HEADER VIRAL PROTEIN 19-AUG-05 2ARI TITLE SOLUTION STRUCTURE OF MICELLE-BOUND FUSION DOMAIN OF HIV-1 GP41 COMPND MOL_ID: 1; COMPND 2 MOLECULE: ENVELOPE POLYPROTEIN GP160; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: 30 N-TERMINAL RESIDUES, TRANSMEMBRANE GLYCOPROTEIN (GP41); COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HUMAN IMMUNODEFICIENCY VIRUS 1; SOURCE 3 ORGANISM_TAXID: 11676; SOURCE 4 GENE: ENV; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET28A(+) KEYWDS HIV, GP41, FUSION, MEMBRANE, PROTEIN, MICELLE, VIRUS, VIRAL PROTEIN EXPDTA SOLUTION NMR NUMMDL 30 AUTHOR C.P.JARONIEC,J.D.KAUFMAN,S.J.STAHL,M.VIARD,R.BLUMENTHAL, AUTHOR 2 P.T.WINGFIELD,A.BAX REVDAT 3 09-MAR-22 2ARI 1 REMARK SEQADV REVDAT 2 24-FEB-09 2ARI 1 VERSN REVDAT 1 20-DEC-05 2ARI 0 JRNL AUTH C.P.JARONIEC,J.D.KAUFMAN,S.J.STAHL,M.VIARD,R.BLUMENTHAL, JRNL AUTH 2 P.T.WINGFIELD,A.BAX JRNL TITL STRUCTURE AND DYNAMICS OF MICELLE-ASSOCIATED HUMAN JRNL TITL 2 IMMUNODEFICIENCY VIRUS GP41 FUSION DOMAIN. JRNL REF BIOCHEMISTRY V. 44 16167 2005 JRNL REFN ISSN 0006-2960 JRNL PMID 16331977 JRNL DOI 10.1021/BI051672A REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XWINNMR 2.6, X-PLOR-NIH 2.9.4 REMARK 3 AUTHORS : BRUKER (XWINNMR), SCHWIETERS (X-PLOR-NIH) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 THE STRUCTURES ARE BASED ON A TOTAL OF 192 RESTRAINTS. 57 ARE REMARK 3 RESIDUAL DIPOLAR COUPLING (RDC) RESTRAINTS, 74 ARE NOE-DERIVED REMARK 3 DISTANCE RESTRAINTS, 38 ARE TALOS-DERIVED LOOSE (MINIMUM +/- 30 REMARK 3 DEGREES FROM TARGET VALUE) DIHEDRAL ANGLE RESTRAINTS, AND 23 ARE REMARK 3 3J_HNHA RESTRAINTS. NOTE THAT RDC RESTRAINTS WERE INCLUDED ONLY REMARK 3 FOR THE LEAST MOBILE RESIDUES ILE-4 TO MET-19 (WITH S2 > 0.65), REMARK 3 DIHEDRAL RESTRAINTS WERE INCLUDED FOR RESIDUES ILE-4 TO ALA-22, REMARK 3 NOE AND 3J_HNHA RESTRAINTS WERE INCLUDED FOR RESIDUES VAL-2 TO MET- REMARK 3 24. ALSO NOTE THAT THE RESIDUE INDEX IN PDB AND CONSTRAINTS FILES REMARK 3 IS SUCH THAT HIV-1 GP41 FUSION DOMAIN RESIDUE I IS ACTUALLY REMARK 3 LABELED AS I+1. REMARK 4 REMARK 4 2ARI COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-SEP-05. REMARK 100 THE DEPOSITION ID IS D_1000034227. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298; 298 REMARK 210 PH : 6.5; 6.5 REMARK 210 IONIC STRENGTH : 75 MM SODIUM DODECYL SULFATE; 25 REMARK 210 MM SODIUM PHOSPHATE; 0.05% (W/V) REMARK 210 SODIUM AZIDE; 75 MM SODIUM REMARK 210 DODECYL SULFATE DEUTERATED; 25 REMARK 210 MM SODIUM PHOSPHATE; 0.05% (W/V) REMARK 210 SODIUM AZIDE REMARK 210 PRESSURE : AMBIENT; AMBIENT REMARK 210 SAMPLE CONTENTS : 0.7 MM HIV-1 GP41 FUSION DOMAIN REMARK 210 U-2H, 13C, 15N; 75 MM SODIUM REMARK 210 DODECYL SULFATE; 25 MM SODIUM REMARK 210 PHOSPHATE BUFFER PH 6.5; 0.05% REMARK 210 (W/V) SODIUM AZIDE; 93% H2O, 7% REMARK 210 D2O; 0.7 MM HIV-1 GP41 FUSION REMARK 210 DOMAIN U-15N; 75 MM SODIUM REMARK 210 DODECYL SULFATE DEUTERATED; 25 REMARK 210 MM SODIUM PHOSPHATE BUFFER PH REMARK 210 6.5; 0.05% (W/V) SODIUM AZIDE; REMARK 210 93% H2O, 7% D2O; 0.7 MM HIV-1 REMARK 210 GP41 FUSION DOMAIN U-2H, 13C, REMARK 210 15N; 75 MM SODIUM DODECYL REMARK 210 SULFATE; 25 MM SODIUM PHOSPHATE REMARK 210 BUFFER PH 6.5; 0.05% (W/V) REMARK 210 SODIUM AZIDE; 93% H2O, 7% D2O; REMARK 210 SAMPLE ALIGNED WITH RESPECT TO REMARK 210 THE MAGNETIC FIELD USING A REMARK 210 STRETCHED POLYACRYALMIDE GEL REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_HNCO; 3D_HNCA; 3D_HN(CO)CA; REMARK 210 3D_HN(CA)CB; 2D_HNCG; 3D_15N- REMARK 210 SEPARATED_TOCSY; 3D_15N- REMARK 210 SEPARATED_NOESY; 3D_HNHA; 2D_ REMARK 210 IPAP-HSQC_JNH; 3D_HNCO_JNH; 3D_ REMARK 210 QJ-HNCO_JNCO; 3D_HNCO_JCOCA; 3D_ REMARK 210 HN(CO)CA_JCACB REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 750 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : DMX; DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XWINNMR 3.5, NMRPIPE 2.3, SPARKY REMARK 210 3.11 REMARK 210 METHOD USED : SIMULATED ANNEALING MOLECULAR REMARK 210 DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 30 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 30 REMARK 210 CONFORMERS, SELECTION CRITERIA : ALL CALCULATED STRUCTURES REMARK 210 SUBMITTED REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: THE STRUCTURE WAS DETERMINED USING TRIPLE-RESONANCE NMR REMARK 210 SPECTROSCOPY. RESIDUAL DIPOLAR COUPLINGS WERE MEASURED FOR A REMARK 210 PEPTIDE-MICELLE COMPLEX ALIGNED WITH RESPECT TO THE MAGNETIC REMARK 210 FIELD USING A STRETCHED POLYACRYAMIDE GEL. 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 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 MODELS 1-30 REMARK 465 RES C SSSEQI REMARK 465 PRO A 1 REMARK 465 ASP A 32 REMARK 465 TYR A 33 REMARK 465 LYS A 34 REMARK 465 ASP A 35 REMARK 465 ASP A 36 REMARK 465 ASP A 37 REMARK 465 ASP A 38 REMARK 465 LYS A 39 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 DISTANCE 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 SER A 24 43.35 -80.12 REMARK 500 1 MET A 25 90.55 50.46 REMARK 500 1 THR A 26 7.06 -69.64 REMARK 500 1 LEU A 27 -80.19 -59.69 REMARK 500 1 THR A 28 -23.02 -164.90 REMARK 500 1 GLN A 30 -95.95 -67.27 REMARK 500 2 VAL A 3 -59.38 63.70 REMARK 500 2 ALA A 23 36.13 -72.74 REMARK 500 2 SER A 24 52.74 -160.08 REMARK 500 2 MET A 25 100.39 53.79 REMARK 500 2 THR A 26 -176.30 -57.37 REMARK 500 2 LEU A 27 -73.06 -67.80 REMARK 500 2 THR A 28 16.76 -172.97 REMARK 500 2 VAL A 29 176.97 -58.30 REMARK 500 3 VAL A 3 102.27 55.07 REMARK 500 3 SER A 24 45.16 -79.60 REMARK 500 3 MET A 25 84.39 51.51 REMARK 500 3 LEU A 27 90.66 -59.81 REMARK 500 3 VAL A 29 -163.72 -62.75 REMARK 500 3 GLN A 30 170.34 -59.16 REMARK 500 4 VAL A 3 -93.86 52.25 REMARK 500 4 SER A 24 39.35 -79.92 REMARK 500 4 VAL A 29 -164.62 -59.82 REMARK 500 5 VAL A 3 -95.78 52.31 REMARK 500 5 ILE A 5 20.27 -71.09 REMARK 500 5 SER A 24 42.49 -79.43 REMARK 500 5 MET A 25 92.84 53.10 REMARK 500 5 THR A 28 -147.80 53.03 REMARK 500 6 VAL A 3 -0.19 58.69 REMARK 500 6 SER A 24 40.30 -79.68 REMARK 500 6 MET A 25 -155.79 51.45 REMARK 500 6 THR A 26 85.73 -68.19 REMARK 500 6 LEU A 27 171.08 56.06 REMARK 500 6 VAL A 29 89.84 -67.81 REMARK 500 6 GLN A 30 82.77 -62.08 REMARK 500 7 VAL A 3 16.37 56.19 REMARK 500 7 MET A 20 23.72 -77.36 REMARK 500 7 SER A 24 35.52 -78.76 REMARK 500 7 MET A 25 88.15 51.56 REMARK 500 7 LEU A 27 -47.59 -170.10 REMARK 500 7 VAL A 29 85.36 -66.90 REMARK 500 7 GLN A 30 -158.28 52.38 REMARK 500 8 VAL A 3 124.74 59.50 REMARK 500 8 MET A 25 99.46 53.01 REMARK 500 8 THR A 26 -17.75 -164.51 REMARK 500 8 LEU A 27 -53.84 -169.54 REMARK 500 9 VAL A 3 147.50 60.27 REMARK 500 9 MET A 25 91.74 51.81 REMARK 500 9 GLN A 30 -7.70 -57.35 REMARK 500 10 SER A 24 31.01 -79.64 REMARK 500 REMARK 500 THIS ENTRY HAS 151 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL DBREF 2ARI A 2 31 UNP P03376 ENV_HV1PV 512 541 SEQADV 2ARI PRO A 1 UNP P03376 CLONING ARTIFACT SEQADV 2ARI ASP A 32 UNP P03376 CLONING ARTIFACT SEQADV 2ARI TYR A 33 UNP P03376 CLONING ARTIFACT SEQADV 2ARI LYS A 34 UNP P03376 CLONING ARTIFACT SEQADV 2ARI ASP A 35 UNP P03376 CLONING ARTIFACT SEQADV 2ARI ASP A 36 UNP P03376 CLONING ARTIFACT SEQADV 2ARI ASP A 37 UNP P03376 CLONING ARTIFACT SEQADV 2ARI ASP A 38 UNP P03376 CLONING ARTIFACT SEQADV 2ARI LYS A 39 UNP P03376 CLONING ARTIFACT SEQRES 1 A 39 PRO ALA VAL GLY ILE GLY ALA LEU PHE LEU GLY PHE LEU SEQRES 2 A 39 GLY ALA ALA GLY SER THR MET GLY ALA ALA SER MET THR SEQRES 3 A 39 LEU THR VAL GLN ALA ASP TYR LYS ASP ASP ASP ASP LYS HELIX 1 1 ILE A 5 GLY A 21 1 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 MODEL 1