Header list of 1mnx.pdb file
Complete list - y 25 2 Bytes
HEADER RNA 06-SEP-02 1MNX
TITLE THE SOLUTION STRUCTURE OF THE LOOP E REGION OF THE 5S RRNA FROM
TITLE 2 SPINACH CHLOROPLASTS.
COMPND MOL_ID: 1;
COMPND 2 MOLECULE: LOOP E FROM 5S RRNA;
COMPND 3 CHAIN: A;
COMPND 4 ENGINEERED: YES
SOURCE MOL_ID: 1;
SOURCE 2 SYNTHETIC: YES;
SOURCE 3 ORGANISM_SCIENTIFIC: SPINACIA OLERACEA;
SOURCE 4 ORGANISM_COMMON: SPINACH;
SOURCE 5 ORGANISM_TAXID: 3562;
SOURCE 6 OTHER_DETAILS: RNA WAS IN VITRO TRANSCRIBED USING T7 RNA POLYMERASE
SOURCE 7 FROM A LINEARIZED PLASMID CONTAINING THE REQUIRED SEQUENCE. THE
SOURCE 8 SEQUENCE IS NATURALLY FOUND IN SPINACIA OLERACEA (SPINACH)
SOURCE 9 CHOLORPLASTS.
KEYWDS LOOP E, 5S RRNA, RNA
EXPDTA SOLUTION NMR
NUMMDL 13
MDLTYP MINIMIZED AVERAGE
AUTHOR P.VALLURUPALLI,P.B.MOORE
REVDAT 3 25-MAY-16 1MNX 1 SOURCE VERSN
REVDAT 2 24-FEB-09 1MNX 1 VERSN
REVDAT 1 14-JAN-03 1MNX 0
JRNL AUTH P.VALLURUPALLI,P.B.MOORE
JRNL TITL THE SOLUTION STRUCTURE OF THE LOOP E REGION OF THE 5S RRNA
JRNL TITL 2 FROM SPINACH CHLOROPLASTS
JRNL REF J.MOL.BIOL. V. 325 843 2003
JRNL REFN ISSN 0022-2836
JRNL PMID 12527295
JRNL DOI 10.1016/S0022-2836(02)01270-6
REMARK 1
REMARK 1 REFERENCE 1
REMARK 1 AUTH N.B.LEONTIS,E.WESTHOF
REMARK 1 TITL THE 5S RRNA LOOP E: CHEMICAL PROBING AND PHYLOGENETIC DATA
REMARK 1 TITL 2 VERSUS CRYSTAL STRUCTURE
REMARK 1 REF RNA V. 4 1134 1998
REMARK 1 REFN ISSN 1355-8382
REMARK 1 DOI 10.1017/S1355838298980566
REMARK 1 REFERENCE 2
REMARK 1 AUTH A.DALLAS,P.B.MOORE
REMARK 1 TITL THE LOOP E-LOOP D REGION OF ESCHERICHIA COLI 5S RRNA: THE
REMARK 1 TITL 2 SOLUTION STRUCTURE REVEALS AN UNUSUAL LOOP THAT MAY BE
REMARK 1 TITL 3 IMPORTANT FOR BINDING RIBOSOMAL PROTEINS.
REMARK 1 REF STRUCTURE V. 5 1639 1997
REMARK 1 REFN ISSN 0969-2126
REMARK 1 DOI 10.1016/S0969-2126(97)00311-0
REMARK 1 REFERENCE 3
REMARK 1 AUTH C.CORRELL,B.FREEBORN,P.B.MOORE,T.A.STEITZ
REMARK 1 TITL METALS, MOTIFS, AND RECOGNITION IN THE CRYSTAL STRUCTURE OF
REMARK 1 TITL 2 A 5S RRNA DOMAIN
REMARK 1 REF CELL(CAMBRIDGE,MASS.) V. 91 705 1997
REMARK 1 REFN ISSN 0092-8674
REMARK 1 REFERENCE 4
REMARK 1 AUTH M.LU,T.A.STEITZ
REMARK 1 TITL STRUCTURE OF ESCHERICHIA COLI RIBOSOMAL PROTEIN L25
REMARK 1 TITL 2 COMPLEXED WITH A 5S RRNA FRAGMENT AT 1.8-A RESOLUTION
REMARK 1 REF PROC.NATL.ACAD.SCI.USA V. 97 2023 2000
REMARK 1 REFN ISSN 0027-8424
REMARK 1 DOI 10.1073/PNAS.97.5.2023
REMARK 1 REFERENCE 5
REMARK 1 AUTH M.STOLDT,J.WOHNERT,O.OHLENSCHLAGER,M.GORLACH,L.R.BROWN
REMARK 1 TITL THE NMR STRUCTURE OF THE 5S RRNA E-DOMAIN-PROTEIN L25
REMARK 1 TITL 2 COMPLEX SHOWS PREFORMED AND INDUCED RECOGNITION
REMARK 1 REF EMBO J. V. 18 6508 1999
REMARK 1 REFN ISSN 0261-4189
REMARK 1 DOI 10.1093/EMBOJ/18.22.6508
REMARK 1 REFERENCE 6
REMARK 1 AUTH P.ROMBY,E.WESTHOF,R.TOUKIFIMPA,R.MACHE,J.P.EBEL,C.EHRESMANN,
REMARK 1 AUTH 2 B.EHRESMANN
REMARK 1 TITL HIGHER ORDER STRUCTURE OF CHLOROPLASTIC 5S RIBOSOMAL RNA
REMARK 1 TITL 2 FROM SPINACH.
REMARK 1 REF BIOCHEMISTRY V. 27 4721 1988
REMARK 1 REFN ISSN 0006-2960
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, GROSSE-
REMARK 3 KUNSTLEVE, JIANG, KUSZEWSKI, NILGES, PANNU, READ,
REMARK 3 RICE, SIMONSON, WARREN
REMARK 3
REMARK 3 OTHER REFINEMENT REMARKS:
REMARK 3 DISTANCE, DIHEDRAL, PLANARITY
REMARK 3 RESTRAINTS WERE USED IN THE
REMARK 3 FIRST ROUND, FOLLOWED BY DIPOLAR
REMARK 3 COUPLINGS IN THE SECOND ROUND
REMARK 3 (SEE PAPER FOR DETAILS)
REMARK 4
REMARK 4 1MNX COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-SEP-02.
REMARK 100 THE RCSB ID CODE IS RCSB017041.
REMARK 210
REMARK 210 EXPERIMENTAL DETAILS
REMARK 210 EXPERIMENT TYPE : NMR
REMARK 210 TEMPERATURE (KELVIN) : 298; 278
REMARK 210 PH : 6.0; 6.0
REMARK 210 IONIC STRENGTH : 50MM; 50MM
REMARK 210 PRESSURE : 1ATM; 1ATM
REMARK 210 SAMPLE CONTENTS : RNA MOLECULE (1MM-2MM) IN 50 MM
REMARK 210 NACL, 2.5MM CACODYLATE, 0.1MM
REMARK 210 EDTA, PH 6.0
REMARK 210
REMARK 210 NMR EXPERIMENTS CONDUCTED : (NOESY, HSQC FOR IMINO/AMINO
REMARK 210 ASSIGNMENTS); (NOESY, DQF-COSY,
REMARK 210 HSQC, NOESY-HMQC, HCCH COSY, ETC.
REMARK 210 SEE PAPER FOR MORE DETAILS.)
REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 600 MHZ; 800 MHZ
REMARK 210 SPECTROMETER MODEL : INOVA; UNITYPLUS
REMARK 210 SPECTROMETER MANUFACTURER : VARIAN
REMARK 210
REMARK 210 STRUCTURE DETERMINATION.
REMARK 210 SOFTWARE USED : FELIX 95, 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 : 13
REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LEAST
REMARK 210 RESTRAINT VIOLATIONS,STRUCTURES
REMARK 210 WITH THE LOWEST ENERGY
REMARK 210
REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1
REMARK 210
REMARK 210 REMARK: THIS STRUCTURE WAS DETERMINED USING DATA OBTAINED FROM
REMARK 210 HOMONUCLEAR AND HETERONUCLEAR 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 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: 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 U A 71 O4' - C1' - N1 ANGL. DEV. = 4.7 DEGREES
REMARK 500 1 G A 72 C4' - C3' - C2' ANGL. DEV. = 6.4 DEGREES
REMARK 500 1 G A 72 O4' - C1' - N9 ANGL. DEV. = -5.6 DEGREES
REMARK 500 1 C A 74 O4' - C1' - N1 ANGL. DEV. = 4.7 DEGREES
REMARK 500 1 G A 96 O4' - C1' - N9 ANGL. DEV. = 6.1 DEGREES
REMARK 500 2 G A 72 C2' - C3' - O3' ANGL. DEV. = 14.5 DEGREES
REMARK 500 2 G A 72 C4' - C3' - C2' ANGL. DEV. = 6.3 DEGREES
REMARK 500 2 G A 72 O4' - C1' - N9 ANGL. DEV. = -5.9 DEGREES
REMARK 500 2 G A 96 O4' - C1' - N9 ANGL. DEV. = 5.8 DEGREES
REMARK 500 3 G A 72 C4' - C3' - C2' ANGL. DEV. = 6.3 DEGREES
REMARK 500 3 G A 72 O4' - C1' - N9 ANGL. DEV. = -5.0 DEGREES
REMARK 500 3 C A 74 O4' - C1' - N1 ANGL. DEV. = 4.2 DEGREES
REMARK 500 3 G A 96 O4' - C1' - N9 ANGL. DEV. = 7.1 DEGREES
REMARK 500 4 G A 72 C4' - C3' - C2' ANGL. DEV. = 6.2 DEGREES
REMARK 500 4 G A 72 O4' - C1' - N9 ANGL. DEV. = -5.0 DEGREES
REMARK 500 4 C A 74 O4' - C1' - N1 ANGL. DEV. = 4.7 DEGREES
REMARK 500 4 G A 96 O4' - C1' - N9 ANGL. DEV. = 6.1 DEGREES
REMARK 500 5 U A 71 O4' - C1' - N1 ANGL. DEV. = 4.4 DEGREES
REMARK 500 5 G A 72 C4' - C3' - C2' ANGL. DEV. = 6.4 DEGREES
REMARK 500 5 G A 72 O4' - C1' - N9 ANGL. DEV. = -4.9 DEGREES
REMARK 500 5 C A 74 O4' - C1' - N1 ANGL. DEV. = 6.4 DEGREES
REMARK 500 5 G A 96 O4' - C1' - N9 ANGL. DEV. = 4.6 DEGREES
REMARK 500 6 G A 72 C2' - C3' - O3' ANGL. DEV. = 14.9 DEGREES
REMARK 500 6 G A 72 C4' - C3' - C2' ANGL. DEV. = 6.7 DEGREES
REMARK 500 6 G A 72 O4' - C1' - N9 ANGL. DEV. = -6.8 DEGREES
REMARK 500 6 G A 96 O4' - C1' - N9 ANGL. DEV. = 5.6 DEGREES
REMARK 500 7 U A 71 O4' - C1' - N1 ANGL. DEV. = 4.6 DEGREES
REMARK 500 7 G A 72 C4' - C3' - C2' ANGL. DEV. = 6.1 DEGREES
REMARK 500 7 G A 72 O4' - C1' - N9 ANGL. DEV. = -5.7 DEGREES
REMARK 500 7 C A 74 O4' - C1' - N1 ANGL. DEV. = 4.5 DEGREES
REMARK 500 7 G A 96 O4' - C1' - N9 ANGL. DEV. = 5.3 DEGREES
REMARK 500 8 G A 72 C4' - C3' - C2' ANGL. DEV. = 6.5 DEGREES
REMARK 500 8 G A 72 O4' - C1' - N9 ANGL. DEV. = -5.4 DEGREES
REMARK 500 8 C A 79 O4' - C1' - N1 ANGL. DEV. = 4.3 DEGREES
REMARK 500 8 G A 96 O4' - C1' - N9 ANGL. DEV. = 5.5 DEGREES
REMARK 500 9 U A 71 O4' - C1' - N1 ANGL. DEV. = 4.7 DEGREES
REMARK 500 9 G A 72 C4' - C3' - C2' ANGL. DEV. = 6.4 DEGREES
REMARK 500 9 G A 72 O4' - C1' - N9 ANGL. DEV. = -5.3 DEGREES
REMARK 500 9 C A 74 O4' - C1' - N1 ANGL. DEV. = 4.5 DEGREES
REMARK 500 9 G A 96 O4' - C1' - N9 ANGL. DEV. = 5.3 DEGREES
REMARK 500 10 U A 71 O4' - C1' - N1 ANGL. DEV. = 4.6 DEGREES
REMARK 500 10 G A 72 C4' - C3' - C2' ANGL. DEV. = 6.6 DEGREES
REMARK 500 10 G A 72 O4' - C1' - N9 ANGL. DEV. = -5.1 DEGREES
REMARK 500 10 C A 74 O4' - C1' - N1 ANGL. DEV. = 4.4 DEGREES
REMARK 500 10 U A 77 O4' - C1' - N1 ANGL. DEV. = 4.8 DEGREES
REMARK 500 10 U A 80 O4' - C1' - N1 ANGL. DEV. = 4.4 DEGREES
REMARK 500 10 G A 96 O4' - C1' - N9 ANGL. DEV. = 5.9 DEGREES
REMARK 500 11 G A 72 C4' - C3' - C2' ANGL. DEV. = 6.5 DEGREES
REMARK 500 11 G A 72 O4' - C1' - N9 ANGL. DEV. = -4.9 DEGREES
REMARK 500 11 C A 74 O4' - C1' - N1 ANGL. DEV. = 5.0 DEGREES
REMARK 500
REMARK 500 THIS ENTRY HAS 59 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 G A 70 0.06 SIDE CHAIN
REMARK 500 1 C A 79 0.07 SIDE CHAIN
REMARK 500 1 G A 81 0.06 SIDE CHAIN
REMARK 500 1 G A 85 0.07 SIDE CHAIN
REMARK 500 1 G A 87 0.09 SIDE CHAIN
REMARK 500 1 A A 88A 0.07 SIDE CHAIN
REMARK 500 1 G A 96 0.10 SIDE CHAIN
REMARK 500 2 U A 71 0.07 SIDE CHAIN
REMARK 500 2 A A 73 0.05 SIDE CHAIN
REMARK 500 2 C A 79 0.08 SIDE CHAIN
REMARK 500 2 G A 85 0.09 SIDE CHAIN
REMARK 500 2 G A 87 0.11 SIDE CHAIN
REMARK 500 2 A A 88A 0.06 SIDE CHAIN
REMARK 500 2 G A 88B 0.07 SIDE CHAIN
REMARK 500 2 C A 91 0.08 SIDE CHAIN
REMARK 500 2 C A 92 0.07 SIDE CHAIN
REMARK 500 2 G A 94 0.05 SIDE CHAIN
REMARK 500 2 G A 96 0.10 SIDE CHAIN
REMARK 500 2 A A 104 0.06 SIDE CHAIN
REMARK 500 2 C A 107 0.07 SIDE CHAIN
REMARK 500 2 C A 108 0.08 SIDE CHAIN
REMARK 500 3 G A 70 0.08 SIDE CHAIN
REMARK 500 3 U A 71 0.09 SIDE CHAIN
REMARK 500 3 G A 72 0.07 SIDE CHAIN
REMARK 500 3 U A 82 0.07 SIDE CHAIN
REMARK 500 3 A A 83 0.09 SIDE CHAIN
REMARK 500 3 G A 85 0.06 SIDE CHAIN
REMARK 500 3 G A 87 0.10 SIDE CHAIN
REMARK 500 3 A A 88A 0.06 SIDE CHAIN
REMARK 500 3 G A 88B 0.07 SIDE CHAIN
REMARK 500 3 A A 89 0.06 SIDE CHAIN
REMARK 500 3 G A 94 0.06 SIDE CHAIN
REMARK 500 3 G A 96 0.14 SIDE CHAIN
REMARK 500 3 C A 108 0.09 SIDE CHAIN
REMARK 500 4 G A 72 0.06 SIDE CHAIN
REMARK 500 4 C A 79 0.08 SIDE CHAIN
REMARK 500 4 G A 85 0.07 SIDE CHAIN
REMARK 500 4 C A 86 0.06 SIDE CHAIN
REMARK 500 4 G A 87 0.11 SIDE CHAIN
REMARK 500 4 A A 88A 0.06 SIDE CHAIN
REMARK 500 4 G A 88B 0.07 SIDE CHAIN
REMARK 500 4 G A 96 0.09 SIDE CHAIN
REMARK 500 5 C A 79 0.10 SIDE CHAIN
REMARK 500 5 G A 85 0.08 SIDE CHAIN
REMARK 500 5 G A 87 0.15 SIDE CHAIN
REMARK 500 5 A A 89 0.07 SIDE CHAIN
REMARK 500 5 G A 96 0.10 SIDE CHAIN
REMARK 500 5 A A 104 0.06 SIDE CHAIN
REMARK 500 6 G A 70 0.08 SIDE CHAIN
REMARK 500 6 G A 85 0.10 SIDE CHAIN
REMARK 500
REMARK 500 THIS ENTRY HAS 137 PLANE DEVIATIONS.
REMARK 500
REMARK 500 REMARK: NULL
DBREF 1MNX A 68 108 PDB 1MNX 1MNX 68 108
SEQRES 1 A 42 G G G U G A C G A U A C U
SEQRES 2 A 42 G U A G G C G A G A G C C
SEQRES 3 A 42 U G C G G A A A A A U A G
SEQRES 4 A 42 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
Complete list - y 25 2 Bytes