10 20 30 40 50 60 70 80 2ARI - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER VIRAL PROTEIN 19-AUG-05 2ARI
TITLE SOLUTION STRUCTURE OF MICELLE-BOUND FUSION DOMAIN OF HIV-1 TITLE 2 GP41
COMPND MOL_ID: 1; COMPND 2 MOLECULE: ENVELOPE POLYPROTEIN GP160; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: 30 N-TERMINAL RESIDUES, TRANSMEMBRANE COMPND 5 GLYCOPROTEIN (GP41); COMPND 6 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, PEPTIDE, DOMAIN, MEMBRANE, PROTEIN, KEYWDS 2 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 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, JRNL AUTH 2 R.BLUMENTHAL,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 1
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR-NIH 2.9.4 REMARK 3 AUTHORS : SCHWIETERS REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURES ARE BASED ON A TOTAL REMARK 3 OF 192 RESTRAINTS. 57 ARE RESIDUAL DIPOLAR COUPLING (RDC) REMARK 3 RESTRAINTS, 74 ARE NOE-DERIVED DISTANCE RESTRAINTS, 38 ARE REMARK 3 TALOS-DERIVED LOOSE (MINIMUM +/- 30 DEGREES FROM TARGET VALUE) REMARK 3 DIHEDRAL ANGLE RESTRAINTS, AND 23 ARE 3J_HNHA RESTRAINTS. NOTE REMARK 3 THAT RDC RESTRAINTS WERE INCLUDED ONLY FOR THE LEAST MOBILE REMARK 3 RESIDUES ILE-4 TO MET-19 (WITH S2 > 0.65), DIHEDRAL RESTRAINTS REMARK 3 WERE INCLUDED FOR RESIDUES ILE-4 TO ALA-22, NOE AND 3J_HNHA REMARK 3 RESTRAINTS WERE INCLUDED FOR RESIDUES VAL-2 TO MET-24. ALSO REMARK 3 NOTE THAT THE RESIDUE INDEX IN PDB AND CONSTRAINTS FILES IS REMARK 3 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 RCSB ID CODE IS RCSB034227.
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; REMARK 210 25 MM SODIUM PHOSPHATE; 0.05% REMARK 210 (W/V) SODIUM AZIDE; 75 MM REMARK 210 SODIUM DODECYL SULFATE REMARK 210 DEUTERATED; 25 MM SODIUM REMARK 210 PHOSPHATE; 0.05% (W/V) SODIUM REMARK 210 AZIDE REMARK 210 PRESSURE : AMBIENT; AMBIENT REMARK 210 SAMPLE CONTENTS : 0.7 MM HIV-1 GP41 FUSION REMARK 210 DOMAIN U-2H, 13C, 15N; 75 MM REMARK 210 SODIUM DODECYL SULFATE; 25 MM REMARK 210 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-15N; 75 REMARK 210 MM SODIUM DODECYL SULFATE REMARK 210 DEUTERATED; 25 MM SODIUM REMARK 210 PHOSPHATE BUFFER PH 6.5; 0.05% REMARK 210 (W/V) SODIUM AZIDE; 93% H2O, REMARK 210 7% D2O; 0.7 MM HIV-1 GP41 REMARK 210 FUSION DOMAIN U-2H, 13C, 15N; REMARK 210 75 MM SODIUM DODECYL SULFATE; REMARK 210 25 MM SODIUM PHOSPHATE BUFFER REMARK 210 PH 6.5; 0.05% (W/V) SODIUM REMARK 210 AZIDE; 93% H2O, 7% D2O; SAMPLE REMARK 210 ALIGNED WITH RESPECT TO THE REMARK 210 MAGNETIC FIELD USING A REMARK 210 STRETCHED POLYACRYALMIDE GEL REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_HNCO; 3D_HNCA; 3D_HN(CO) REMARK 210 CA; 3D_HN(CA)CB; 2D_HNCG, 3D_ REMARK 210 15N-SEPARATED_TOCSY; 3D_15N- REMARK 210 SEPARATED_NOESY; 3D_HNHA, 2D_ REMARK 210 IPAP-HSQC_JNH; 3D_HNCO_JNH; REMARK 210 3D_QJ-HNCO_JNCO; 3D_HNCO_ REMARK 210 JCOCA; 3D_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 2.6, XWINNMR 3.5, REMARK 210 NMRPIPE 2.3, SPARKY 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 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: 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 10 MET A 25 74.06 52.45 REMARK 500 10 THR A 28 143.35 -171.84 REMARK 500 11 VAL A 3 -99.39 52.60 REMARK 500 11 SER A 24 29.12 -160.60 REMARK 500 11 MET A 25 -179.85 51.22 REMARK 500 11 LEU A 27 5.62 -165.82 REMARK 500 12 VAL A 3 -55.68 64.73 REMARK 500 12 MET A 20 28.18 -77.59 REMARK 500 12 ALA A 23 36.57 -73.00 REMARK 500 12 MET A 25 71.77 50.39 REMARK 500 12 THR A 28 -149.23 -169.77 REMARK 500 13 SER A 24 16.93 -161.09 REMARK 500 13 THR A 28 -70.54 -164.92 REMARK 500 14 VAL A 3 -87.00 55.59 REMARK 500 14 ALA A 23 -84.35 -70.60 REMARK 500 14 SER A 24 12.67 -159.86 REMARK 500 14 THR A 26 -2.19 -172.06 REMARK 500 14 THR A 28 67.01 -68.34 REMARK 500 15 VAL A 3 123.68 60.02 REMARK 500 15 SER A 24 42.68 -159.84 REMARK 500 15 MET A 25 -97.15 50.43 REMARK 500 15 THR A 26 65.29 -165.16 REMARK 500 15 LEU A 27 -164.59 -75.10 REMARK 500 15 THR A 28 144.47 -172.34 REMARK 500 15 VAL A 29 -169.80 -66.77 REMARK 500 15 GLN A 30 -58.46 -168.73 REMARK 500 16 VAL A 3 112.45 58.01 REMARK 500 16 SER A 24 53.02 -159.13 REMARK 500 16 MET A 25 -123.10 56.44 REMARK 500 16 THR A 26 64.76 -173.84 REMARK 500 16 GLN A 30 -81.51 -65.04 REMARK 500 17 VAL A 3 -23.25 63.20 REMARK 500 17 SER A 24 47.08 -79.62 REMARK 500 17 MET A 25 -179.19 52.14 REMARK 500 17 THR A 26 -90.33 -67.97 REMARK 500 18 VAL A 3 -5.12 60.58 REMARK 500 18 SER A 24 38.59 -79.96 REMARK 500 18 MET A 25 -176.41 50.58 REMARK 500 18 THR A 26 -167.21 -68.33 REMARK 500 18 LEU A 27 94.97 -68.02 REMARK 500 18 VAL A 29 82.00 52.69 REMARK 500 18 GLN A 30 76.03 -168.95 REMARK 500 19 VAL A 3 -91.63 52.55 REMARK 500 19 MET A 25 -147.76 52.16 REMARK 500 19 THR A 28 79.26 -68.58 REMARK 500 20 VAL A 3 -62.62 63.54 REMARK 500 20 SER A 24 35.07 -159.47 REMARK 500 20 MET A 25 -150.50 53.19 REMARK 500 20 LEU A 27 -167.68 -68.50 REMARK 500 20 THR A 28 -1.60 -172.32 REMARK 500 20 GLN A 30 -166.42 -59.99 REMARK 500 21 VAL A 3 148.13 60.51 REMARK 500 21 SER A 24 49.47 -80.35 REMARK 500 21 MET A 25 -91.76 50.48 REMARK 500 21 THR A 26 -2.32 -172.26 REMARK 500 21 LEU A 27 -63.10 -167.03 REMARK 500 22 VAL A 3 -49.79 64.70 REMARK 500 22 ALA A 23 22.26 -73.58 REMARK 500 22 SER A 24 37.94 -159.86 REMARK 500 22 MET A 25 178.56 52.11 REMARK 500 23 VAL A 3 -41.90 64.23 REMARK 500 23 SER A 24 35.70 -160.55 REMARK 500 23 MET A 25 158.33 58.34 REMARK 500 23 THR A 26 88.84 -59.00 REMARK 500 23 LEU A 27 95.75 -62.33 REMARK 500 24 VAL A 3 -71.25 61.02 REMARK 500 24 MET A 20 23.78 -77.88 REMARK 500 24 ALA A 23 36.75 -72.77 REMARK 500 24 MET A 25 -92.79 48.77 REMARK 500 24 LEU A 27 95.03 -69.17 REMARK 500 24 THR A 28 -2.51 -173.47 REMARK 500 25 VAL A 3 89.85 53.69 REMARK 500 25 MET A 25 -133.08 54.53 REMARK 500 25 VAL A 29 -164.61 -58.90 REMARK 500 25 GLN A 30 73.09 53.16 REMARK 500 26 VAL A 3 -13.76 62.37 REMARK 500 26 SER A 24 32.76 -80.01 REMARK 500 26 MET A 25 70.76 50.54 REMARK 500 26 THR A 26 -144.57 -67.35 REMARK 500 27 VAL A 3 -18.73 61.96 REMARK 500 27 MET A 25 -174.33 51.37 REMARK 500 27 LEU A 27 128.64 -170.08 REMARK 500 27 THR A 28 23.98 -169.43 REMARK 500 27 GLN A 30 -168.89 -56.59 REMARK 500 28 VAL A 3 109.90 57.09 REMARK 500 28 SER A 24 34.34 -80.10 REMARK 500 28 MET A 25 -136.57 51.92 REMARK 500 28 THR A 26 13.64 -169.66 REMARK 500 28 VAL A 29 89.16 -67.88 REMARK 500 29 VAL A 3 106.26 56.36 REMARK 500 29 SER A 24 31.01 -79.04 REMARK 500 29 MET A 25 97.40 53.00 REMARK 500 29 THR A 26 -73.92 -66.08 REMARK 500 29 LEU A 27 -168.18 -64.19 REMARK 500 29 THR A 28 144.88 -172.77 REMARK 500 29 VAL A 29 -165.63 -67.15 REMARK 500 30 VAL A 3 144.15 60.34 REMARK 500 30 SER A 24 45.57 -80.30 REMARK 500 30 MET A 25 -164.59 50.73 REMARK 500 30 THR A 26 -171.13 -58.26 REMARK 500 30 LEU A 27 -177.60 -59.54 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