Header list of 1ie1.pdb file
Complete list - b 1 2 Bytes
HEADER RNA 05-APR-01 1IE1
TITLE NMR SOLUTION STRUCTURE OF AN IN VITRO SELECTED RNA WHICH IS SEQUENCE
TITLE 2 SPECIFICALLY RECOGNIZED BY HAMSTER NUCLEOLIN RBD12.
COMPND MOL_ID: 1;
COMPND 2 MOLECULE: 5'-R(*GP*GP*CP*CP*GP*AP*AP*AP*UP*CP*CP*CP*GP*AP*AP*GP*UP*AP
COMPND 3 *GP*GP*CP*C)-3';
COMPND 4 CHAIN: A;
COMPND 5 ENGINEERED: YES;
COMPND 6 OTHER_DETAILS: IN VITRO SELECTED RNA APATAMER TO HAMSTER NUCLEOLIN.
SOURCE MOL_ID: 1;
SOURCE 2 SYNTHETIC: YES;
SOURCE 3 OTHER_DETAILS: MADE BY IN VITRO TRANSCRIPTION USING MILLIGAN
SOURCE 4 TEMPLATES.
KEYWDS EUCARYOTIC LOOP E MOTIF A-FORM HELIX FLEXIBLE LOOP, RNA
EXPDTA SOLUTION NMR
NUMMDL 18
AUTHOR P.BOUVET,F.H.-T.ALLAIN,L.D.FINGER,T.DIECKMANN,J.FEIGON
REVDAT 4 01-FEB-17 1IE1 1 AUTHOR VERSN
REVDAT 3 24-FEB-09 1IE1 1 VERSN
REVDAT 2 01-APR-03 1IE1 1 JRNL
REVDAT 1 20-JUN-01 1IE1 0
JRNL AUTH P.BOUVET,F.H.ALLAIN,L.D.FINGER,T.DIECKMANN,J.FEIGON
JRNL TITL RECOGNITION OF PRE-FORMED AND FLEXIBLE ELEMENTS OF AN RNA
JRNL TITL 2 STEM-LOOP BY NUCLEOLIN.
JRNL REF J.MOL.BIOL. V. 309 763 2001
JRNL REFN ISSN 0022-2836
JRNL PMID 11397095
JRNL DOI 10.1006/JMBI.2001.4691
REMARK 2
REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3
REMARK 3 REFINEMENT.
REMARK 3 PROGRAM : X-PLOR 3.8
REMARK 3 AUTHORS : BRUNGER & NILGES
REMARK 3
REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4
REMARK 4 1IE1 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-APR-01.
REMARK 100 THE RCSB ID CODE IS RCSB013193.
REMARK 210
REMARK 210 EXPERIMENTAL DETAILS
REMARK 210 EXPERIMENT TYPE : NMR
REMARK 210 TEMPERATURE (KELVIN) : 278; 303; 278; 303
REMARK 210 PH : 6; 6; 6; 6
REMARK 210 IONIC STRENGTH : LOW (2-5 MM ADDED NA+); LOW (2-5
REMARK 210 MM ADDED NA+); LOW (2-5 MM ADDED
REMARK 210 NA+); LOW (2-5 MM ADDED NA+)
REMARK 210 PRESSURE : AMBIENT; AMBIENT; AMBIENT;
REMARK 210 AMBIENT
REMARK 210 SAMPLE CONTENTS : 1 MM SNRE 2-5 MM NA+ ADDED FOR
REMARK 210 PH; 1 MM SNRE 2-5 MM NA+ ADDED
REMARK 210 FOR PH; 0.5 MM U-13C/15N SNRE 2-5
REMARK 210 MM NA+ ADDED FOR PH; 0.5 MM U-
REMARK 210 13C/15N SNRE 2-5 MM NA+ ADDED FOR
REMARK 210 PH
REMARK 210
REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY; H-N HMQC; 3D_13C-
REMARK 210 SEPARATED_NOESY; HCCH TOCSY; DQF-
REMARK 210 COSY
REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 600 MHZ
REMARK 210 SPECTROMETER MODEL : DRX
REMARK 210 SPECTROMETER MANUFACTURER : BRUKER
REMARK 210
REMARK 210 STRUCTURE DETERMINATION.
REMARK 210 SOFTWARE USED : XWINNMR 2.6, FELIX 97.0, X-PLOR
REMARK 210 3.8
REMARK 210 METHOD USED : SIMULATED ANNEALING STARTING
REMARK 210 FROM RANDOMIZED TEMPLATES. BASE
REMARK 210 PLANARITY RESTRAINTS WERE ADDED.
REMARK 210
REMARK 210 CONFORMERS, NUMBER CALCULATED : 18
REMARK 210 CONFORMERS, NUMBER SUBMITTED : 18
REMARK 210 CONFORMERS, SELECTION CRITERIA : ALL CALCULATED STRUCTURES
REMARK 210 SUBMITTED
REMARK 210
REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 18
REMARK 210
REMARK 210 REMARK: RNA WAS ALSO ASSIGNED USING U/C, A, AND, G SPECIFICALLY
REMARK 210 LABELED SAMPLES. DIECKMANN, T., FEIGON, J. J. BIOMOL. NMR 9
REMARK 210 (1997) 259-272.
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 HO2' G A 1 O5' G A 2 1.33
REMARK 500 O2' U A 9 H5'' C A 10 1.37
REMARK 500 O6 G A 1 H41 C A 22 1.42
REMARK 500 H22 G A 5 N7 A A 18 1.50
REMARK 500 H21 G A 1 O2 C A 22 1.50
REMARK 500 H1 G A 1 N3 C A 22 1.53
REMARK 500 H4' G A 1 OP1 G A 2 1.53
REMARK 500 N3 G A 5 H62 A A 18 1.56
REMARK 500 H5' C A 10 O5' C A 11 1.59
REMARK 500 O2' C A 4 O5' G A 5 2.10
REMARK 500 O2' G A 1 O5' G A 2 2.17
REMARK 500 O2' C A 4 O4' G A 5 2.18
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 8 A A 8 C8 A A 8 N9 -0.056
REMARK 500 15 A A 8 C8 A A 8 N9 -0.054
REMARK 500 18 U A 9 N1 U A 9 C6 -0.090
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. = 4.6 DEGREES
REMARK 500 1 G A 1 C8 - N9 - C4 ANGL. DEV. = -2.5 DEGREES
REMARK 500 1 G A 2 N7 - C8 - N9 ANGL. DEV. = 4.3 DEGREES
REMARK 500 1 G A 2 C8 - N9 - C4 ANGL. DEV. = -2.5 DEGREES
REMARK 500 1 G A 5 N7 - C8 - N9 ANGL. DEV. = 4.7 DEGREES
REMARK 500 1 G A 5 C8 - N9 - C4 ANGL. DEV. = -2.8 DEGREES
REMARK 500 1 A A 6 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES
REMARK 500 1 A A 7 N7 - C8 - N9 ANGL. DEV. = 3.9 DEGREES
REMARK 500 1 A A 8 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES
REMARK 500 1 G A 13 N7 - C8 - N9 ANGL. DEV. = 4.8 DEGREES
REMARK 500 1 G A 13 C8 - N9 - C4 ANGL. DEV. = -2.7 DEGREES
REMARK 500 1 A A 14 N7 - C8 - N9 ANGL. DEV. = 3.6 DEGREES
REMARK 500 1 A A 15 N7 - C8 - N9 ANGL. DEV. = 3.5 DEGREES
REMARK 500 1 G A 16 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES
REMARK 500 1 G A 16 C8 - N9 - C4 ANGL. DEV. = -2.5 DEGREES
REMARK 500 1 A A 18 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES
REMARK 500 1 G A 19 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES
REMARK 500 1 G A 19 C8 - N9 - C4 ANGL. DEV. = -2.7 DEGREES
REMARK 500 1 G A 20 N7 - C8 - N9 ANGL. DEV. = 4.4 DEGREES
REMARK 500 1 G A 20 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES
REMARK 500 2 G A 1 N7 - C8 - N9 ANGL. DEV. = 4.6 DEGREES
REMARK 500 2 G A 1 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES
REMARK 500 2 G A 2 N7 - C8 - N9 ANGL. DEV. = 4.3 DEGREES
REMARK 500 2 G A 2 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES
REMARK 500 2 G A 5 N7 - C8 - N9 ANGL. DEV. = 4.6 DEGREES
REMARK 500 2 G A 5 C8 - N9 - C4 ANGL. DEV. = -2.9 DEGREES
REMARK 500 2 A A 6 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES
REMARK 500 2 A A 7 N7 - C8 - N9 ANGL. DEV. = 3.9 DEGREES
REMARK 500 2 A A 8 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES
REMARK 500 2 G A 13 N7 - C8 - N9 ANGL. DEV. = 4.8 DEGREES
REMARK 500 2 G A 13 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES
REMARK 500 2 A A 14 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES
REMARK 500 2 A A 15 N7 - C8 - N9 ANGL. DEV. = 3.6 DEGREES
REMARK 500 2 G A 16 N7 - C8 - N9 ANGL. DEV. = 4.6 DEGREES
REMARK 500 2 G A 16 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES
REMARK 500 2 A A 18 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES
REMARK 500 2 G A 19 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES
REMARK 500 2 G A 19 C8 - N9 - C4 ANGL. DEV. = -2.7 DEGREES
REMARK 500 2 G A 20 N7 - C8 - N9 ANGL. DEV. = 4.4 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. = -2.5 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. = -2.7 DEGREES
REMARK 500 3 G A 5 N7 - C8 - N9 ANGL. DEV. = 4.8 DEGREES
REMARK 500 3 G A 5 C8 - N9 - C4 ANGL. DEV. = -2.7 DEGREES
REMARK 500 3 A A 6 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES
REMARK 500 3 A A 7 N7 - C8 - N9 ANGL. DEV. = 3.9 DEGREES
REMARK 500 3 A A 8 N7 - C8 - N9 ANGL. DEV. = 3.8 DEGREES
REMARK 500 3 G A 13 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES
REMARK 500 3 G A 13 C8 - N9 - C4 ANGL. DEV. = -2.5 DEGREES
REMARK 500
REMARK 500 THIS ENTRY HAS 359 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 12 A A 7 0.05 SIDE CHAIN
REMARK 500 17 A A 8 0.06 SIDE CHAIN
REMARK 500
REMARK 500 REMARK: NULL
REMARK 900
REMARK 900 RELATED ENTRIES
REMARK 900 RELATED ID: 1IE2 RELATED DB: PDB
REMARK 900 SOLUTION STRUCTURE OF AN IN VITRO SELECTED RNA WHICH IS
REMARK 900 SEQUENCE SPECIFICALLY RECOGNIZED BY RBD12 OF HAMSTER
REMARK 900 NUCLEOLIN.SNRE (ANTI)
REMARK 900 RELATED ID: 1FJ7 RELATED DB: PDB
REMARK 900 HAMSTER NUCLEOLIN FREE RBD1 SOLUTION STRUCTURE.
REMARK 900 RELATED ID: 1FJC RELATED DB: PDB
REMARK 900 HAMSTER NUCLEOLIN FREE RBD2 SOLUTION STRUCTURE.
REMARK 900 RELATED ID: 1FJE RELATED DB: PDB
REMARK 900 SOLUTION STRUCTURE OF HAMSTER NUCLEOLIN IN COMPLEX WITH
REMARK 900 SNRE.
DBREF 1IE1 A 1 22 PDB 1IE1 1IE1 1 22
SEQRES 1 A 22 G G C C G A A A U C C C G
SEQRES 2 A 22 A A G U A G G 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 - b 1 2 Bytes