1AUH - Header Asymmetric Unit

HEADER COMPLEX (RNA/PEPTIDE) 27-AUG-97 1AUH

TITLE THEORETICAL MODEL OF THE REV BINDING ELEMENT (RBE, 30 TITLE 2 RIBONUCLEOTIDE FRAGMENT) OF HUMAN IMMUNODEFICIENCY VIRUS-1 TITLE 3 COMPLEXED WITH THE REV PEPTIDE

COMPND MOL_ID: 1; COMPND 2 MOLECULE: REV BINDING ELEMENT; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: 30 RIBONUCLEOTIDE FRAGMENT OF THE REV RESPONSIVE COMPND 5 ELEMENT; COMPND 6 SYNONYM: REV RESPONSE ELEMENT; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: REV PEPTIDE; COMPND 10 CHAIN: B; COMPND 11 FRAGMENT: RESIDUES 1-17

SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 ORGANISM_SCIENTIFIC: HUMAN IMMUNODEFICIENCY VIRUS TYPE 1; SOURCE 5 ORGANISM_COMMON: HIV-1; SOURCE 6 STRAIN: 1

KEYWDS RNA/TRANSCRIPTION REGULATION PROTEIN, COMPLEX (RNA/PEPTIDE)

EXPDTA THEORETICAL MODEL

AUTHOR J.SRINIVASAN,F.LECLERC,W.XU,A.D.ELLINGTON,R.J.CEDERGREN

REVDAT 1 28-JAN-98 1AUH 0

JRNL AUTH J.SRINIVASAN,F.LECLERC,W.XU,A.D.ELLINGTON, JRNL AUTH 2 R.CEDERGREN JRNL TITL A DOCKING AND MODELLING STRATEGY FOR PEPTIDE-RNA JRNL TITL 2 COMPLEXES: APPLICATIONS TO BIV TAT-TAR AND HIV JRNL TITL 3 REV-RBE JRNL REF FOLDING DES. V. 1 463 1996 JRNL REFN ASTM FODEFH ISSN 1359-0278

REMARK 1

REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.

REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NULL REMARK 3 AUTHORS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REFINEMENT DETAILS CAN BE FOUND IN REMARK 3 THE FOLDING & DESIGN CITATION ABOVE.

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

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: MODELLING PROGRAM: DISCOVER 95.0 PROGRAM AUTHORS: MSI/ REMARK 220 BIOSYM TECHNOLOGIES MODELLING EXPERIMENT: THE STRUCTURES REMARK 220 OF THE INDIVIDUAL MOLECULES, THE RBE (PDB ID 163D) AND REMARK 220 THE REV PEPTIDE WERE ENERGETICALLY MINIMIZED REMARK 220 INDEPENDENTLY AND THEN TREATED AS RIGID BODIES DURING REMARK 220 THE DOCKING PROCEDURE. THE MOLECULES ARE BROUGHT INTO REMARK 220 CONTACT ALONG A SMALL SET OF TRAJECTORIES DICTATED BY REMARK 220 EXPERIMENTAL DATA. THE TRAJECTORY THAT GIVES THE BEST REMARK 220 INITIAL MINIMIZATION OF ELECTROSTATIC AND VAN DER WALLS' REMARK 220 INTERACTIONS IS RETAINED. THE JUXTAPOSITION OF THE REMARK 220 PARTNERS AND THE POSITIONS OF SIDE CHAINS ALONG THE MOST REMARK 220 FAVOURABLE TRAJECTORY ARE EXTENSIVELY ANALYSED.

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: 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),F6.3) REMARK 500 REMARK 500 EXPECTED VALUES: ENGH AND HUBER, 1991 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU B 14 CD GLU B 14 OE2 0.112

REMARK 650 REMARK 650 HELIX REMARK 650 DETERMINATION METHOD: TAKEN FROM RELEASED PDB ENTRY 163D

REMARK 850 REMARK 850 CORRECTION BEFORE RELEASE REMARK 850 ORIGINAL DEPOSITION REVISED PRIOR TO RELEASE REMARK 850 DATE REVISED: 04-SEP-1997 TRACKING NUMBER: T12758

REMARK 999 REMARK 999 SEQUENCE REMARK 999 1AUH B SWS P05866 1 - 7 NOT IN ATOMS LIST REMARK 999 1AUH B SWS P05866 26 - 90 NOT IN ATOMS LIST

DBREF 1AUH A 1 30 PDB 1AUH 1AUH 1 30 DBREF 1AUH B 1 18 UNP P05866 REV_HV1W2 8 25

SEQADV 1AUH NH2 B 18 UNP P05866 GLN 25 CONFLICT

SEQRES 1 A 30 G G U G G G C G C A G C U SEQRES 2 A 30 U C G G C U G A C G G U A SEQRES 3 A 30 C A C C SEQRES 1 B 18 THR ARG GLN ALA ARG ARG ASN ARG ARG ARG ARG TRP ARG SEQRES 2 B 18 GLU ARG GLN ARG NH2

HET NH2 B 18 3

HETNAM NH2 AMINO GROUP

FORMUL 2 NH2 H3 N

HELIX 1 1 ARG B 2 ARG B 15 1 14

LINK N NH2 B 18 C ARG B 17

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