HEADER IMMUNE SYSTEM 21-JUN-16 5GHW TITLE CRYSTAL STRUCTURE OF BROAD NEUTRALIZING ANTIBODY 10E8 WITH LONG TITLE 2 EPITOPE BOUND COMPND MOL_ID: 1; COMPND 2 MOLECULE: FAB 10E8 HEAVY CHAIN; COMPND 3 CHAIN: H; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: FAB 10E8 LIGHT CHAIN; COMPND 7 CHAIN: L; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: ENDOGENOUS RETROVIRUS GROUP K MEMBER 8 ENV POLYPROTEIN; COMPND 11 CHAIN: P; COMPND 12 FRAGMENT: UNP RESIDUES 674-698; COMPND 13 SYNONYM: ENDOGENOUS RETROVIRUS GROUP K MEMBER 113 ENV POLYPROTEIN, COMPND 14 ENDOGENOUS RETROVIRUS GROUP K MEMBER 13-1 ENV POLYPROTEIN,ENDOGENOUS COMPND 15 RETROVIRUS GROUP K MEMBER 18 ENV POLYPROTEIN,ENDOGENOUS RETROVIRUS COMPND 16 GROUP K MEMBER 19 ENV POLYPROTEIN,ENDOGENOUS RETROVIRUS GROUP K COMPND 17 MEMBER 21 ENV POLYPROTEIN,ENDOGENOUS RETROVIRUS GROUP K MEMBER 24 ENV COMPND 18 POLYPROTEIN,ENDOGENOUS RETROVIRUS GROUP K MEMBER 25 ENV POLYPROTEIN, COMPND 19 ENDOGENOUS RETROVIRUS GROUP K MEMBER 6 ENV POLYPROTEIN,ENDOGENOUS COMPND 20 RETROVIRUS GROUP K MEMBER 7 ENV POLYPROTEIN,ENDOGENOUS RETROVIRUS COMPND 21 GROUP K MEMBER 9 ENV POLYPROTEIN,ENVELOPE GLYCOPROTEIN GP160; COMPND 22 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_TAXID: 9606; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 MOL_ID: 2; SOURCE 7 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 8 ORGANISM_TAXID: 9606; SOURCE 9 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 10 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 11 MOL_ID: 3; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: HUMAN IMMUNODEFICIENCY VIRUS 1; SOURCE 14 ORGANISM_TAXID: 11676 KEYWDS BROAD NEUTRALIZING ANTIBODY, RECOMBINANT FAB, EPITOPE, IMMUNE SYSTEM, KEYWDS 2 HIV-1, VIRAL MEMBRANE EXPDTA X-RAY DIFFRACTION AUTHOR J.M.M.CAAVEIRO,E.RUJAS,K.MORANTE,J.L.NIEVA,K.TSUMOTO REVDAT 4 08-NOV-23 5GHW 1 REMARK REVDAT 3 26-FEB-20 5GHW 1 REMARK REVDAT 2 28-DEC-16 5GHW 1 JRNL REVDAT 1 23-NOV-16 5GHW 0 JRNL AUTH E.RUJAS,J.M.CAAVEIRO,A.PARTIDA-HANON,N.GULZAR,K.MORANTE, JRNL AUTH 2 B.APELLANIZ,M.GARCIA-PORRAS,M.BRUIX,K.TSUMOTO,J.K.SCOTT, JRNL AUTH 3 M.A.JIMENEZ,J.L.NIEVA JRNL TITL STRUCTURAL BASIS FOR BROAD NEUTRALIZATION OF HIV-1 THROUGH JRNL TITL 2 THE MOLECULAR RECOGNITION OF 10E8 HELICAL EPITOPE AT THE JRNL TITL 3 MEMBRANE INTERFACE JRNL REF SCI REP V. 6 38177 2016 JRNL REFN ESSN 2045-2322 JRNL PMID 27905530 JRNL DOI 10.1038/SREP38177 REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0073 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 52.40 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 89.4 REMARK 3 NUMBER OF REFLECTIONS : 23462 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.194 REMARK 3 R VALUE (WORKING SET) : 0.192 REMARK 3 FREE R VALUE : 0.230 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 1187 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.46 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1000 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 52.34 REMARK 3 BIN R VALUE (WORKING SET) : 0.2370 REMARK 3 BIN FREE R VALUE SET COUNT : 51 REMARK 3 BIN FREE R VALUE : 0.3040 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3558 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 35 REMARK 3 SOLVENT ATOMS : 132 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 40.34 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.07000 REMARK 3 B22 (A**2) : 1.60000 REMARK 3 B33 (A**2) : -2.67000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.321 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.233 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.147 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 11.564 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.935 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.906 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3691 ; 0.011 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 3348 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5032 ; 1.431 ; 1.953 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7742 ; 0.763 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 464 ; 7.052 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 143 ;38.448 ;23.497 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 564 ;16.007 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 18 ;18.346 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 545 ; 0.079 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4137 ; 0.006 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 843 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1859 ; 1.125 ; 1.438 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1858 ; 1.124 ; 1.435 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2319 ; 1.997 ; 2.144 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2320 ; 1.997 ; 2.148 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1832 ; 1.310 ; 1.690 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1805 ; 1.026 ; 1.642 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2671 ; 1.780 ; 2.415 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 4055 ; 5.372 ;13.048 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 4023 ; 5.294 ;12.946 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : H 1 H 112 REMARK 3 RESIDUE RANGE : L 2 L 108 REMARK 3 ORIGIN FOR THE GROUP (A): -22.060 -18.306 -26.687 REMARK 3 T TENSOR REMARK 3 T11: 0.3996 T22: 0.3952 REMARK 3 T33: 0.3263 T12: 0.0376 REMARK 3 T13: 0.0175 T23: -0.0274 REMARK 3 L TENSOR REMARK 3 L11: 1.0366 L22: 1.5826 REMARK 3 L33: 3.1386 L12: -0.1698 REMARK 3 L13: -0.1619 L23: -0.4277 REMARK 3 S TENSOR REMARK 3 S11: -0.0348 S12: -0.3134 S13: -0.0035 REMARK 3 S21: 0.3602 S22: -0.0096 S23: -0.1889 REMARK 3 S31: 0.1486 S32: 0.5361 S33: 0.0444 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : H 115 H 215 REMARK 3 RESIDUE RANGE : L 111 L 210 REMARK 3 ORIGIN FOR THE GROUP (A): -18.0572 -20.1977 -61.3001 REMARK 3 T TENSOR REMARK 3 T11: 0.0036 T22: 0.0447 REMARK 3 T33: 0.1905 T12: -0.0076 REMARK 3 T13: -0.0062 T23: -0.0011 REMARK 3 L TENSOR REMARK 3 L11: 1.9835 L22: 1.1556 REMARK 3 L33: 1.3705 L12: 0.2826 REMARK 3 L13: -0.5443 L23: -0.2987 REMARK 3 S TENSOR REMARK 3 S11: -0.0006 S12: 0.0267 S13: -0.0338 REMARK 3 S21: -0.0290 S22: 0.0215 S23: -0.0298 REMARK 3 S31: 0.0453 S32: 0.0046 S33: -0.0209 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 5GHW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 27-JUN-16. REMARK 100 THE DEPOSITION ID IS D_1300000803. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-MAR-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : AR-NW12A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 270 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM 7.1.0 REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.3.11 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24652 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 52.400 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 90.0 REMARK 200 DATA REDUNDANCY : 9.700 REMARK 200 R MERGE (I) : 0.04600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 34.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.49 REMARK 200 COMPLETENESS FOR SHELL (%) : 56.2 REMARK 200 DATA REDUNDANCY IN SHELL : 7.00 REMARK 200 R MERGE FOR SHELL (I) : 0.20200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 8.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.5.6 REMARK 200 STARTING MODEL: 4G6F REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.24 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.5 MM DPC 50% MPD 200 MM PHOSPHATE REMARK 280 100 MM TRIS, PH 8.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 33.31650 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 40.61550 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 127.10800 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 33.31650 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 40.61550 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 127.10800 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 33.31650 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 40.61550 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 127.10800 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 33.31650 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 40.61550 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 127.10800 REMARK 290 REMARK 290 REMARK: NULL 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6870 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21400 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -80.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: H, L, P 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. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 GLY H -2 REMARK 465 GLY H -1 REMARK 465 SER H 0 REMARK 465 CYS H 216 REMARK 465 ASP H 217 REMARK 465 LYS H 218 REMARK 465 SER L 1 REMARK 465 GLU L 211 REMARK 465 CYS L 212 REMARK 465 SER L 213 REMARK 465 TYR L 214 REMARK 465 LYS P 660 REMARK 465 LYS P 661 REMARK 465 LYS P 662 REMARK 465 LYS P 663 REMARK 465 ASP P 664 REMARK 465 LYS P 665 REMARK 465 TRP P 666 REMARK 465 ALA P 667 REMARK 465 SER P 668 REMARK 465 GLY P 690 REMARK 465 LYS P 691 REMARK 465 LYS P 692 REMARK 465 LYS P 693 REMARK 465 LYS P 694 REMARK 465 LYS P 695 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 PRO H 14 32.85 -72.25 REMARK 500 PRO H 62 -9.34 -59.90 REMARK 500 PRO H 100G 48.50 -99.82 REMARK 500 PHE L 48 145.81 -170.91 REMARK 500 ASN L 52 20.44 -144.86 REMARK 500 SER L 67 139.63 -171.94 REMARK 500 ALA L 84 -179.04 -174.46 REMARK 500 ASP L 152 -111.39 54.81 REMARK 500 ASN L 171 1.13 81.67 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 H 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 H 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 L 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 L 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 L 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 L 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 L 305 REMARK 999 REMARK 999 SEQUENCE REMARK 999 AUTHORS STATE THAT FOR ENTITY 1, GGS RESIDUES AT N-TERMINUS ARE REMARK 999 CLONING ARTIFACTS. FOR ENTITY 3, THE FOUR LYSINE RESIDUES AT THE N- REMARK 999 TERMINUS AND THE FIVE LYSINE RESIDUES AT THE C-TERMINUS ARE REMARK 999 SOLUBILIZATION TAGS. DBREF 5GHW H -2 218 PDB 5GHW 5GHW -2 218 DBREF 5GHW L 1 214 PDB 5GHW 5GHW 1 214 DBREF 5GHW P 666 690 UNP G3DED6 G3DED6_9HIV1 674 698 SEQADV 5GHW LYS P 660 UNP G3DED6 EXPRESSION TAG SEQADV 5GHW LYS P 661 UNP G3DED6 EXPRESSION TAG SEQADV 5GHW LYS P 662 UNP G3DED6 EXPRESSION TAG SEQADV 5GHW LYS P 663 UNP G3DED6 EXPRESSION TAG SEQADV 5GHW ASP P 664 UNP G3DED6 EXPRESSION TAG SEQADV 5GHW LYS P 665 UNP G3DED6 EXPRESSION TAG SEQADV 5GHW LYS P 691 UNP G3DED6 EXPRESSION TAG SEQADV 5GHW LYS P 692 UNP G3DED6 EXPRESSION TAG SEQADV 5GHW LYS P 693 UNP G3DED6 EXPRESSION TAG SEQADV 5GHW LYS P 694 UNP G3DED6 EXPRESSION TAG SEQADV 5GHW LYS P 695 UNP G3DED6 EXPRESSION TAG SEQRES 1 H 239 GLY GLY SER GLU VAL GLN LEU VAL GLU SER GLY GLY GLY SEQRES 2 H 239 LEU VAL LYS PRO GLY GLY SER LEU ARG LEU SER CYS SER SEQRES 3 H 239 ALA SER GLY PHE ASP PHE ASP ASN ALA TRP MET THR TRP SEQRES 4 H 239 VAL ARG GLN PRO PRO GLY LYS GLY LEU GLU TRP VAL GLY SEQRES 5 H 239 ARG ILE THR GLY PRO GLY GLU GLY TRP SER VAL ASP TYR SEQRES 6 H 239 ALA ALA PRO VAL GLU GLY ARG PHE THR ILE SER ARG LEU SEQRES 7 H 239 ASN SER ILE ASN PHE LEU TYR LEU GLU MET ASN ASN LEU SEQRES 8 H 239 ARG MET GLU ASP SER GLY LEU TYR PHE CYS ALA ARG THR SEQRES 9 H 239 GLY LYS TYR TYR ASP PHE TRP SER GLY TYR PRO PRO GLY SEQRES 10 H 239 GLU GLU TYR PHE GLN ASP TRP GLY ARG GLY THR LEU VAL SEQRES 11 H 239 THR VAL SER SER ALA SER THR LYS GLY PRO SER VAL PHE SEQRES 12 H 239 PRO LEU ALA PRO SER SER LYS SER THR SER GLY GLY THR SEQRES 13 H 239 ALA ALA LEU GLY CYS LEU VAL LYS ASP TYR PHE PRO GLU SEQRES 14 H 239 PRO VAL THR VAL SER TRP ASN SER GLY ALA LEU THR SER SEQRES 15 H 239 GLY VAL HIS THR PHE PRO ALA VAL LEU GLN SER SER GLY SEQRES 16 H 239 LEU TYR SER LEU SER SER VAL VAL THR VAL PRO SER SER SEQRES 17 H 239 SER LEU GLY THR GLN THR TYR ILE CYS ASN VAL ASN HIS SEQRES 18 H 239 LYS PRO SER ASN THR LYS VAL ASP LYS ARG VAL GLU PRO SEQRES 19 H 239 LYS SER CYS ASP LYS SEQRES 1 L 216 SER TYR GLU LEU THR GLN GLU THR GLY VAL SER VAL ALA SEQRES 2 L 216 LEU GLY ARG THR VAL THR ILE THR CYS ARG GLY ASP SER SEQRES 3 L 216 LEU ARG SER HIS TYR ALA SER TRP TYR GLN LYS LYS PRO SEQRES 4 L 216 GLY GLN ALA PRO ILE LEU LEU PHE TYR GLY LYS ASN ASN SEQRES 5 L 216 ARG PRO SER GLY VAL PRO ASP ARG PHE SER GLY SER ALA SEQRES 6 L 216 SER GLY ASN ARG ALA SER LEU THR ILE SER GLY ALA GLN SEQRES 7 L 216 ALA GLU ASP ASP ALA GLU TYR TYR CYS SER SER ARG ASP SEQRES 8 L 216 LYS SER GLY SER ARG LEU SER VAL PHE GLY GLY GLY THR SEQRES 9 L 216 LYS LEU THR VAL LEU SER GLN PRO LYS ALA ALA PRO SER SEQRES 10 L 216 VAL THR LEU PHE PRO PRO SER SER GLU GLU LEU GLN ALA SEQRES 11 L 216 ASN LYS ALA THR LEU VAL CYS LEU ILE SER ASP PHE TYR SEQRES 12 L 216 PRO GLY ALA VAL THR VAL ALA TRP LYS ALA ASP SER SER SEQRES 13 L 216 PRO VAL LYS ALA GLY VAL GLU THR THR THR PRO SER LYS SEQRES 14 L 216 GLN SER ASN ASN LYS TYR ALA ALA SER SER TYR LEU SER SEQRES 15 L 216 LEU THR PRO GLU GLN TRP LYS SER HIS ARG SER TYR SER SEQRES 16 L 216 CYS GLN VAL THR HIS GLU GLY SER THR VAL GLU LYS THR SEQRES 17 L 216 VAL ALA PRO THR GLU CYS SER TYR SEQRES 1 P 36 LYS LYS LYS LYS ASP LYS TRP ALA SER LEU TRP ASN TRP SEQRES 2 P 36 PHE ASN ILE THR ASN TRP LEU TRP TYR ILE LYS LEU PHE SEQRES 3 P 36 ILE MET ILE VAL GLY LYS LYS LYS LYS LYS HET PO4 H 301 5 HET PO4 H 302 5 HET PO4 L 301 5 HET PO4 L 302 5 HET PO4 L 303 5 HET PO4 L 304 5 HET PO4 L 305 5 HETNAM PO4 PHOSPHATE ION FORMUL 4 PO4 7(O4 P 3-) FORMUL 11 HOH *132(H2 O) HELIX 1 AA1 ALA H 61 GLU H 64 5 4 HELIX 2 AA2 ARG H 83 SER H 87 5 5 HELIX 3 AA3 SER H 156 ALA H 158 5 3 HELIX 4 AA4 SER H 187 LEU H 189 5 3 HELIX 5 AA5 LYS H 201 ASN H 204 5 4 HELIX 6 AA6 ASP L 26 SER L 30 5 5 HELIX 7 AA7 GLN L 79 ASP L 83 5 5 HELIX 8 AA8 SER L 122 ALA L 128 1 7 HELIX 9 AA9 THR L 182 HIS L 189 1 8 HELIX 10 AB1 ASN P 671 VAL P 689 1 19 SHEET 1 AA1 4 GLN H 3 SER H 7 0 SHEET 2 AA1 4 LEU H 18 SER H 25 -1 O SER H 25 N GLN H 3 SHEET 3 AA1 4 PHE H 77 MET H 82 -1 O LEU H 78 N CYS H 22 SHEET 4 AA1 4 PHE H 67 LEU H 72 -1 N SER H 70 O TYR H 79 SHEET 1 AA2 6 LEU H 11 VAL H 12 0 SHEET 2 AA2 6 THR H 107 VAL H 111 1 O THR H 110 N VAL H 12 SHEET 3 AA2 6 GLY H 88 TYR H 98 -1 N GLY H 88 O VAL H 109 SHEET 4 AA2 6 TRP H 33 GLN H 39 -1 N VAL H 37 O PHE H 91 SHEET 5 AA2 6 GLU H 46 ILE H 51 -1 O GLY H 49 N TRP H 36 SHEET 6 AA2 6 VAL H 57 TYR H 59 -1 O ASP H 58 N ARG H 50 SHEET 1 AA3 4 LEU H 11 VAL H 12 0 SHEET 2 AA3 4 THR H 107 VAL H 111 1 O THR H 110 N VAL H 12 SHEET 3 AA3 4 GLY H 88 TYR H 98 -1 N GLY H 88 O VAL H 109 SHEET 4 AA3 4 GLU H 100I TRP H 103 -1 O GLU H 100I N TYR H 98 SHEET 1 AA4 4 SER H 120 SER H 127 0 SHEET 2 AA4 4 THR H 135 TYR H 145 -1 O GLY H 139 N LEU H 124 SHEET 3 AA4 4 TYR H 176 PRO H 185 -1 O LEU H 178 N VAL H 142 SHEET 4 AA4 4 VAL H 163 THR H 165 -1 N HIS H 164 O VAL H 181 SHEET 1 AA5 4 SER H 120 SER H 127 0 SHEET 2 AA5 4 THR H 135 TYR H 145 -1 O GLY H 139 N LEU H 124 SHEET 3 AA5 4 TYR H 176 PRO H 185 -1 O LEU H 178 N VAL H 142 SHEET 4 AA5 4 VAL H 169 LEU H 170 -1 N VAL H 169 O SER H 177 SHEET 1 AA6 3 THR H 151 TRP H 154 0 SHEET 2 AA6 3 ILE H 195 HIS H 200 -1 O ASN H 197 N SER H 153 SHEET 3 AA6 3 THR H 205 ARG H 210 -1 O VAL H 207 N VAL H 198 SHEET 1 AA7 4 THR L 5 GLN L 6 0 SHEET 2 AA7 4 THR L 18 ARG L 24 -1 O ARG L 24 N THR L 5 SHEET 3 AA7 4 ARG L 70 SER L 76 -1 O ILE L 75 N VAL L 19 SHEET 4 AA7 4 PHE L 62 SER L 67 -1 N SER L 63 O THR L 74 SHEET 1 AA8 5 GLY L 9 VAL L 13 0 SHEET 2 AA8 5 THR L 102 VAL L 106 1 O THR L 105 N VAL L 11 SHEET 3 AA8 5 ALA L 84 SER L 90 -1 N ALA L 84 O LEU L 104 SHEET 4 AA8 5 SER L 34 LYS L 38 -1 N SER L 34 O SER L 89 SHEET 5 AA8 5 ILE L 45 PHE L 48 -1 O LEU L 47 N TRP L 35 SHEET 1 AA9 4 GLY L 9 VAL L 13 0 SHEET 2 AA9 4 THR L 102 VAL L 106 1 O THR L 105 N VAL L 11 SHEET 3 AA9 4 ALA L 84 SER L 90 -1 N ALA L 84 O LEU L 104 SHEET 4 AA9 4 VAL L 97 PHE L 98 -1 O VAL L 97 N SER L 90 SHEET 1 AB1 4 SER L 115 PHE L 119 0 SHEET 2 AB1 4 ALA L 131 PHE L 140 -1 O LEU L 136 N THR L 117 SHEET 3 AB1 4 TYR L 173 LEU L 181 -1 O LEU L 181 N ALA L 131 SHEET 4 AB1 4 VAL L 160 THR L 162 -1 N GLU L 161 O TYR L 178 SHEET 1 AB2 4 SER L 115 PHE L 119 0 SHEET 2 AB2 4 ALA L 131 PHE L 140 -1 O LEU L 136 N THR L 117 SHEET 3 AB2 4 TYR L 173 LEU L 181 -1 O LEU L 181 N ALA L 131 SHEET 4 AB2 4 SER L 166 LYS L 167 -1 N SER L 166 O ALA L 174 SHEET 1 AB3 4 SER L 154 VAL L 156 0 SHEET 2 AB3 4 THR L 146 ALA L 151 -1 N ALA L 151 O SER L 154 SHEET 3 AB3 4 TYR L 192 HIS L 198 -1 O GLN L 195 N ALA L 148 SHEET 4 AB3 4 SER L 201 VAL L 207 -1 O SER L 201 N HIS L 198 SSBOND 1 CYS H 22 CYS H 92 1555 1555 2.03 SSBOND 2 CYS H 140 CYS H 196 1555 1555 2.06 SSBOND 3 CYS L 23 CYS L 88 1555 1555 2.06 SSBOND 4 CYS L 135 CYS L 194 1555 1555 2.05 CISPEP 1 PRO H 100F PRO H 100G 0 -1.47 CISPEP 2 PHE H 146 PRO H 147 0 -8.08 CISPEP 3 GLU H 148 PRO H 149 0 4.74 CISPEP 4 TYR L 141 PRO L 142 0 -1.58 SITE 1 AC1 7 LYS H 117 SER H 132 GLY H 133 ASP H 144 SITE 2 AC1 7 HOH H 401 HOH H 439 LYS L 130 SITE 1 AC2 3 THR H 116 SER H 128 LYS H 129 SITE 1 AC3 7 ASP L 83 LYS L 103 THR L 105 TYR L 141 SITE 2 AC3 7 LYS L 167 TYR L 173 HOH L 421 SITE 1 AC4 7 ALA H 125 LYS H 214 SER L 122 SER L 123 SITE 2 AC4 7 GLU L 124 HOH L 411 HOH L 414 SITE 1 AC5 5 LEU L 28 ARG L 29 SER L 30 HIS L 31 SITE 2 AC5 5 ALA L 66 SITE 1 AC6 5 SER H 130 SER L 115 VAL L 116 LYS L 205 SITE 2 AC6 5 HOH L 401 SITE 1 AC7 6 LYS H 206 LYS L 150 ASP L 152 SER L 193 SITE 2 AC7 6 GLU L 204 THR L 206 CRYST1 66.633 81.231 254.216 90.00 90.00 90.00 I 2 2 2 8 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 0.015007 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012310 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003934 0.00000