PDB Short entry for 1QWB HEADER RNA 01-SEP-03 1QWB TITLE NMR STRUCTURE OF 5'-R(GGACACGAAAUCCCGAAGUAGUGUCC)-3' : AN RNA HAIRPIN TITLE 2 CONTAINING THE IN VITRO SELECTED CONSENSUS SEQUENCE FOR NUCLEOLIN TITLE 3 RBD12 COMPND MOL_ID: 1; COMPND 2 MOLECULE: SNRE26; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: RNA CONTAINS THE CONSENSUS SEQUENCE FOR THE IN VITRO COMPND 6 SELECTED NRE. 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 A-FORM HELIX, LOOP E MOTIF, S-TURN, DISORDERED HAIRPIN LOOP, RNA EXPDTA SOLUTION NMR NUMMDL 17 AUTHOR L.D.FINGER,L.TRANTIREK,C.JOHANSSON,J.FEIGON REVDAT 4 01-MAY-24 1QWB 1 REMARK REVDAT 3 09-SEP-20 1QWB 1 TITLE REMARK REVDAT 2 24-FEB-09 1QWB 1 VERSN REVDAT 1 25-NOV-03 1QWB 0 JRNL AUTH L.D.FINGER,L.TRANTIREK,C.JOHANSSON,J.FEIGON JRNL TITL SOLUTION STRUCTURES OF STEM-LOOP RNAS THAT BIND THE TWO JRNL TITL 2 N-TERMINAL RNA-BINDING DOMAINS OF NUCLEOLIN JRNL REF NUCLEIC ACIDS RES. V. 31 6461 2003 JRNL REFN ISSN 0305-1048 JRNL PMID 14602904 JRNL DOI 10.1093/NAR/GKG866 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XWINNMR 2.6, X-PLOR NIH REMARK 3 AUTHORS : BRUKER (XWINNMR), BRUNGER (X-PLOR) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1QWB COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-SEP-03. REMARK 100 THE DEPOSITION ID IS D_1000020147. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 278; 298 REMARK 210 PH : 7; 7 REMARK 210 IONIC STRENGTH : 100MM KCL; 100MM KCL REMARK 210 PRESSURE : AMBIENT; AMBIENT REMARK 210 SAMPLE CONTENTS : 1-1.5MM SNRE26 NA, IN 10MM REMARK 210 POTASSIUM PHOSPHATE BUFFER, REMARK 210 100MM POTASSIUM CHLORIDE, 50UM REMARK 210 EDTA, 0.02% NAN3, 95% H2O, 5% REMARK 210 D2O; 1-1.5MM SNRE26 NA, IN 10MM REMARK 210 POTASSIUM PHOSPHATE BUFFER, REMARK 210 100MM POTASSIUM CHLORIDE, 50UM REMARK 210 EDTA, 0.02% NAN3, 99.999% D2O; REMARK 210 1MM SNRE26 U 15N/13C, IN 10MM REMARK 210 POTASSIUM PHOSPHATE BUFFER, REMARK 210 100MM POTASSIUM CHLORIDE, 50UM REMARK 210 EDTA, 0.02% NAN3, 95% H2O, 5% REMARK 210 D2O; 1MM SNRE26 U 15N/13C, IN REMARK 210 10MM POTASSIUM PHOSPHATE BUFFER, REMARK 210 100MM POTASSIUM CHLORIDE, 50UM REMARK 210 EDTA, 0.02% NAN3, 99.999% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY; 2D TOCSY; DQF-COSY; 1H REMARK 210 -13C HSQC OR HMQC; 1H-15N HMQC REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : DMX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : AURELIA 3.108, X-PLOR NIH REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 17 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 17 REMARK 210 CONFORMERS, SELECTION CRITERIA : ALL CALCULATED STRUCTURES REMARK 210 SUBMITTED,STRUCTURES WITH REMARK 210 ACCEPTABLE COVALENT GEOMETRY, REMARK 210 STRUCTURES WITH FAVORABLE NON- REMARK 210 BOND ENERGY,STRUCTURES WITH THE REMARK 210 LEAST RESTRAINT VIOLATIONS, REMARK 210 STRUCTURES WITH THE LOWEST ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: ASSIGNMENT METHODOLOGY FOR THIS MOLECULE IS DESCRIBED IN REMARK 210 J. BIOMOL. NMR 9, 259-272 (1997) AND PROG. IN NUC. MAGN. REMARK 210 RESONAN. SPEC. 32, 287-387 (1998). 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 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. = -2.7 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. = -2.7 DEGREES REMARK 500 1 A A 3 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 1 A A 5 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 1 G A 7 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 1 G A 7 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES REMARK 500 1 A A 8 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 1 A A 9 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 1 A A 10 N7 - C8 - N9 ANGL. DEV. = 3.8 DEGREES REMARK 500 1 G A 15 N7 - C8 - N9 ANGL. DEV. = 4.6 DEGREES REMARK 500 1 G A 15 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES REMARK 500 1 A A 16 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 1 A A 17 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 1 G A 18 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 1 G A 18 C8 - N9 - C4 ANGL. DEV. = -2.8 DEGREES REMARK 500 1 A A 20 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 1 G A 21 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 1 G A 21 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES REMARK 500 1 G A 23 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 1 G A 23 C8 - N9 - C4 ANGL. DEV. = -2.7 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. = -2.7 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. = -2.6 DEGREES REMARK 500 2 A A 3 N7 - C8 - N9 ANGL. DEV. = 3.6 DEGREES REMARK 500 2 A A 5 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 2 G A 7 N7 - C8 - N9 ANGL. DEV. = 4.4 DEGREES REMARK 500 2 G A 7 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES REMARK 500 2 A A 8 N7 - C8 - N9 ANGL. DEV. = 3.8 DEGREES REMARK 500 2 A A 9 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 2 A A 10 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 2 G A 15 N7 - C8 - N9 ANGL. DEV. = 4.6 DEGREES REMARK 500 2 G A 15 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES REMARK 500 2 A A 16 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 2 A A 16 C8 - N9 - C4 ANGL. DEV. = -2.4 DEGREES REMARK 500 2 A A 17 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 2 G A 18 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 2 G A 18 C8 - N9 - C4 ANGL. DEV. = -2.7 DEGREES REMARK 500 2 A A 20 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 2 G A 21 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 2 G A 21 C8 - N9 - C4 ANGL. DEV. = -2.7 DEGREES REMARK 500 2 G A 23 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 2 G A 23 C8 - N9 - C4 ANGL. DEV. = -2.6 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. = -2.6 DEGREES REMARK 500 3 G A 2 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 3 G A 2 C8 - N9 - C4 ANGL. DEV. = -2.7 DEGREES REMARK 500 3 A A 3 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 385 ANGLE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1IE1 RELATED DB: PDB REMARK 900 NMR SOLUTION STRUCTURE OF AN IN VITRO SELECTED RNA WHICH IS REMARK 900 SEQUENCE SPECIFICALLY RECOGNIZED BY HAMSTER NUCLEOLIN RBD12. REMARK 900 RELATED ID: 1IE2 RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF AN IN VITRO SELECTED RNA WHICH IS SEQUENCE REMARK 900 SPECIFICALLY RECOGNIZED BY RBD12 OF HAMSTER NUCLEOLIN. SNRE (ANTI) REMARK 900 RELATED ID: 1QWA RELATED DB: PDB REMARK 900 NMR STRUCTURE OF 5'-R(GGAUGCCUCCCGAGUGCAUCC): AN RNA HAIRPIN REMARK 900 DERIVED FROM THE MOUSE 5'ETS THAT BINDS NUCLEOLIN RBD12. DBREF 1QWB A 1 26 PDB 1QWB 1QWB 1 26 SEQRES 1 A 26 G G A C A C G A A A U C C SEQRES 2 A 26 C G A A G U A G U G U 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