 14 N1 - C2 - N2 ANGL. DEV. = -8.0 DEGREES REMARK 500 1 G A 15 N1 - C2 - N3 ANGL. DEV. = 4.5 DEGREES REMARK 500 1 G A 15 N1 - C6 - O6 ANGL. DEV. = -3.6 DEGREES REMARK 500 1 C A 17 O4' - C1' - N1 ANGL. DEV. = 4.4 DEGREES REMARK 500 1 C A 17 C2 - N3 - C4 ANGL. DEV. = -3.8 DEGREES REMARK 500 1 C A 17 N3 - C4 - C5 ANGL. DEV. = 5.2 DEGREES REMARK 500 1 G A 18 O4' - C1' - N9 ANGL. DEV. = 4.2 DEGREES REMARK 500 1 G A 18 N1 - C2 - N3 ANGL. DEV. = 8.5 DEGREES REMARK 500 1 G A 18 C2 - N3 - C4 ANGL. DEV. = -5.0 DEGREES REMARK 500 1 G A 18 N1 - C2 - N2 ANGL. DEV. = -12.6 DEGREES REMARK 500 1 A A 19 C5 - C6 - N1 ANGL. DEV. = 3.8 DEGREES REMARK 500 1 A A 19 N1 - C6 - N6 ANGL. DEV. = -11.0 DEGREES REMARK 500 1 A A 19 C5 - C6 - N6 ANGL. DEV. = 7.3 DEGREES REMARK 500 1 G A 20 N1 - C2 - N3 ANGL. DEV. = 4.5 DEGREES REMARK 500 1 G A 20 N1 - C2 - N2 ANGL. DEV. = -6.5 DEGREES REMARK 500 1 G A 20 N1 - C6 - O6 ANGL. DEV. = -3.8 DEGREES REMARK 500 1 A A 21 N9 - C1' - C2' ANGL. DEV. = 11.1 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 107 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 A 6 0.09 SIDE CHAIN REMARK 500 1 U A 8 0.11 SIDE CHAIN REMARK 500 1 C A 9 0.07 SIDE CHAIN REMARK 500 1 A A 11 0.06 SIDE CHAIN REMARK 500 1 G A 12 0.10 SIDE CHAIN REMARK 500 1 A A 13 0.08 SIDE CHAIN REMARK 500 1 G A 14 0.14 SIDE CHAIN REMARK 500 1 C A 17 0.07 SIDE CHAIN REMARK 500 1 G A 18 0.27 SIDE CHAIN REMARK 500 1 A A 19 0.09 SIDE CHAIN REMARK 500 1 A A 21 0.12 SIDE CHAIN REMARK 500 1 C A 24 0.09 SIDE CHAIN REMARK 500 1 C A 25 0.11 SIDE CHAIN REMARK 500 1 G A 27 0.16 SIDE CHAIN REMARK 500 1 A A 28 0.07 SIDE CHAIN REMARK 500 1 A A 30 0.06 SIDE CHAIN REMARK 500 2 G A 3 0.07 SIDE CHAIN REMARK 500 2 A A 6 0.06 SIDE CHAIN REMARK 500 2 C A 7 0.07 SIDE CHAIN REMARK 500 2 U A 8 0.14 SIDE CHAIN REMARK 500 2 C A 9 0.07 SIDE CHAIN REMARK 500 2 C A 10 0.09 SIDE CHAIN REMARK 500 2 A A 11 0.07 SIDE CHAIN REMARK 500 2 A A 13 0.16 SIDE CHAIN REMARK 500 2 G A 14 0.15 SIDE CHAIN REMARK 500 2 C A 17 0.13 SIDE CHAIN REMARK 500 2 G A 18 0.18 SIDE CHAIN REMARK 500 2 A A 19 0.10 SIDE CHAIN REMARK 500 2 G A 20 0.10 SIDE CHAIN REMARK 500 2 A A 21 0.17 SIDE CHAIN REMARK 500 2 C A 25 0.14 SIDE CHAIN REMARK 500 2 G A 26 0.11 SIDE CHAIN REMARK 500 2 G A 27 0.20 SIDE CHAIN REMARK 500 2 A A 28 0.06 SIDE CHAIN REMARK 500 2 A A 32 0.05 SIDE CHAIN REMARK 500 2 C A 34 0.07 SIDE CHAIN REMARK 500 2 C A 37 0.08 SIDE CHAIN REMARK 500 3 A A 6 0.05 SIDE CHAIN REMARK 500 3 C A 9 0.10 SIDE CHAIN REMARK 500 3 C A 10 0.20 SIDE CHAIN REMARK 500 3 A A 13 0.14 SIDE CHAIN REMARK 500 3 G A 14 0.17 SIDE CHAIN REMARK 500 3 C A 17 0.13 SIDE CHAIN REMARK 500 3 G A 18 0.18 SIDE CHAIN REMARK 500 3 A A 19 0.10 SIDE CHAIN REMARK 500 3 G A 20 0.10 SIDE CHAIN REMARK 500 3 A A 21 0.17 SIDE CHAIN REMARK 500 3 C A 25 0.16 SIDE CHAIN REMARK 500 3 G A 26 0.14 SIDE CHAIN REMARK 500 3 G A 27 0.18 SIDE CHAIN REMARK 500 REMARK 500 THIS ENTRY HAS 174 PLANE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2A9L RELATED DB: PDB REMARK 900 THE SAME RNA, PREVIOUS PUBLICATION REMARK 900 RELATED ID: 1A9L RELATED DB: PDB REMARK 900 THE SAME RNA, PREVIOUS PUBLICATION DBREF 1U3K A 1 38 PDB 1U3K 1U3K 1 38 SEQRES 1 A 38 G G G U G A C U C C A G A SEQRES 2 A 38 G G U C G A G A G A C C G SEQRES 3 A 38 G A G A U A U C A C C C 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