HEADER VIRAL PROTEIN 27-JUL-04 1U57 TITLE NMR STRUCTURE OF THE (345-392)GAG SEQUENCE FROM HIV-1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: GAG POLYPROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 1-48; COMPND 5 SYNONYM: HIV-1 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HUMAN IMMUNODEFICIENCY VIRUS 1; SOURCE 3 ORGANISM_TAXID: 11676; SOURCE 4 STRAIN: LW12.3 ISOLATE KEYWDS GAG POLYPROTEIN, PARTICLE ASSEMBLY, P2, HIV-1, VIRAL PROTEIN EXPDTA SOLUTION NMR NUMMDL 19 AUTHOR N.MORELLET,S.DRUILLENNEC,C.LENOIR,S.BOUAZIZ,B.P.ROQUES REVDAT 3 02-MAR-22 1U57 1 REMARK REVDAT 2 24-FEB-09 1U57 1 VERSN REVDAT 1 08-FEB-05 1U57 0 JRNL AUTH N.MORELLET,S.DRUILLENNEC,C.LENOIR,S.BOUAZIZ,B.P.ROQUES JRNL TITL HELICAL STRUCTURE DETERMINED BY NMR OF THE HIV-1 JRNL TITL 2 (345-392)GAG SEQUENCE, SURROUNDING P2: IMPLICATIONS FOR JRNL TITL 3 PARTICLE ASSEMBLY AND RNA PACKAGING JRNL REF PROTEIN SCI. V. 14 375 2005 JRNL REFN ISSN 0961-8368 JRNL PMID 15659370 JRNL DOI 10.1110/PS.041087605 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : UXNMR 3.0, DISCOVER 2.9.7 REMARK 3 AUTHORS : BRUKER (UXNMR), ACCELRYS (DISCOVER) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURES ARE BASED ON A TOTAL OF REMARK 3 478 NOE-DERIVED, DISTANCE CONSTRAINTS AND 92 DIHEDRAL ANGLE REMARK 3 RESTRAINTS REMARK 4 REMARK 4 1U57 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 29-JUL-04. REMARK 100 THE DEPOSITION ID IS D_1000023259. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 293 REMARK 210 PH : 3.5 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1MM (211-231)CA-P2-(1-13)NCP7 REMARK 210 PEPTIDE, 70% H2O, 30% TFE PH 3.5 REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY; 2D TOCSY; DQF-COSY; 3D REMARK 210 NOESY-NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : UXNMR 3.0 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 19 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH ACCEPTABLE REMARK 210 COVALENT GEOMETRY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 2 REMARK 210 REMARK 210 REMARK: THIS STRUCTURE WAS DETERMINED USING STANDARD 2D REMARK 210 HOMONUCLEAR TECHNIQUES. 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: 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),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 1 GLU A 2 CD GLU A 2 OE2 0.111 REMARK 500 1 GLU A 3 CD GLU A 3 OE2 0.112 REMARK 500 1 GLU A 23 CD GLU A 23 OE2 0.112 REMARK 500 2 GLU A 2 CD GLU A 2 OE2 0.111 REMARK 500 2 GLU A 3 CD GLU A 3 OE2 0.112 REMARK 500 2 GLU A 23 CD GLU A 23 OE2 0.111 REMARK 500 3 GLU A 2 CD GLU A 2 OE2 0.111 REMARK 500 3 GLU A 3 CD GLU A 3 OE2 0.112 REMARK 500 3 GLU A 23 CD GLU A 23 OE2 0.112 REMARK 500 4 GLU A 2 CD GLU A 2 OE2 0.111 REMARK 500 4 GLU A 3 CD GLU A 3 OE2 0.112 REMARK 500 4 GLU A 23 CD GLU A 23 OE2 0.111 REMARK 500 5 GLU A 2 CD GLU A 2 OE2 0.111 REMARK 500 5 GLU A 3 CD GLU A 3 OE2 0.111 REMARK 500 5 GLU A 23 CD GLU A 23 OE2 0.111 REMARK 500 6 GLU A 2 CD GLU A 2 OE2 0.113 REMARK 500 6 GLU A 3 CD GLU A 3 OE2 0.112 REMARK 500 6 GLU A 23 CD GLU A 23 OE2 0.112 REMARK 500 7 GLU A 2 CD GLU A 2 OE2 0.112 REMARK 500 7 GLU A 3 CD GLU A 3 OE2 0.112 REMARK 500 7 GLU A 23 CD GLU A 23 OE2 0.112 REMARK 500 8 GLU A 2 CD GLU A 2 OE2 0.112 REMARK 500 8 GLU A 3 CD GLU A 3 OE2 0.111 REMARK 500 8 GLU A 23 CD GLU A 23 OE2 0.111 REMARK 500 9 GLU A 2 CD GLU A 2 OE2 0.111 REMARK 500 9 GLU A 3 CD GLU A 3 OE2 0.111 REMARK 500 9 GLU A 23 CD GLU A 23 OE2 0.113 REMARK 500 10 GLU A 2 CD GLU A 2 OE2 0.114 REMARK 500 10 GLU A 3 CD GLU A 3 OE2 0.111 REMARK 500 10 GLU A 23 CD GLU A 23 OE2 0.112 REMARK 500 11 GLU A 2 CD GLU A 2 OE2 0.111 REMARK 500 11 GLU A 3 CD GLU A 3 OE2 0.111 REMARK 500 11 GLU A 23 CD GLU A 23 OE2 0.112 REMARK 500 12 GLU A 2 CD GLU A 2 OE2 0.111 REMARK 500 12 GLU A 3 CD GLU A 3 OE2 0.111 REMARK 500 12 GLU A 23 CD GLU A 23 OE2 0.112 REMARK 500 13 GLU A 2 CD GLU A 2 OE2 0.112 REMARK 500 13 GLU A 3 CD GLU A 3 OE2 0.112 REMARK 500 13 GLU A 23 CD GLU A 23 OE2 0.112 REMARK 500 14 GLU A 2 CD GLU A 2 OE2 0.111 REMARK 500 14 GLU A 3 CD GLU A 3 OE2 0.112 REMARK 500 14 GLU A 23 CD GLU A 23 OE2 0.112 REMARK 500 15 GLU A 2 CD GLU A 2 OE2 0.112 REMARK 500 15 GLU A 3 CD GLU A 3 OE2 0.112 REMARK 500 15 GLU A 23 CD GLU A 23 OE2 0.112 REMARK 500 16 GLU A 2 CD GLU A 2 OE2 0.111 REMARK 500 16 GLU A 3 CD GLU A 3 OE2 0.112 REMARK 500 16 GLU A 23 CD GLU A 23 OE2 0.112 REMARK 500 17 GLU A 2 CD GLU A 2 OE2 0.111 REMARK 500 17 GLU A 3 CD GLU A 3 OE2 0.111 REMARK 500 REMARK 500 THIS ENTRY HAS 57 BOND DEVIATIONS. 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 5 CYS A 8 CB - CA - C ANGL. DEV. = 7.4 DEGREES REMARK 500 12 LYS A 46 N - CA - CB ANGL. DEV. = -11.2 DEGREES REMARK 500 REMARK 500 REMARK: NULL 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 1 PRO A 14 -75.32 -64.31 REMARK 500 1 PHE A 41 -58.83 -170.36 REMARK 500 1 LYS A 46 -125.95 -116.13 REMARK 500 1 ILE A 47 77.16 -104.12 REMARK 500 2 ARG A 38 48.19 -76.04 REMARK 500 2 PHE A 41 -54.87 -176.73 REMARK 500 2 ARG A 45 71.03 57.44 REMARK 500 2 LYS A 46 -125.20 -93.45 REMARK 500 3 CYS A 8 70.25 -110.18 REMARK 500 3 ARG A 38 48.03 -81.52 REMARK 500 3 ASN A 40 45.67 24.22 REMARK 500 3 PHE A 41 -61.77 -172.36 REMARK 500 3 LYS A 46 -125.35 -109.98 REMARK 500 4 ARG A 38 48.63 -82.90 REMARK 500 4 PHE A 41 -52.20 -159.20 REMARK 500 4 GLN A 44 -171.35 -69.00 REMARK 500 4 ARG A 45 80.10 70.02 REMARK 500 4 ILE A 47 60.66 68.27 REMARK 500 5 GLU A 3 11.37 -68.49 REMARK 500 5 CYS A 8 -138.83 -85.10 REMARK 500 5 GLN A 9 111.45 -8.73 REMARK 500 5 PHE A 41 -51.76 -178.05 REMARK 500 5 ARG A 45 47.55 72.77 REMARK 500 5 LYS A 46 51.43 -104.51 REMARK 500 6 LYS A 17 -51.91 -151.14 REMARK 500 6 ARG A 42 -62.62 -153.64 REMARK 500 6 LYS A 46 51.99 -91.02 REMARK 500 6 ILE A 47 70.39 67.67 REMARK 500 7 VAL A 11 42.31 37.65 REMARK 500 7 ARG A 38 49.56 -78.62 REMARK 500 7 PHE A 41 -52.75 -175.42 REMARK 500 7 ARG A 45 48.79 77.69 REMARK 500 7 LYS A 46 48.64 -95.63 REMARK 500 8 PHE A 41 -52.89 -157.23 REMARK 500 8 ARG A 45 87.60 81.00 REMARK 500 8 LYS A 46 50.78 -90.06 REMARK 500 8 ILE A 47 77.55 64.20 REMARK 500 9 GLN A 9 -60.63 -108.74 REMARK 500 9 ARG A 38 47.07 -79.04 REMARK 500 9 PHE A 41 -55.23 -172.74 REMARK 500 9 ARG A 45 71.14 59.31 REMARK 500 9 ILE A 47 60.63 71.74 REMARK 500 10 MET A 4 -39.06 174.09 REMARK 500 10 ASN A 40 -15.26 68.62 REMARK 500 10 PHE A 41 -43.25 -143.15 REMARK 500 10 LYS A 46 -129.23 -105.66 REMARK 500 11 GLU A 2 -176.62 -64.97 REMARK 500 11 GLU A 3 -178.44 -52.70 REMARK 500 11 MET A 4 -16.25 70.42 REMARK 500 11 ARG A 38 44.10 -82.13 REMARK 500 REMARK 500 THIS ENTRY HAS 90 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL DBREF 1U57 A 1 48 UNP Q70622 GAG_HV1LW 342 389 SEQRES 1 A 48 LEU GLU GLU MET MET THR ALA CYS GLN GLY VAL GLY GLY SEQRES 2 A 48 PRO GLY HIS LYS ALA ARG VAL LEU ALA GLU ALA MET SER SEQRES 3 A 48 GLN VAL THR ASN SER ALA THR ILE MET MET GLN ARG GLY SEQRES 4 A 48 ASN PHE ARG ASN GLN ARG LYS ILE VAL HELIX 1 1 GLU A 3 CYS A 8 1 6 HELIX 2 2 HIS A 16 ARG A 38 1 23 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 MODEL 1 MODEL 2 MODEL 3 MODEL 4 MODEL 5 MODEL 6 MODEL 7 MODEL 8 MODEL 9 MODEL 10 MODEL 11 MODEL 12 MODEL 13 MODEL 14 MODEL 15 MODEL 16 MODEL 17 MODEL 18 MODEL 19