HEADER VIRAL PROTEIN 31-JUL-18 6E8W TITLE MPER-TM DOMAIN OF HIV-1 ENVELOPE GLYCOPROTEIN (ENV) COMPND MOL_ID: 1; COMPND 2 MOLECULE: ENVELOPE GLYCOPROTEIN GP160; COMPND 3 CHAIN: A, B, C; COMPND 4 FRAGMENT: HELICAL TRANSMEMBRANE RESIDUES 653-703; 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; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PMM - LR6 KEYWDS MPER-TMD HIV-1 ENV GP41, VIRAL PROTEIN EXPDTA SOLUTION NMR NUMMDL 15 AUTHOR Q.FU,M.M.SHAIK,Y.CAI,F.GHANTOUS,A.PIAI,H.PENG,S.RITS-VOLLOCH,Z.LIU, AUTHOR 2 S.C.HARRISON,M.S.SEAMAN,B.CHEN,J.J.CHOU REVDAT 6 15-MAY-24 6E8W 1 REMARK REVDAT 5 14-JUN-23 6E8W 1 REMARK REVDAT 4 18-DEC-19 6E8W 1 REMARK REVDAT 3 03-OCT-18 6E8W 1 JRNL REVDAT 2 19-SEP-18 6E8W 1 JRNL REVDAT 1 05-SEP-18 6E8W 0 JRNL AUTH Q.FU,M.M.SHAIK,Y.CAI,F.GHANTOUS,A.PIAI,H.PENG, JRNL AUTH 2 S.RITS-VOLLOCH,Z.LIU,S.C.HARRISON,M.S.SEAMAN,B.CHEN,J.J.CHOU JRNL TITL STRUCTURE OF THE MEMBRANE PROXIMAL EXTERNAL REGION OF HIV-1 JRNL TITL 2 ENVELOPE GLYCOPROTEIN. JRNL REF PROC. NATL. ACAD. SCI. V. 115 E8892 2018 JRNL REF 2 U.S.A. JRNL REFN ESSN 1091-6490 JRNL PMID 30185554 JRNL DOI 10.1073/PNAS.1807259115 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR NIH 2.48 REMARK 3 AUTHORS : SCHWIETERS, KUSZEWSKI, TJANDRA AND CLORE REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6E8W COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-AUG-18. REMARK 100 THE DEPOSITION ID IS D_1000235921. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 308 REMARK 210 PH : 6.7 REMARK 210 IONIC STRENGTH : 20 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 15N, 2H ENVELOPE GLYCOPROTEIN REMARK 210 GP160, 50 MM DMPC, 100 MM DHPC, REMARK 210 90% H2O/10% D2O; 15N, 2H, 13C REMARK 210 ENVELOPE GLYCOPROTEIN GP160, 50 REMARK 210 MM DMPC, 100 MM DHPC, 90% H2O/10% REMARK 210 D2O; 15N, 13C ENVELOPE REMARK 210 GLYCOPROTEIN GP160, 50 MM [U-99% REMARK 210 2H] DMPC, 100 MM [U-99% 2H] DHPC, REMARK 210 90% H2O/10% D2O; 15N, 2H MIXED REMARK 210 WITH 13C(15%) ENVELOPE REMARK 210 GLYCOPROTEIN GP160, 50 MM [U-99% REMARK 210 2H] DMPC, 100 MM [U-99% 2H] DHPC, REMARK 210 90% H2O/10% D2O; 15N, 2H MIXED REMARK 210 WITH 13C ENVELOPE GLYCOPROTEIN REMARK 210 GP160, 50 MM [U-99% 2H] DMPC, REMARK 210 100 MM [U-99% 2H] DHPC, 90% H2O/ REMARK 210 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N TROSY HSQC; 3D HNCA; REMARK 210 3D HN(CO)CA; 3D HNCO; 3D 1H-15N REMARK 210 NOESY TR-HSQC; 3D 1H-13C NOESY; REMARK 210 3D JCH MODULATED 1H-15N NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 900 MHZ; 800 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE III REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XEASY, NMRPIPE, TOPSPIN, X-PLOR REMARK 210 NIH 2.48 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 150 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 15 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL 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: TRIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 TYR B 681 CB TYR B 681 CG 0.090 REMARK 500 2 TYR B 681 CB TYR B 681 CG 0.098 REMARK 500 3 TYR A 681 CB TYR A 681 CG 0.092 REMARK 500 4 TYR B 681 CB TYR B 681 CG 0.093 REMARK 500 4 TYR C 681 CB TYR C 681 CG 0.092 REMARK 500 5 TYR A 681 CB TYR A 681 CG 0.092 REMARK 500 6 TYR C 681 CB TYR C 681 CG 0.099 REMARK 500 7 TYR C 681 CB TYR C 681 CG 0.096 REMARK 500 8 TYR C 681 CB TYR C 681 CG 0.092 REMARK 500 9 TYR A 681 CB TYR A 681 CG 0.091 REMARK 500 10 TYR B 681 CB TYR B 681 CG 0.095 REMARK 500 11 TYR A 681 CB TYR A 681 CG 0.099 REMARK 500 11 TYR B 681 CB TYR B 681 CG 0.091 REMARK 500 14 TYR C 681 CB TYR C 681 CG 0.092 REMARK 500 15 TYR C 681 CB TYR C 681 CG 0.093 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 14 ARG A 683 NE - CZ - NH2 ANGL. DEV. = 3.1 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 PHE A 673 -67.19 56.28 REMARK 500 1 PHE B 673 -66.05 55.59 REMARK 500 1 TYR B 681 -28.07 -164.40 REMARK 500 1 LEU C 661 96.62 58.24 REMARK 500 1 PHE C 673 -67.85 56.57 REMARK 500 1 TRP C 680 52.84 -152.47 REMARK 500 1 TYR C 681 -28.85 -165.11 REMARK 500 1 ARG C 709 97.93 -49.81 REMARK 500 2 LEU A 661 101.95 59.58 REMARK 500 2 PHE A 673 -8.62 51.56 REMARK 500 2 PHE B 673 -149.54 78.41 REMARK 500 2 LEU C 661 93.63 -51.96 REMARK 500 2 PHE C 673 -93.86 60.26 REMARK 500 2 ARG C 709 13.96 57.76 REMARK 500 3 PHE A 673 0.15 45.05 REMARK 500 3 LEU B 661 70.47 56.29 REMARK 500 3 PHE B 673 -3.99 49.21 REMARK 500 3 VAL B 689 1.87 -67.73 REMARK 500 3 LEU C 661 105.65 57.63 REMARK 500 3 PHE C 673 -82.35 56.18 REMARK 500 3 VAL C 689 1.93 -67.56 REMARK 500 3 ARG C 709 95.76 25.15 REMARK 500 4 LEU A 661 -112.40 -95.43 REMARK 500 4 GLU A 662 163.76 92.23 REMARK 500 4 PHE A 673 14.95 36.33 REMARK 500 4 PHE B 673 -51.90 50.76 REMARK 500 4 PHE C 673 146.91 -177.71 REMARK 500 4 TYR C 681 70.94 -161.01 REMARK 500 5 PHE A 673 -73.81 52.78 REMARK 500 5 LEU B 661 113.22 -165.71 REMARK 500 5 PHE B 673 -76.38 53.01 REMARK 500 5 TRP B 680 38.83 -153.19 REMARK 500 5 TYR B 681 -36.60 -154.60 REMARK 500 5 VAL B 689 8.15 -67.80 REMARK 500 5 ARG B 709 -71.15 -67.65 REMARK 500 5 LEU C 661 -128.23 60.93 REMARK 500 5 GLU C 662 159.45 93.14 REMARK 500 5 PHE C 673 -90.47 57.83 REMARK 500 6 GLU A 662 135.65 -177.80 REMARK 500 6 PHE A 673 -71.12 57.51 REMARK 500 6 ARG A 709 73.59 39.26 REMARK 500 6 LEU B 661 165.60 64.94 REMARK 500 6 PHE B 673 -68.30 57.45 REMARK 500 6 TRP B 680 -14.48 -141.58 REMARK 500 6 LEU C 661 109.40 61.77 REMARK 500 6 PHE C 673 -74.59 54.62 REMARK 500 6 VAL C 689 4.03 -68.47 REMARK 500 6 ARG C 709 -82.14 -64.79 REMARK 500 7 LEU A 661 138.58 60.89 REMARK 500 7 PHE A 673 -15.28 52.26 REMARK 500 REMARK 500 THIS ENTRY HAS 124 RAMACHANDRAN OUTLIERS. 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 9 ARG B 696 0.09 SIDE CHAIN REMARK 500 11 ARG A 683 0.09 SIDE CHAIN REMARK 500 11 ARG A 696 0.12 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 30503 RELATED DB: BMRB REMARK 900 MPER-TM DOMAIN OF HIV-1 ENVELOPE GLYCOPROTEIN (ENV) DBREF 6E8W A 660 710 UNP Q74849 Q74849_9HIV1 653 703 DBREF 6E8W B 660 710 UNP Q74849 Q74849_9HIV1 653 703 DBREF 6E8W C 660 710 UNP Q74849 Q74849_9HIV1 653 703 SEQRES 1 A 51 LEU LEU GLU LEU ASP LYS TRP ALA SER LEU TRP ASN TRP SEQRES 2 A 51 PHE ASP ILE THR ASN TRP LEU TRP TYR ILE ARG ILE PHE SEQRES 3 A 51 ILE ILE ILE VAL GLY SER LEU ILE GLY LEU ARG ILE VAL SEQRES 4 A 51 PHE ALA VAL LEU SER LEU VAL ASN ARG VAL ARG GLN SEQRES 1 B 51 LEU LEU GLU LEU ASP LYS TRP ALA SER LEU TRP ASN TRP SEQRES 2 B 51 PHE ASP ILE THR ASN TRP LEU TRP TYR ILE ARG ILE PHE SEQRES 3 B 51 ILE ILE ILE VAL GLY SER LEU ILE GLY LEU ARG ILE VAL SEQRES 4 B 51 PHE ALA VAL LEU SER LEU VAL ASN ARG VAL ARG GLN SEQRES 1 C 51 LEU LEU GLU LEU ASP LYS TRP ALA SER LEU TRP ASN TRP SEQRES 2 C 51 PHE ASP ILE THR ASN TRP LEU TRP TYR ILE ARG ILE PHE SEQRES 3 C 51 ILE ILE ILE VAL GLY SER LEU ILE GLY LEU ARG ILE VAL SEQRES 4 C 51 PHE ALA VAL LEU SER LEU VAL ASN ARG VAL ARG GLN HELIX 1 AA1 GLU A 662 SER A 668 1 7 HELIX 2 AA2 LEU A 669 ASN A 671 5 3 HELIX 3 AA3 PHE A 673 LEU A 679 1 7 HELIX 4 AA4 TYR A 681 ILE A 697 1 17 HELIX 5 AA5 VAL A 698 ASN A 706 1 9 HELIX 6 AA6 GLU B 662 ALA B 667 1 6 HELIX 7 AA7 PHE B 673 LEU B 679 1 7 HELIX 8 AA8 TYR B 681 VAL B 689 1 9 HELIX 9 AA9 SER B 691 ILE B 697 1 7 HELIX 10 AB1 ILE B 697 ARG B 709 1 13 HELIX 11 AB2 GLU C 662 ALA C 667 1 6 HELIX 12 AB3 SER C 668 TRP C 672 5 5 HELIX 13 AB4 PHE C 673 LEU C 679 1 7 HELIX 14 AB5 TYR C 681 ARG C 696 1 16 HELIX 15 AB6 VAL C 698 ARG C 707 1 10 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