1Q3Y - Header Asymmetric Unit

HEADER VIRAL PROTEIN 01-AUG-03 1Q3Y

TITLE NMR STRUCTURE OF THE CYS28HIS MUTANT (D FORM) OF THE TITLE 2 NUCLEOCAPSID PROTEIN NCP7 OF HIV-1.

COMPND MOL_ID: 1; COMPND 2 MOLECULE: GAG PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 390-431; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES; COMPND 7 OTHER_DETAILS: CYS28HIS MUTANT OF HIV-1 NCP7 NUCLEOCAPSID

SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: TWO PEPTIDES HAVE BEEN CHEMICALLY SOURCE 4 SYNTHESIZED WITH AND WITHOUT A 15N/13C LABELLED HISTIDINE SOURCE 5 RESIDUE AT POSITION 28

KEYWDS CCHC ZINC KNUCKLE, CCHH ZINC KNUCKLE, VIRAL PROTEIN

EXPDTA SOLUTION NMR

AUTHOR S.RAMBOARINA,S.DRUILLENNEC,N.MORELLET,S.BOUAZIZ,B.P.ROQUES

REVDAT 2 24-FEB-09 1Q3Y 1 VERSN REVDAT 1 07-SEP-04 1Q3Y 0

JRNL AUTH S.RAMBOARINA,S.DRUILLENNEC,N.MORELLET,S.BOUAZIZ, JRNL AUTH 2 B.P.ROQUES JRNL TITL TARGET SPECIFICITY OF HUMAN IMMUNODEFICIENCY VIRUS JRNL TITL 2 TYPE 1 NCP7 REQUIRES AN INTACT CONFORMATION OF ITS JRNL TITL 3 CCHC N-TERMINAL ZINC FINGER. JRNL REF J.VIROL. V. 78 6682 2004 JRNL REFN ISSN 0022-538X JRNL PMID 15163759 JRNL DOI 10.1128/JVI.78.12.6682-6687.2004

REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH S.RAMBOARINA,N.MORELLET,M.C.FOURNIE-ZALUSKI, REMARK 1 AUTH 2 B.P.ROQUES REMARK 1 TITL STRUCTURAL INVESTIGATION ON THE REQUIREMENT OF REMARK 1 TITL 2 CCHH ZINC FINGER TYPE IN NUCLEOCAPSID PROTEIN OF REMARK 1 TITL 3 HUMAN IMMUNODEFICIENCY VIRUS 1. REMARK 1 REF BIOCHEMISTRY V. 38 9600 1999 REMARK 1 REFN ISSN 0006-2960 REMARK 1 DOI 10.1021/BI9905258

REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.

REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR VERSION 3.851 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURE HAS BEEN CALCULATED REMARK 3 USING 335 NOE DERIVED DISTANCE RESTRAINTS.

REMARK 4 REMARK 4 1Q3Y COMPLIES WITH FORMAT V. 3.15, 01-DEC-08

REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-SEP-03. REMARK 100 THE RCSB ID CODE IS RCSB019885.

REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 278; 293 REMARK 210 PH : 6.6; 6.6 REMARK 210 IONIC STRENGTH : 6 MM ZNSO4; 6 MM ZNSO4 REMARK 210 PRESSURE : AMBIENT; AMBIENT REMARK 210 SAMPLE CONTENTS : 2 MM HIS28(12-53)NCP7 90% REMARK 210 H2O, 10% D2O WITH 3 REMARK 210 EQUIVALENTS OF ZINC; 2 MM REMARK 210 HIS28(12-53)NCP7 100% D2O WITH REMARK 210 3 EQUIVALENTS OF ZINC REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D TOCSY, 2D NOESY, 1H-15N REMARK 210 HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : AMX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XWINNMR VERSION 3.0, FELIX REMARK 210 VERSION 98.0 REMARK 210 METHOD USED : DISTANCE GEOMETRY, SIMULATED REMARK 210 ANNEALING AND MOLECULAR REMARK 210 DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 1 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH ACCEPTABLE REMARK 210 COVALENT GEOMETRY,STRUCTURES REMARK 210 WITH FAVORABLE NON-BOND REMARK 210 ENERGY,STRUCTURES WITH THE REMARK 210 LEAST RESTRAINT VIOLATIONS, REMARK 210 STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: THE STRUCTURE WAS DETERMINED USING STANDARD 2D REMARK 210 HOMONUCLEAR EXPERIMENTS AND 1H-15N HSQC EXPERIMENTS.

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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 RES C SSSEQI REMARK 465 ASN A 12

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 LYS A 14 36.35 -155.93 REMARK 500 ASN A 17 45.51 -88.10 REMARK 500 CYS A 18 -55.38 -178.86 REMARK 500 LYS A 20 -150.31 -158.86 REMARK 500 ARG A 26 22.88 -143.64 REMARK 500 ASN A 27 43.55 -156.24 REMARK 500 ALA A 30 73.50 -151.99 REMARK 500 LYS A 34 -73.97 66.64 REMARK 500 LYS A 38 -46.55 -155.21 REMARK 500 GLU A 42 -155.76 -80.53 REMARK 500 HIS A 44 -154.19 -104.64 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 ARG A 26 0.27 SIDE_CHAIN REMARK 500 ARG A 29 0.26 SIDE_CHAIN REMARK 500 ARG A 32 0.29 SIDE_CHAIN REMARK 500 ARG A 52 0.31 SIDE_CHAIN REMARK 500 REMARK 500 REMARK: NULL

REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 1 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 28 ND1 REMARK 620 2 CYS A 18 SG 120.3 REMARK 620 3 HIS A 23 ND1 111.8 127.0 REMARK 620 4 CYS A 15 SG 109.9 93.9 76.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 2 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 44 NE2 REMARK 620 2 CYS A 49 SG 114.9 REMARK 620 3 CYS A 36 SG 106.2 80.8 REMARK 620 4 CYS A 39 SG 112.1 122.2 116.0 REMARK 620 N 1 2 3

REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 2

REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1ESK RELATED DB: PDB REMARK 900 WILD TYPE SEQUENCE OF THE SAME PROTEIN REMARK 900 RELATED ID: 1Q3Z RELATED DB: PDB REMARK 900 NMR STRUCTURE OF THE CYS28HIS MUTANT (E FORM) OF THE REMARK 900 NUCLEOCAPSID PROTEIN NCP7 OF HIV-1.

REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE SEQUENCE HERE CORRESPONDS TO A STRAIN DIFFERENT REMARK 999 THAN THAT FOUND IN THE SEQUENCE DATABASE (GENBANK REMARK 999 ACCESSION CAB98186).

DBREF 1Q3Y A 12 53 UNP Q9PY17 Q9PY17_9HIV1 390 431

SEQADV 1Q3Y VAL A 13 UNP Q9PY17 ILE 391 SEE REMARK 999 SEQADV 1Q3Y HIS A 28 UNP Q9PY17 CYS 406 ENGINEERED

SEQRES 1 A 42 ASN VAL LYS CYS PHE ASN CYS GLY LYS GLU GLY HIS THR SEQRES 2 A 42 ALA ARG ASN HIS ARG ALA PRO ARG LYS LYS GLY CYS TRP SEQRES 3 A 42 LYS CYS GLY LYS GLU GLY HIS GLN MET LYS ASP CYS THR SEQRES 4 A 42 GLU ARG GLN

HET ZN A 1 1 HET ZN A 2 1

HETNAM ZN ZINC ION

FORMUL 2 ZN 2(ZN 2+)

LINK ZN ZN A 1 ND1 HIS A 28 1555 1555 2.27 LINK ZN ZN A 1 SG CYS A 18 1555 1555 2.56 LINK ZN ZN A 1 ND1 HIS A 23 1555 1555 2.21 LINK ZN ZN A 2 NE2 HIS A 44 1555 1555 2.38 LINK ZN ZN A 2 SG CYS A 49 1555 1555 2.61 LINK ZN ZN A 2 SG CYS A 36 1555 1555 2.74 LINK ZN ZN A 2 SG CYS A 39 1555 1555 2.63 LINK SG CYS A 15 ZN ZN A 1 1555 1555 2.82

SITE 1 AC1 5 CYS A 15 CYS A 18 HIS A 23 HIS A 28 SITE 2 AC1 5 ARG A 29 SITE 1 AC2 4 CYS A 36 CYS A 39 HIS A 44 CYS A 49

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