1L4Q - Header Asymmetric Unit

HEADER RIBONUCLEIC ACID 05-MAR-02 1L4Q

TITLE DIMER OF DNA-PACKAGING RNA (PRNA) OF BACTERIOPHAGE PHI29

COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA-PACKAGING RNA; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: PRNA

SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACTERIOPHAGE PHI-29; SOURCE 3 ORGANISM_COMMON: VIRUS

KEYWDS PRNA, RNA, STRUCTURE, 3D, TERTIARY, MOTOR, PHI29, KEYWDS 2 BACTERIOPHAGES, DNA PACKAGE, VIRUS ASSEMBLY, RNA DOMAINS, KEYWDS 3 LOOP/LOOP INTERACTION, CHEMICAL MODIFICATION, CROSSLINK, KEYWDS 4 PHOTOAFFINITY, ROTATION, ATP, RNA/RNA INTERACTION, DIMER, KEYWDS 5 HAND-IN-HAND INTERACTION

EXPDTA THEORETICAL MODEL

AUTHOR S.HOEPRICH,P.GUO

REVDAT 2 05-APR-05 1L4Q 1 JRNL REVDAT 1 11-DEC-02 1L4Q 0

JRNL AUTH S.HOEPRICH,P.GUO JRNL TITL COMPUTER MODELING OF THREE-DIMENSIONAL STRUCTURE JRNL TITL 2 OF DNA-PACKAGING RNA (PRNA) MONOMER, DIMER, AND JRNL TITL 3 HEXAMER OF PHI29 DNA PACKAGING MOTOR JRNL REF J.BIOL.CHEM. V. 277 20794 2002 JRNL REFN ASTM JBCHA3 US ISSN 0021-9258

REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH M.TROTTIER,Y.MAT-ARIP,C.ZHANG,C.CHEN,S.SHENG, REMARK 1 AUTH 2 Z.SHAO,P.GUO REMARK 1 TITL PROBING THE STRUCTURE OF MONOMERS AND DIMERS OF REMARK 1 TITL 2 THE BACTERIAL VIRUS PHI29 HEXAMER RNA COMPLEX BY REMARK 1 TITL 3 CHEMICAL MODIFICATION REMARK 1 REF RNA V. 6 1257 2000 REMARK 1 REFN ASTM RNARFU UK ISSN 1355-8382 REMARK 1 REFERENCE 2 REMARK 1 AUTH K.GARVER,P.GUO REMARK 1 TITL MAPPING THE INTER-RNA INTERACTION OF BACTERIAL REMARK 1 TITL 2 VIRUS PHI29 PACKAGING RNA BY SITE-SPECIFIC REMARK 1 TITL 3 PHOTOAFFINITY CROSS-LINKING REMARK 1 REF J.BIOL.CHEM. V. 275 2817 2000 REMARK 1 REFN ASTM JBCHA3 US ISSN 0021-9258 REMARK 1 REFERENCE 3 REMARK 1 AUTH C.CHEN,S.SHENG,Z.SHAO,P.GUO REMARK 1 TITL A DIMER AS A BUILDING BLOCK IN ASSEMBLING RNA. A REMARK 1 TITL 2 HEXAMER THAT GEARS BACTERIAL VIRUS PHI29 REMARK 1 TITL 3 DNA-TRANSLOCATING MACHINERY REMARK 1 REF J.BIOL.CHEM. V. 275 17510 2000 REMARK 1 REFN ASTM JBCHA3 US ISSN 0021-9258 REMARK 1 REFERENCE 4 REMARK 1 AUTH Y.MAT-ARIP,K.GARVER,C.CHEN,S.SHENG,Z.SHAO,P.GUO REMARK 1 TITL THREE-DIMENSIONAL INTERACTION OF PHI29 PRNA DIMER REMARK 1 TITL 2 PROBED BY CHEMICAL MODIFICATION INTERFERENCE, REMARK 1 TITL 3 CRYO-AFM, AND CROSS-LINKING REMARK 1 REF J.BIOL.CHEM. V. 276 32575 2001 REMARK 1 REFN ASTM JBCHA3 US ISSN 0021-9258

REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.

REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : MANIP 6.2 REMARK 3 AUTHORS : C. MASSIRE, E. WESTHOF REMARK 3 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL

REMARK 4 REMARK 4 1L4Q COMPLIES WITH FORMAT V. 2.3, 09-JULY-1998

REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-MAR-2002. REMARK 100 THE RCSB ID CODE IS RCSB015642.

REMARK 105 REMARK 105 THE PROTEIN DATA BANK HAS ADOPTED THE SACCHARIDE CHEMISTS REMARK 105 NOMENCLATURE FOR ATOMS OF THE DEOXYRIBOSE/RIBOSE MOIETY REMARK 105 RATHER THAN THAT OF THE NUCLEOSIDE CHEMISTS. THE RING REMARK 105 OXYGEN ATOM IS LABELLED O4* INSTEAD OF O1*.

REMARK 220 REMARK 220 EXPERIMENTAL DETAILS REMARK 220 EXPERIMENT TYPE : THEORETICAL MODELLING REMARK 220 REMARK 220 REMARK: THIS THEORETICAL MODEL WAS MADE USING THE MANIP 6.2 REMARK 220 SOFTWARE PACKAGE. THIS PACKAGE CONSISTS OF THE PROGRAMS REMARK 220 NAHELIX, MANIP, PRENUC, NUCLIN, AND NUCMULT. CONSTRUCTED REMARK 220 BASED ON EXPERIMENTAL DATA DERIVED FROM PHOTO-AFFINITY REMARK 220 CROSS-LINKING BY PSORALEN, PHENPHI, AND AZIDOPHENACYL; REMARK 220 CHEMICAL MODIFICATION AND CHEMICAL MODIFICATION REMARK 220 INTERFERENCE WITH DMS, CMCT AND KETHOXAL; CRYO-AFM; REMARK 220 COMPLEMENTARY MODIFICATION; AND NUCLEASE PROBING BY REMARK 220 SINGLE-STRANDED AND DOUBLE-STRANDED SPECIFIC RNASES.

REMARK 225 REMARK 225 THEORETICAL MODEL REMARK 225 THE COORDINATES IN THIS ENTRY REPRESENT A MODEL STRUCTURE. REMARK 225 PROTEIN DATA BANK CONVENTIONS REQUIRE THAT CRYST1 AND REMARK 225 SCALE RECORDS BE INCLUDED, BUT THE VALUES ON THESE REMARK 225 RECORDS ARE MEANINGLESS.

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 REMARK 500 O4 U A 80 O6 G B 237 1.67 REMARK 500 O2P U A 77 O3* U B 233 1.77 REMARK 500 O2* C A 67 O4 U B 274 2.10 REMARK 500 C5 U A 81 O1P G B 237 2.18

REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1L4O RELATED DB: PDB REMARK 900 1L4O IS THE PHI29 PRNA HEXAMER REMARK 900 RELATED ID: 1L4P RELATED DB: PDB REMARK 900 1L4P IS THE PHI29 PRNA HEXAMER DOCKED WITH THE CONNECTOR REMARK 900 RELATED ID: 1L4R RELATED DB: PDB REMARK 900 1L4R IS THE PHI29 PRNA MONOMER

SEQRES 1 A 117 U C A A U G G U A C G G U SEQRES 2 A 117 A C U U C C A U U G U C A SEQRES 3 A 117 U G U G U A U G U U G G G SEQRES 4 A 117 G A U U A A A C C C U G A SEQRES 5 A 117 U U G A G U U C A G C C C SEQRES 6 A 117 A C A U A C U U U G U U G SEQRES 7 A 117 A U U G G U U G U C A A U SEQRES 8 A 117 C A U G G C A A A A G U G SEQRES 9 A 117 C A C G C U A C U U U G A SEQRES 1 B 117 U C A A U G G U A C G G U SEQRES 2 B 117 A C U U C C A U U G U C A SEQRES 3 B 117 U G U G U A U G U U G G G SEQRES 4 B 117 G A U U A A A C C C U G A SEQRES 5 B 117 U U G A G U U C A G C C C SEQRES 6 B 117 A C A U A C U U U G U U G SEQRES 7 B 117 A U U G G U U G U C A A U SEQRES 8 B 117 C A U G G C A A A A G U G SEQRES 9 B 117 C A C G C U A C U U U G A

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