HEADER VIRAL PROTEIN/IMMUNE SYSTEM 11-MAR-20 6W4M TITLE CRYSTAL STRUCTURE OF THE ADCC-POTENT, WEAKLY NEUTRALIZING HIV ENV CO- TITLE 2 RECEPTOR BINDING SITE ANTIBODY N12-I2 FAB IN COMPLEX WITH HIV-1 CLADE TITLE 3 A/E GP120 AND M48U1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: CLADE A/E 93TH057 HIV-1 GP120 CORE; COMPND 3 CHAIN: G; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: ANTI-HIV ANTIBODY N12-I2 FAB LIGHT CHAIN; COMPND 8 CHAIN: L; COMPND 9 ENGINEERED: YES; COMPND 10 MOL_ID: 3; COMPND 11 MOLECULE: ANTI-HIV ANTIBODY N12-I2 FAB HEAVY CHAIN; COMPND 12 CHAIN: H; COMPND 13 ENGINEERED: YES; COMPND 14 MOL_ID: 4; COMPND 15 MOLECULE: M48U1 CD4 MIMETIC PEPTIDE; COMPND 16 CHAIN: N; COMPND 17 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HUMAN IMMUNODEFICIENCY VIRUS 1; SOURCE 3 ORGANISM_TAXID: 11676; SOURCE 4 GENE: HIV-1 ENV; SOURCE 5 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 6 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 8 EXPRESSION_SYSTEM_CELL: HEK 293 GNT1-; SOURCE 9 MOL_ID: 2; SOURCE 10 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_COMMON: HUMAN; SOURCE 12 ORGANISM_TAXID: 9606; SOURCE 13 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 14 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 16 EXPRESSION_SYSTEM_CELL: HEK 293; SOURCE 17 MOL_ID: 3; SOURCE 18 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 19 ORGANISM_COMMON: HUMAN; SOURCE 20 ORGANISM_TAXID: 9606; SOURCE 21 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 22 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 23 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 24 EXPRESSION_SYSTEM_CELL: HEK 293; SOURCE 25 MOL_ID: 4; SOURCE 26 SYNTHETIC: YES; SOURCE 27 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 28 ORGANISM_TAXID: 32630 KEYWDS ADCC AND NEUTRALIZING ANTI-HIV-1 ENV ANTIBODY N12-I2, CD4I ANTIBODY, KEYWDS 2 FAB FRAGMENT, HIV-1 GP120, IMMUNE SYSTEM, CLADE A/E 93TH057, VIRAL KEYWDS 3 PROTEIN-IMMUNE SYSTEM COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR W.D.TOLBERT,N.GOHAIN,M.PAZGIER REVDAT 3 15-NOV-23 6W4M 1 REMARK REVDAT 2 18-OCT-23 6W4M 1 REMARK REVDAT 1 05-AUG-20 6W4M 0 SPRSDE 05-AUG-20 6W4M 5UWE JRNL AUTH W.D.TOLBERT,R.SHERBURN,N.GOHAIN,S.DING,R.FLINKO,C.ORLANDI, JRNL AUTH 2 K.RAY,A.FINZI,G.K.LEWIS,M.PAZGIER JRNL TITL DEFINING RULES GOVERNING RECOGNITION AND FC-MEDIATED JRNL TITL 2 EFFECTOR FUNCTIONS TO THE HIV-1 CO-RECEPTOR BINDING SITE. JRNL REF BMC BIOL. V. 18 91 2020 JRNL REFN ESSN 1741-7007 JRNL PMID 32693837 JRNL DOI 10.1186/S12915-020-00819-Y REMARK 2 REMARK 2 RESOLUTION. 3.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.17.1_3660 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.34 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 88.5 REMARK 3 NUMBER OF REFLECTIONS : 12090 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.244 REMARK 3 R VALUE (WORKING SET) : 0.241 REMARK 3 FREE R VALUE : 0.301 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.060 REMARK 3 FREE R VALUE TEST SET COUNT : 612 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 42.3400 - 5.0700 0.95 3228 165 0.2303 0.3029 REMARK 3 2 5.0700 - 4.0300 0.97 3137 156 0.2275 0.2843 REMARK 3 3 4.0300 - 3.5200 0.96 3058 165 0.2745 0.3142 REMARK 3 4 3.5200 - 3.2000 0.65 2055 126 0.2672 0.3164 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.420 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 30.650 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.003 6452 REMARK 3 ANGLE : 0.686 8759 REMARK 3 CHIRALITY : 0.047 1013 REMARK 3 PLANARITY : 0.005 1112 REMARK 3 DIHEDRAL : 16.199 924 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN 'G' AND RESID 47 THROUGH 492) REMARK 3 ORIGIN FOR THE GROUP (A): -1.6087 23.9538 -32.6751 REMARK 3 T TENSOR REMARK 3 T11: 0.3903 T22: 0.3956 REMARK 3 T33: 0.6509 T12: 0.0391 REMARK 3 T13: -0.0012 T23: 0.0404 REMARK 3 L TENSOR REMARK 3 L11: 2.6353 L22: 2.5678 REMARK 3 L33: 4.9917 L12: -0.9643 REMARK 3 L13: -0.9743 L23: -0.7475 REMARK 3 S TENSOR REMARK 3 S11: -0.2061 S12: -0.2032 S13: -0.2369 REMARK 3 S21: 0.3285 S22: 0.1952 S23: 0.4927 REMARK 3 S31: 0.1664 S32: -0.3988 S33: 0.0903 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN 'L' AND RESID 1 THROUGH 212) REMARK 3 ORIGIN FOR THE GROUP (A): 34.0901 18.8914 -88.2093 REMARK 3 T TENSOR REMARK 3 T11: 0.7248 T22: 0.5004 REMARK 3 T33: 0.6395 T12: -0.0222 REMARK 3 T13: 0.0972 T23: -0.0969 REMARK 3 L TENSOR REMARK 3 L11: 3.1621 L22: 4.0718 REMARK 3 L33: 2.7636 L12: 1.4032 REMARK 3 L13: -1.7122 L23: -0.7906 REMARK 3 S TENSOR REMARK 3 S11: -0.4662 S12: 0.5654 S13: -0.4140 REMARK 3 S21: -1.0493 S22: 0.2176 S23: -0.5350 REMARK 3 S31: 0.5201 S32: -0.0765 S33: 0.1493 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN 'H' AND RESID 2 THROUGH 216) REMARK 3 ORIGIN FOR THE GROUP (A): 31.5543 32.0481 -76.1671 REMARK 3 T TENSOR REMARK 3 T11: 0.5865 T22: 0.4412 REMARK 3 T33: 0.5606 T12: -0.0448 REMARK 3 T13: -0.0175 T23: -0.0690 REMARK 3 L TENSOR REMARK 3 L11: 2.5581 L22: 2.7433 REMARK 3 L33: 3.3596 L12: 1.6545 REMARK 3 L13: -2.0094 L23: -2.3233 REMARK 3 S TENSOR REMARK 3 S11: -0.0290 S12: 0.0108 S13: 0.2065 REMARK 3 S21: -0.2410 S22: 0.1399 S23: 0.2014 REMARK 3 S31: 0.0087 S32: 0.0664 S33: -0.0946 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN 'N' AND RESID 1 THROUGH 27) REMARK 3 ORIGIN FOR THE GROUP (A): 20.5027 20.4641 -33.7932 REMARK 3 T TENSOR REMARK 3 T11: 0.8465 T22: 1.0765 REMARK 3 T33: 0.9987 T12: 0.1209 REMARK 3 T13: -0.0182 T23: -0.0127 REMARK 3 L TENSOR REMARK 3 L11: 0.0602 L22: -0.1427 REMARK 3 L33: -0.1024 L12: 0.0478 REMARK 3 L13: 0.1016 L23: 0.0212 REMARK 3 S TENSOR REMARK 3 S11: 0.2767 S12: -0.3250 S13: -1.1054 REMARK 3 S21: -0.5685 S22: 0.0214 S23: -1.0258 REMARK 3 S31: 1.0839 S32: 1.4963 S33: -0.0000 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6W4M COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-MAR-20. REMARK 100 THE DEPOSITION ID IS D_1000247619. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-JAN-16; 06-JAN-16 REMARK 200 TEMPERATURE (KELVIN) : 100; 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y; Y REMARK 200 RADIATION SOURCE : SSRL; SSRL REMARK 200 BEAMLINE : BL12-2; BL14-1 REMARK 200 X-RAY GENERATOR MODEL : NULL; NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M; M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97946; 0.97946 REMARK 200 MONOCHROMATOR : SI (111); SI (111) REMARK 200 OPTICS : NULL; NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL; CCD REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M; MARMOSAIC REMARK 200 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 12129 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.200 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 88.5 REMARK 200 DATA REDUNDANCY : 4.300 REMARK 200 R MERGE (I) : 0.32100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 6.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.26 REMARK 200 COMPLETENESS FOR SHELL (%) : 66.9 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.52100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH; SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 5UWE REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.45 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.14 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 15% PEG 6000 5% MPD 0.1 M MES PH 6.5, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 294K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z 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 26.34350 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 106.73400 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 34.76100 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 106.73400 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 26.34350 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 34.76100 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6530 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 35810 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -37.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: G, L, H, N 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 VAL G 44 REMARK 465 TRP G 45 REMARK 465 LYS G 46 REMARK 465 GLY G 319 REMARK 465 SER G 320 REMARK 465 GLY G 321 REMARK 465 SER G 322 REMARK 465 GLY G 323 REMARK 465 GLY G 403 REMARK 465 ASN G 404 REMARK 465 GLU G 405 REMARK 465 GLY G 459 REMARK 465 ALA G 460 REMARK 465 ASN G 461 REMARK 465 ASN G 462 REMARK 465 GLU L 213 REMARK 465 CYS L 214 REMARK 465 GLN H 1 REMARK 465 SER H 127 REMARK 465 SER H 128 REMARK 465 LYS H 129 REMARK 465 SER H 130 REMARK 465 THR H 131 REMARK 465 SER H 132 REMARK 465 GLY H 133 REMARK 465 GLY H 134 REMARK 465 ASP H 217 REMARK 465 LYS H 218 REMARK 465 THR H 219 REMARK 465 HIS H 220 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 ASP G 57 27.21 -153.53 REMARK 500 ALA G 60 22.42 -78.77 REMARK 500 PRO G 79 -89.18 -56.26 REMARK 500 GLU G 83 74.15 -158.53 REMARK 500 LEU G 116 54.73 -119.71 REMARK 500 GLN G 203 -132.52 -154.64 REMARK 500 ASP G 211 110.41 -160.34 REMARK 500 LYS G 240 -70.33 -85.54 REMARK 500 ASN G 241 78.25 -65.96 REMARK 500 GLN G 246 -66.52 -91.19 REMARK 500 GLN G 258 -59.49 61.54 REMARK 500 GLU G 268 -71.45 -126.32 REMARK 500 ASN G 279 93.76 -68.82 REMARK 500 SER G 300 -136.15 -75.90 REMARK 500 LYS G 357 -133.50 -101.56 REMARK 500 PHE G 391 66.62 -108.39 REMARK 500 CYS G 395 50.21 -114.97 REMARK 500 LYS G 408 -134.02 -146.59 REMARK 500 CYS G 410 -118.59 -76.26 REMARK 500 ASN G 411 -58.08 58.07 REMARK 500 TYR G 435 -161.04 -115.49 REMARK 500 PRO G 438 -179.80 -66.15 REMARK 500 ILE G 449 97.82 -68.88 REMARK 500 SER G 464 -78.07 -79.78 REMARK 500 LYS G 487 146.92 -171.11 REMARK 500 VAL G 489 -147.51 -120.70 REMARK 500 SER L 29 96.19 -56.42 REMARK 500 PRO L 40 97.01 -51.22 REMARK 500 GLN L 42 -166.36 -126.88 REMARK 500 ALA L 51 -26.66 66.31 REMARK 500 GLU L 81 32.52 -99.21 REMARK 500 ARG L 108 -132.55 54.96 REMARK 500 SER L 127 -154.42 -104.82 REMARK 500 ASN L 138 74.75 49.76 REMARK 500 PRO L 141 -157.36 -87.04 REMARK 500 HIS L 189 -160.94 -113.61 REMARK 500 LYS L 190 -56.86 -152.73 REMARK 500 MET H 48 -73.87 -94.93 REMARK 500 ASP H 72 -153.26 -84.80 REMARK 500 SER H 82B 85.49 64.01 REMARK 500 PHE H 99 -119.74 56.10 REMARK 500 SER H 100 -94.60 49.46 REMARK 500 TYS H 100A -129.68 -179.74 REMARK 500 HIS H 100J 78.52 -114.67 REMARK 500 MET H 100O 64.02 63.36 REMARK 500 THR H 116 108.60 -58.91 REMARK 500 ASP H 144 85.89 57.51 REMARK 500 ASN H 155 58.94 15.40 REMARK 500 ASN H 204 83.12 -49.75 REMARK 500 LYS H 214 130.21 87.94 REMARK 500 REMARK 500 THIS ENTRY HAS 51 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 MPT N 1 -14.81 REMARK 500 REMARK 500 REMARK: NULL DBREF1 6W4M G 44 492 UNP A0A0M3KKW9_9HIV1 DBREF2 6W4M G A0A0M3KKW9 1 353 DBREF 6W4M L 1 214 PDB 6W4M 6W4M 1 214 DBREF 6W4M H 1 220 PDB 6W4M 6W4M 1 220 DBREF 6W4M N 1 28 PDB 6W4M 6W4M 1 28 SEQADV 6W4M SER G 375 UNP A0A0M3KKW HIS 242 ENGINEERED MUTATION SEQRES 1 G 353 VAL TRP LYS ASP ALA ASP THR THR LEU PHE CYS ALA SER SEQRES 2 G 353 ASP ALA LYS ALA HIS GLU THR GLU VAL HIS ASN VAL TRP SEQRES 3 G 353 ALA THR HIS ALA CYS VAL PRO THR ASP PRO ASN PRO GLN SEQRES 4 G 353 GLU ILE HIS LEU GLU ASN VAL THR GLU ASN PHE ASN MET SEQRES 5 G 353 TRP LYS ASN ASN MET VAL GLU GLN MET GLN GLU ASP VAL SEQRES 6 G 353 ILE SER LEU TRP ASP GLN SER LEU GLN PRO CYS VAL LYS SEQRES 7 G 353 LEU THR GLY GLY SER VAL ILE LYS GLN ALA CYS PRO LYS SEQRES 8 G 353 ILE SER PHE ASP PRO ILE PRO ILE HIS TYR CYS THR PRO SEQRES 9 G 353 ALA GLY TYR VAL ILE LEU LYS CYS ASN ASP LYS ASN PHE SEQRES 10 G 353 ASN GLY THR GLY PRO CYS LYS ASN VAL SER SER VAL GLN SEQRES 11 G 353 CYS THR HIS GLY ILE LYS PRO VAL VAL SER THR GLN LEU SEQRES 12 G 353 LEU LEU ASN GLY SER LEU ALA GLU GLU GLU ILE ILE ILE SEQRES 13 G 353 ARG SER GLU ASN LEU THR ASN ASN ALA LYS THR ILE ILE SEQRES 14 G 353 VAL HIS LEU ASN LYS SER VAL GLU ILE ASN CYS THR ARG SEQRES 15 G 353 PRO SER ASN GLY GLY SER GLY SER GLY GLY ASP ILE ARG SEQRES 16 G 353 LYS ALA TYR CYS GLU ILE ASN GLY THR LYS TRP ASN LYS SEQRES 17 G 353 VAL LEU LYS GLN VAL THR GLU LYS LEU LYS GLU HIS PHE SEQRES 18 G 353 ASN ASN LYS THR ILE ILE PHE GLN PRO PRO SER GLY GLY SEQRES 19 G 353 ASP LEU GLU ILE THR MET HIS SER PHE ASN CYS ARG GLY SEQRES 20 G 353 GLU PHE PHE TYR CYS ASN THR THR GLN LEU PHE ASN ASN SEQRES 21 G 353 THR CYS ILE GLY ASN GLU THR MET LYS GLY CYS ASN GLY SEQRES 22 G 353 THR ILE THR LEU PRO CYS LYS ILE LYS GLN ILE ILE ASN SEQRES 23 G 353 MET TRP GLN GLY THR GLY GLN ALA MET TYR ALA PRO PRO SEQRES 24 G 353 ILE ASP GLY LYS ILE ASN CYS VAL SER ASN ILE THR GLY SEQRES 25 G 353 ILE LEU LEU THR ARG ASP GLY GLY ALA ASN ASN THR SER SEQRES 26 G 353 ASN GLU THR PHE ARG PRO GLY GLY GLY ASN ILE LYS ASP SEQRES 27 G 353 ASN TRP ARG SER GLU LEU TYR LYS TYR LYS VAL VAL GLN SEQRES 28 G 353 ILE GLU SEQRES 1 L 215 GLU ILE VAL MET MET GLN SER PRO GLY THR LEU SER LEU SEQRES 2 L 215 SER PRO GLY GLU ARG ALA THR LEU SER CYS ARG ALA SER SEQRES 3 L 215 GLN SER VAL SER SER SER TYR LEU ALA TRP TYR GLN GLN SEQRES 4 L 215 LYS PRO GLY GLN ALA PRO ARG LEU LEU ILE TYR GLY ALA SEQRES 5 L 215 SER SER ARG ALA THR GLY ILE PRO ASP ARG PHE SER GLY SEQRES 6 L 215 SER GLY SER GLY THR ASP PHE THR LEU THR ILE SER ARG SEQRES 7 L 215 LEU GLU PRO GLU ASP PHE ALA VAL TYR TYR CYS GLN GLN SEQRES 8 L 215 TYR GLY SER SER PRO GLU THR PHE GLY GLN GLY THR LYS SEQRES 9 L 215 VAL GLU ILE LYS ARG THR VAL ALA ALA PRO SER VAL PHE SEQRES 10 L 215 ILE PHE PRO PRO SER ASP GLU GLN LEU LYS SER GLY THR SEQRES 11 L 215 ALA SER VAL VAL CYS LEU LEU ASN ASN PHE TYR PRO ARG SEQRES 12 L 215 GLU ALA LYS VAL GLN TRP LYS VAL ASP ASN ALA LEU GLN SEQRES 13 L 215 SER GLY ASN SER GLN GLU SER VAL THR GLU GLN ASP SER SEQRES 14 L 215 LYS ASP SER THR TYR SER LEU SER SER THR LEU THR LEU SEQRES 15 L 215 SER LYS ALA ASP TYR GLU LYS HIS LYS VAL TYR ALA CYS SEQRES 16 L 215 GLU VAL THR HIS GLN GLY LEU SER SER PRO VAL THR LYS SEQRES 17 L 215 SER PHE ASN ARG GLY GLU CYS SEQRES 1 H 239 GLN VAL GLN LEU VAL GLN SER GLY ALA GLU VAL LYS LYS SEQRES 2 H 239 PRO GLY SER SER VAL LYS VAL SER CYS ARG ALA SER ARG SEQRES 3 H 239 GLY THR PHE SER SER TYR GLY ILE THR TRP VAL ARG GLN SEQRES 4 H 239 ALA PRO GLY GLN GLY LEU GLU TRP MET GLY GLY ILE ILE SEQRES 5 H 239 PRO ILE PHE ASP VAL THR ASN TYR ALA GLN ASN PHE GLN SEQRES 6 H 239 GLY ARG VAL ALA ILE THR THR ASP ALA GLU MET SER THR SEQRES 7 H 239 ALA TYR MET GLU LEU ARG SER LEU LYS SER GLU ASP SER SEQRES 8 H 239 ALA VAL TYR TYR CYS ALA SER ASP SER ARG ASP PHE SER SEQRES 9 H 239 TYS TYS GLU PRO GLY THR SER TYR SER HIS TYR TYR ASN SEQRES 10 H 239 ILE MET ASP VAL TRP GLY GLN GLY THR THR VAL THR VAL SEQRES 11 H 239 SER SER ALA SER THR LYS GLY PRO SER VAL PHE PRO LEU SEQRES 12 H 239 ALA PRO SER SER LYS SER THR SER GLY GLY THR ALA ALA SEQRES 13 H 239 LEU GLY CYS LEU VAL LYS ASP TYR PHE PRO GLU PRO VAL SEQRES 14 H 239 THR VAL SER TRP ASN SER GLY ALA LEU THR SER GLY VAL SEQRES 15 H 239 HIS THR PHE PRO ALA VAL LEU GLN SER SER GLY LEU TYR SEQRES 16 H 239 SER LEU SER SER VAL VAL THR VAL PRO SER SER SER LEU SEQRES 17 H 239 GLY THR GLN THR TYR ILE CYS ASN VAL ASN HIS LYS PRO SEQRES 18 H 239 SER ASN THR LYS VAL ASP LYS ARG VAL GLU PRO LYS SER SEQRES 19 H 239 CYS ASP LYS THR HIS SEQRES 1 N 28 MPT ASN LEU HIS PHE CYS GLN LEU ARG CYS LYS SER LEU SEQRES 2 N 28 GLY LEU LEU GLY ARG CYS ALA DPR THR U2X CYS ALA CYS SEQRES 3 N 28 VAL NH2 HET TYS H 100A 16 HET TYS H 100B 16 HET MPT N 1 5 HET DPR N 21 7 HET U2X N 23 19 HET NH2 N 28 1 HET NAG G 501 14 HET NAG G 502 14 HET NAG G 503 14 HET NAG G 504 14 HET NAG G 505 14 HET NAG G 506 14 HET NAG G 507 14 HET NAG G 508 14 HET NAG G 509 14 HETNAM TYS O-SULFO-L-TYROSINE HETNAM MPT BETA-MERCAPTOPROPIONIC ACID HETNAM DPR D-PROLINE HETNAM U2X O-(CYCLOHEXYLMETHYL)-L-TYROSINE HETNAM NH2 AMINO GROUP HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE FORMUL 3 TYS 2(C9 H11 N O6 S) FORMUL 4 MPT C3 H6 O2 S FORMUL 4 DPR C5 H9 N O2 FORMUL 4 U2X C16 H23 N O3 FORMUL 4 NH2 H2 N FORMUL 5 NAG 9(C8 H15 N O6) HELIX 1 AA1 HIS G 66 CYS G 74 1 9 HELIX 2 AA2 ASN G 98 LEU G 116 1 19 HELIX 3 AA3 ASN G 334 PHE G 353 1 20 HELIX 4 AA4 ASP G 368 MET G 373 1 6 HELIX 5 AA5 ASN G 392 ILE G 396 5 5 HELIX 6 AA6 ILE G 475 SER G 481 1 7 HELIX 7 AA7 SER L 121 LYS L 126 1 6 HELIX 8 AA8 LYS L 183 GLU L 187 1 5 HELIX 9 AA9 LYS H 83 SER H 87 5 5 HELIX 10 AB1 PRO H 185 LEU H 189 5 5 HELIX 11 AB2 ASN N 2 LYS N 11 1 10 SHEET 1 AA1 2 CYS G 54 ALA G 55 0 SHEET 2 AA1 2 HIS G 216 TYR G 217 -1 O HIS G 216 N ALA G 55 SHEET 1 AA2 4 ILE G 84 HIS G 85 0 SHEET 2 AA2 4 VAL G 242 VAL G 245 -1 O SER G 244 N ILE G 84 SHEET 3 AA2 4 ILE G 225 CYS G 228 -1 N ILE G 225 O VAL G 245 SHEET 4 AA2 4 TYR G 486 VAL G 488 -1 O LYS G 487 N LEU G 226 SHEET 1 AA3 2 GLU G 91 ASN G 94 0 SHEET 2 AA3 2 THR G 236 CYS G 239 -1 O GLY G 237 N PHE G 93 SHEET 1 AA4 4 ILE G 201 LYS G 202 0 SHEET 2 AA4 4 VAL G 120 LEU G 122 -1 N LYS G 121 O ILE G 201 SHEET 3 AA4 4 GLN G 432 MET G 434 -1 O GLN G 432 N LEU G 122 SHEET 4 AA4 4 ILE G 423 ASN G 425 -1 N ILE G 424 O ALA G 433 SHEET 1 AA5 5 LEU G 259 LEU G 261 0 SHEET 2 AA5 5 ILE G 443 ARG G 456 -1 O THR G 450 N LEU G 260 SHEET 3 AA5 5 ILE G 284 ARG G 298 -1 N ILE G 284 O LEU G 454 SHEET 4 AA5 5 THR G 467 PRO G 470 0 SHEET 5 AA5 5 ILE G 360 PHE G 361 1 N ILE G 360 O PHE G 468 SHEET 1 AA6 7 ILE G 271 ARG G 273 0 SHEET 2 AA6 7 ILE G 284 ARG G 298 -1 O ILE G 285 N ARG G 273 SHEET 3 AA6 7 ILE G 443 ARG G 456 -1 O LEU G 454 N ILE G 284 SHEET 4 AA6 7 LYS G 328 ILE G 333 0 SHEET 5 AA6 7 ILE G 414 ILE G 420 -1 O CYS G 418 N ALA G 329 SHEET 6 AA6 7 GLU G 381 CYS G 385 -1 N TYR G 384 O LYS G 419 SHEET 7 AA6 7 HIS G 374 CYS G 378 -1 N HIS G 374 O CYS G 385 SHEET 1 AA7 4 MET L 4 SER L 7 0 SHEET 2 AA7 4 ALA L 19 ALA L 25 -1 O ARG L 24 N MET L 5 SHEET 3 AA7 4 ASP L 70 ILE L 75 -1 O LEU L 73 N LEU L 21 SHEET 4 AA7 4 PHE L 62 SER L 67 -1 N SER L 63 O THR L 74 SHEET 1 AA8 6 THR L 10 LEU L 13 0 SHEET 2 AA8 6 THR L 102 ILE L 106 1 O LYS L 103 N LEU L 11 SHEET 3 AA8 6 VAL L 85 GLN L 90 -1 N TYR L 86 O THR L 102 SHEET 4 AA8 6 LEU L 33 GLN L 38 -1 N TYR L 36 O TYR L 87 SHEET 5 AA8 6 ARG L 45 TYR L 49 -1 O LEU L 47 N TRP L 35 SHEET 6 AA8 6 SER L 53 ARG L 54 -1 O SER L 53 N TYR L 49 SHEET 1 AA9 4 SER L 114 PHE L 118 0 SHEET 2 AA9 4 THR L 129 PHE L 139 -1 O LEU L 135 N PHE L 116 SHEET 3 AA9 4 TYR L 173 SER L 182 -1 O LEU L 181 N ALA L 130 SHEET 4 AA9 4 SER L 159 VAL L 163 -1 N SER L 162 O SER L 176 SHEET 1 AB1 4 ALA L 153 LEU L 154 0 SHEET 2 AB1 4 LYS L 145 VAL L 150 -1 N VAL L 150 O ALA L 153 SHEET 3 AB1 4 VAL L 191 THR L 197 -1 O ALA L 193 N LYS L 149 SHEET 4 AB1 4 VAL L 205 ASN L 210 -1 O VAL L 205 N VAL L 196 SHEET 1 AB2 4 LEU H 4 GLN H 6 0 SHEET 2 AB2 4 SER H 17 ALA H 24 -1 O ARG H 23 N VAL H 5 SHEET 3 AB2 4 THR H 77 ARG H 82A-1 O LEU H 82 N VAL H 18 SHEET 4 AB2 4 VAL H 67 THR H 71 -1 N ALA H 68 O GLU H 81 SHEET 1 AB3 6 GLU H 10 LYS H 12 0 SHEET 2 AB3 6 THR H 107 VAL H 111 1 O THR H 110 N LYS H 12 SHEET 3 AB3 6 ALA H 88 SER H 94 -1 N ALA H 88 O VAL H 109 SHEET 4 AB3 6 ILE H 34 GLN H 39 -1 N VAL H 37 O TYR H 91 SHEET 5 AB3 6 LEU H 45 ILE H 52 -1 O GLY H 49 N TRP H 36 SHEET 6 AB3 6 VAL H 56 TYR H 59 -1 O VAL H 56 N ILE H 52 SHEET 1 AB4 4 GLU H 10 LYS H 12 0 SHEET 2 AB4 4 THR H 107 VAL H 111 1 O THR H 110 N LYS H 12 SHEET 3 AB4 4 ALA H 88 SER H 94 -1 N ALA H 88 O VAL H 109 SHEET 4 AB4 4 VAL H 102 TRP H 103 -1 O VAL H 102 N SER H 94 SHEET 1 AB5 4 SER H 120 LEU H 124 0 SHEET 2 AB5 4 ALA H 136 TYR H 145 -1 O GLY H 139 N LEU H 124 SHEET 3 AB5 4 TYR H 176 VAL H 184 -1 O SER H 180 N CYS H 140 SHEET 4 AB5 4 VAL H 163 THR H 165 -1 N HIS H 164 O VAL H 181 SHEET 1 AB6 3 THR H 151 TRP H 154 0 SHEET 2 AB6 3 TYR H 194 HIS H 200 -1 O ASN H 197 N SER H 153 SHEET 3 AB6 3 THR H 205 VAL H 211 -1 O THR H 205 N HIS H 200 SHEET 1 AB7 2 LEU N 16 ALA N 20 0 SHEET 2 AB7 2 U2X N 23 VAL N 27 -1 O VAL N 27 N LEU N 16 SSBOND 1 CYS G 54 CYS G 74 1555 1555 2.03 SSBOND 2 CYS G 119 CYS G 205 1555 1555 2.03 SSBOND 3 CYS G 218 CYS G 247 1555 1555 2.03 SSBOND 4 CYS G 228 CYS G 239 1555 1555 2.03 SSBOND 5 CYS G 296 CYS G 331 1555 1555 2.03 SSBOND 6 CYS G 378 CYS G 445 1555 1555 2.03 SSBOND 7 CYS G 385 CYS G 418 1555 1555 2.03 SSBOND 8 CYS G 395 CYS G 410 1555 1555 2.03 SSBOND 9 CYS L 23 CYS L 88 1555 1555 2.04 SSBOND 10 CYS L 134 CYS L 194 1555 1555 2.04 SSBOND 11 CYS H 22 CYS H 92 1555 1555 2.03 SSBOND 12 CYS H 140 CYS H 196 1555 1555 2.03 SSBOND 13 CYS N 6 CYS N 24 1555 1555 2.04 SSBOND 14 CYS N 10 CYS N 26 1555 1555 2.03 LINK ND2 ASN G 234 C1 NAG G 501 1555 1555 1.44 LINK ND2 ASN G 241 C1 NAG G 502 1555 1555 1.44 LINK ND2 ASN G 262 C1 NAG G 503 1555 1555 1.44 LINK ND2 ASN G 276 C1 NAG G 504 1555 1555 1.44 LINK ND2 ASN G 289 C1 NAG G 505 1555 1555 1.45 LINK ND2 ASN G 295 C1 NAG G 506 1555 1555 1.44 LINK ND2 ASN G 334 C1 NAG G 507 1555 1555 1.44 LINK ND2 ASN G 386 C1 NAG G 508 1555 1555 1.43 LINK ND2 ASN G 392 C1 NAG G 509 1555 1555 1.44 LINK C SER H 100 N TYS H 100A 1555 1555 1.34 LINK C TYS H 100A N TYS H 100B 1555 1555 1.33 LINK C TYS H 100B N GLU H 100C 1555 1555 1.33 LINK C MPT N 1 N ASN N 2 1555 1555 1.43 LINK SG MPT N 1 SG CYS N 19 1555 1555 2.03 LINK C ALA N 20 N DPR N 21 1555 1555 1.35 LINK C DPR N 21 N THR N 22 1555 1555 1.33 LINK C THR N 22 N U2X N 23 1555 1555 1.34 LINK C U2X N 23 N CYS N 24 1555 1555 1.33 LINK C VAL N 27 N NH2 N 28 1555 1555 1.33 CISPEP 1 SER L 7 PRO L 8 0 -2.98 CISPEP 2 SER L 94 PRO L 95 0 7.42 CISPEP 3 TYR L 140 PRO L 141 0 4.96 CISPEP 4 PRO H 100D GLY H 100E 0 1.50 CISPEP 5 PHE H 146 PRO H 147 0 -5.49 CISPEP 6 GLU H 148 PRO H 149 0 9.98 CRYST1 52.687 69.522 213.468 90.00 90.00 90.00 P 21 21 21 4 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 0.018980 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014384 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004685 0.00000