1B03 - Header Asymmetric Unit

HEADER VIRAL PROTEIN 17-NOV-98 1B03

TITLE SOLUTION STRUCTURE OF THE ANTIBODY-BOUND HIV-1IIIB V3 TITLE 2 PEPTIDE

COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN (P1053 PEPTIDE); COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: P1053 PEPTIDE REPRESENTS THE FULL ANTIBODY COMPND 6 RECOGNIZED EPITOPE OF THE HIV-1IIIB GP120 V3 LOOP.

SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: THE PEPTIDE WAS CHEMICALLY SYNTHESIZED.

KEYWDS P1053 STRUCTURE, VIRAL PROTEIN

EXPDTA SOLUTION NMR

NUMMDL 35

AUTHOR V.TUGARINOV,A.ZVI,R.LEVY,J.ANGLISTER

REVDAT 4 24-FEB-09 1B03 1 VERSN REVDAT 3 01-APR-03 1B03 1 JRNL REVDAT 2 15-DEC-99 1B03 4 HEADER COMPND REMARK JRNL REVDAT 2 2 4 ATOM SOURCE SEQRES REVDAT 1 25-NOV-98 1B03 0

JRNL AUTH V.TUGARINOV,A.ZVI,R.LEVY,J.ANGLISTER JRNL TITL A CIS PROLINE TURN LINKING TWO BETA-HAIRPIN JRNL TITL 2 STRANDS IN THE SOLUTION STRUCTURE OF AN JRNL TITL 3 ANTIBODY-BOUND HIV-1IIIB V3 PEPTIDE. JRNL REF NAT.STRUCT.BIOL. V. 6 331 1999 JRNL REFN ISSN 1072-8368 JRNL PMID 10201400 JRNL DOI 10.1038/7567

REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH A.ZVI,D.J.FEIGELSON,Y.HAYEK,J.ANGLISTER REMARK 1 TITL CONFORMATION OF THE PRINCIPAL NEUTRALIZING REMARK 1 TITL 2 DETERMINANT OF HUMAN IMMUNODEFICIENCY VIRUS TYPE 1 REMARK 1 TITL 3 IN COMPLEX WITH AN ANTI-GP120 VIRUS NEUTRALIZING REMARK 1 TITL 4 ANTIBODY STUDIED BY TWO-DIMENSIONAL NUCLEAR REMARK 1 TITL 5 MAGNETIC RESONANCE DIFFERENCE SPECTROSCOPY. REMARK 1 REF BIOCHEMISTRY V. 36 8619 1997 REMARK 1 REFN ISSN 0006-2960

REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.

REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.1 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: AFTER INITIAL SIMULATED ANNEALING REMARK 3 CALCULATIONS THE STRUCTURES WERE MINIMIZED USING A FULL L-J REMARK 3 POTENTIAL REPRESENTATION. THE CIS PEPTIDE BOND BETWEEN GLY 12 REMARK 3 AND PRO 13 WAS PATHED CIS IN THE PROCESS OF STRUCTURE REMARK 3 GENERATION.

REMARK 4 REMARK 4 1B03 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08

REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-NOV-98. REMARK 100 THE RCSB ID CODE IS RCSB000097.

REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 305 REMARK 210 PH : 7.1 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : NULL REMARK 210 SAMPLE CONTENTS : NULL REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 15N, 13C FILTERED NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : DMX600 REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE REMARK 210 METHOD USED : HYBRID DG-SA REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : NULL REMARK 210 CONFORMERS, NUMBER SUBMITTED : 35 REMARK 210 CONFORMERS, SELECTION CRITERIA : LEAST RESTRAINT VIOLATIONS REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL REMARK 210 REMARK 210 REMARK: THE STRUCTURE WAS DETERMINED IN COMPLEX WITH THE FV REMARK 210 ANTIBODY FRAGMENT USING ISOTOPE-FILTERED AND ISOTOPE-EDITED REMARK 210 NMR WITH EITHER THE FV OR THE PEPTIDE LABELLED WITH 15N AND REMARK 210 13C.

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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 2 ALA A 16 -166.47 -169.52 REMARK 500 4 ARG A 15 88.22 -62.28 REMARK 500 5 ALA A 16 -168.12 -170.28 REMARK 500 6 ALA A 16 -165.16 -160.48 REMARK 500 8 ALA A 16 -169.32 -160.96 REMARK 500 10 ALA A 16 -166.63 -168.85 REMARK 500 14 ALA A 16 -168.13 -170.42 REMARK 500 19 ALA A 16 -168.86 -163.29 REMARK 500 21 ALA A 16 -174.74 -170.22 REMARK 500 23 ALA A 16 -164.61 -168.31 REMARK 500 35 ARG A 15 98.84 -61.58 REMARK 500 REMARK 500 REMARK: NULL

DBREF 1B03 A 4 21 UNP Q79428 Q79428_9HIV1 108 125

SEQRES 1 A 18 ARG LYS SER ILE ARG ILE GLN ARG GLY PRO GLY ARG ALA SEQRES 2 A 18 PHE VAL THR ILE GLY

SHEET 1 A 2 LYS A 5 ILE A 9 0 SHEET 2 A 2 ALA A 16 ILE A 20 -1 N ILE A 20 O LYS A 5

CISPEP 1 GLY A 12 PRO A 13 1 0.07 CISPEP 2 GLY A 12 PRO A 13 2 0.14 CISPEP 3 GLY A 12 PRO A 13 3 0.04 CISPEP 4 GLY A 12 PRO A 13 4 0.01 CISPEP 5 GLY A 12 PRO A 13 5 0.18 CISPEP 6 GLY A 12 PRO A 13 6 0.13 CISPEP 7 GLY A 12 PRO A 13 7 0.12 CISPEP 8 GLY A 12 PRO A 13 8 0.13 CISPEP 9 GLY A 12 PRO A 13 9 -0.15 CISPEP 10 GLY A 12 PRO A 13 10 -0.07 CISPEP 11 GLY A 12 PRO A 13 11 0.06 CISPEP 12 GLY A 12 PRO A 13 12 -0.05 CISPEP 13 GLY A 12 PRO A 13 13 -0.03 CISPEP 14 GLY A 12 PRO A 13 14 0.11 CISPEP 15 GLY A 12 PRO A 13 15 0.00 CISPEP 16 GLY A 12 PRO A 13 16 -0.11 CISPEP 17 GLY A 12 PRO A 13 17 -0.02 CISPEP 18 GLY A 12 PRO A 13 18 0.24 CISPEP 19 GLY A 12 PRO A 13 19 0.16 CISPEP 20 GLY A 12 PRO A 13 20 -0.02 CISPEP 21 GLY A 12 PRO A 13 21 0.13 CISPEP 22 GLY A 12 PRO A 13 22 0.17 CISPEP 23 GLY A 12 PRO A 13 23 0.00 CISPEP 24 GLY A 12 PRO A 13 24 0.02 CISPEP 25 GLY A 12 PRO A 13 25 0.03 CISPEP 26 GLY A 12 PRO A 13 26 0.08 CISPEP 27 GLY A 12 PRO A 13 27 0.35 CISPEP 28 GLY A 12 PRO A 13 28 0.24 CISPEP 29 GLY A 12 PRO A 13 29 -0.17 CISPEP 30 GLY A 12 PRO A 13 30 0.04 CISPEP 31 GLY A 12 PRO A 13 31 -0.07 CISPEP 32 GLY A 12 PRO A 13 32 -0.12 CISPEP 33 GLY A 12 PRO A 13 33 0.05 CISPEP 34 GLY A 12 PRO A 13 34 -0.02 CISPEP 35 GLY A 12 PRO A 13 35 0.31

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