HEADER VIRAL PROTEIN/TRANSCRIPTION INHIBITOR 23-FEB-12 4DVT TITLE CRYSTAL STRUCTURE OF CLADE A/E 93TH057 HIV-1 GP120 CORE IN COMPLEX TITLE 2 WITH AS-II-37 CAVEAT 4DVT NAG A 509 HAS WRONG CHIRALITY AT ATOM C1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: CLADE A/E 93TH057 HIV-1 GP120 CORE; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: 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_TAXID: 9606; SOURCE 7 EXPRESSION_SYSTEM_CELL_LINE: 293F; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PVRC8400 KEYWDS HIV-1 GP120, SMALL MOLECULE INHIBITOR, CD4 BINDING SITE, AS-II-37, KEYWDS 2 VIRAL PROTEIN-TRANSCRIPTION INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR Y.D.KWON,P.D.KWONG REVDAT 5 13-SEP-23 4DVT 1 HETSYN REVDAT 4 29-JUL-20 4DVT 1 CAVEAT COMPND REMARK HETNAM REVDAT 4 2 1 LINK SITE REVDAT 3 31-MAY-17 4DVT 1 COMPND REMARK DBREF REVDAT 2 19-MAR-14 4DVT 1 JRNL REVDAT 1 27-FEB-13 4DVT 0 JRNL AUTH Y.D.KWON,J.M.LALONDE,Y.YANG,M.A.ELBAN,A.SUGAWARA, JRNL AUTH 2 J.R.COURTER,D.M.JONES,A.B.SMITH,A.K.DEBNATH,P.D.KWONG JRNL TITL CRYSTAL STRUCTURES OF HIV-1 GP120 ENVELOPE GLYCOPROTEIN IN JRNL TITL 2 COMPLEX WITH NBD ANALOGUES THAT TARGET THE CD4-BINDING SITE. JRNL REF PLOS ONE V. 9 85940 2014 JRNL REFN ESSN 1932-6203 JRNL PMID 24489681 JRNL DOI 10.1371/JOURNAL.PONE.0085940 REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.8_1069 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.19 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.420 REMARK 3 COMPLETENESS FOR RANGE (%) : 87.2 REMARK 3 NUMBER OF REFLECTIONS : 27089 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.199 REMARK 3 R VALUE (WORKING SET) : 0.196 REMARK 3 FREE R VALUE : 0.248 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.830 REMARK 3 FREE R VALUE TEST SET COUNT : 1309 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 28.1935 - 5.0535 0.99 3337 172 0.1751 0.2114 REMARK 3 2 5.0535 - 4.0148 0.99 3272 173 0.1640 0.2151 REMARK 3 3 4.0148 - 3.5084 1.00 3262 185 0.1833 0.2274 REMARK 3 4 3.5084 - 3.1881 0.99 3286 143 0.2101 0.2957 REMARK 3 5 3.1881 - 2.9599 0.98 3169 168 0.2316 0.3014 REMARK 3 6 2.9599 - 2.7855 0.97 3180 174 0.2469 0.3047 REMARK 3 7 2.7855 - 2.6461 0.91 2970 143 0.2566 0.3078 REMARK 3 8 2.6461 - 2.5310 0.73 2344 126 0.2695 0.3635 REMARK 3 9 2.5310 - 2.4336 0.29 960 25 0.2812 0.3214 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL 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) : 0.330 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 30.270 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 45.16 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 65.43 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 7.06510 REMARK 3 B22 (A**2) : -2.66380 REMARK 3 B33 (A**2) : -4.40140 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -6.07230 REMARK 3 B23 (A**2) : 0.00000 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 : 0.001 5846 REMARK 3 ANGLE : 0.402 7932 REMARK 3 CHIRALITY : 0.026 922 REMARK 3 PLANARITY : 0.001 982 REMARK 3 DIHEDRAL : 10.773 2202 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN A AND (RESID 1:252 OR RESID 474:492) REMARK 3 ORIGIN FOR THE GROUP (A): 17.8601 1.6135 39.2879 REMARK 3 T TENSOR REMARK 3 T11: 0.3245 T22: 0.3096 REMARK 3 T33: 0.4087 T12: -0.0184 REMARK 3 T13: 0.0247 T23: -0.0306 REMARK 3 L TENSOR REMARK 3 L11: 3.4524 L22: 4.3793 REMARK 3 L33: 3.0699 L12: -0.8995 REMARK 3 L13: 1.2796 L23: -1.0750 REMARK 3 S TENSOR REMARK 3 S11: -0.1466 S12: -0.0761 S13: 0.3585 REMARK 3 S21: 0.0681 S22: -0.0791 S23: -0.1123 REMARK 3 S31: -0.2766 S32: -0.1293 S33: 0.2109 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN A AND RESID 253:473 REMARK 3 ORIGIN FOR THE GROUP (A): 14.5312 -20.6371 40.7125 REMARK 3 T TENSOR REMARK 3 T11: 0.2693 T22: 0.2671 REMARK 3 T33: 0.3682 T12: 0.0047 REMARK 3 T13: 0.0411 T23: -0.0455 REMARK 3 L TENSOR REMARK 3 L11: 2.8606 L22: 2.5242 REMARK 3 L33: 4.6134 L12: -0.4657 REMARK 3 L13: 2.0680 L23: -0.4549 REMARK 3 S TENSOR REMARK 3 S11: 0.0677 S12: -0.1799 S13: -0.1641 REMARK 3 S21: -0.0381 S22: -0.0174 S23: -0.0672 REMARK 3 S31: 0.2595 S32: -0.1210 S33: -0.0562 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN B AND (RESID 1:252 OR RESID 474:492) REMARK 3 ORIGIN FOR THE GROUP (A): -12.5524 -17.2861 9.0779 REMARK 3 T TENSOR REMARK 3 T11: 0.6401 T22: 0.3678 REMARK 3 T33: 0.3812 T12: 0.0107 REMARK 3 T13: -0.0836 T23: 0.0679 REMARK 3 L TENSOR REMARK 3 L11: 5.1944 L22: 2.8434 REMARK 3 L33: 3.3658 L12: -1.1616 REMARK 3 L13: -0.4144 L23: -0.1288 REMARK 3 S TENSOR REMARK 3 S11: 0.0888 S12: 0.1166 S13: 0.2579 REMARK 3 S21: -0.3010 S22: 0.0245 S23: 0.2413 REMARK 3 S31: -0.0467 S32: -0.4980 S33: -0.1037 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN B AND RESID 253:473 REMARK 3 ORIGIN FOR THE GROUP (A): -11.0922 -39.5683 11.8538 REMARK 3 T TENSOR REMARK 3 T11: 0.9098 T22: 0.4120 REMARK 3 T33: 0.5478 T12: -0.1230 REMARK 3 T13: -0.1107 T23: 0.0693 REMARK 3 L TENSOR REMARK 3 L11: 5.4560 L22: 3.0481 REMARK 3 L33: 2.3672 L12: -1.4560 REMARK 3 L13: -0.7643 L23: 0.2971 REMARK 3 S TENSOR REMARK 3 S11: 0.0193 S12: -0.1377 S13: -0.7994 REMARK 3 S21: -0.3243 S22: 0.1026 S23: 0.6200 REMARK 3 S31: 0.7186 S32: -0.3509 S33: -0.0779 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 4DVT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 27-FEB-12. REMARK 100 THE DEPOSITION ID IS D_1000070845. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-JUN-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-BM REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 300 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27759 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.9 REMARK 200 DATA REDUNDANCY : 3.000 REMARK 200 R MERGE (I) : 0.07100 REMARK 200 R SYM (I) : 0.08500 REMARK 200 FOR THE DATA SET : 17.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.54 REMARK 200 COMPLETENESS FOR SHELL (%) : 60.0 REMARK 200 DATA REDUNDANCY IN SHELL : 1.80 REMARK 200 R MERGE FOR SHELL (I) : 0.43200 REMARK 200 R SYM FOR SHELL (I) : 0.48500 REMARK 200 FOR SHELL : 1.460 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASES REMARK 200 STARTING MODEL: 3TGT REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.73 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.66 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10% PEG 8000, 5% ISO-PROPANOL, 0.1M REMARK 280 HEPES, PH 7.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 34.20100 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 300 REMARK: MONOMER 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: B 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 A 318 REMARK 465 GLY A 319 REMARK 465 SER A 320 REMARK 465 GLY A 321 REMARK 465 SER A 322 REMARK 465 GLY A 323 REMARK 465 GLY A 403 REMARK 465 ASN A 404 REMARK 465 GLU A 405 REMARK 465 THR A 406 REMARK 465 MET A 407 REMARK 465 LYS A 408 REMARK 465 GLY A 409 REMARK 465 CYS A 410 REMARK 465 GLY B 318 REMARK 465 GLY B 319 REMARK 465 SER B 320 REMARK 465 GLY B 321 REMARK 465 SER B 322 REMARK 465 GLY B 323 REMARK 465 GLY B 403 REMARK 465 ASN B 404 REMARK 465 GLU B 405 REMARK 465 THR B 406 REMARK 465 MET B 407 REMARK 465 LYS B 408 REMARK 465 GLY B 409 REMARK 465 CYS B 410 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT 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 SG CYS B 119 CB CYS B 205 1.73 REMARK 500 O ASN B 289 O HOH B 631 1.92 REMARK 500 ND2 ASN B 289 C2 NAG B 505 1.95 REMARK 500 NH2 ARG A 480 O HOH A 619 1.98 REMARK 500 ND2 ASN B 386 C2 NAG B 509 1.99 REMARK 500 ND2 ASN A 448 C2 NAG A 511 2.00 REMARK 500 O HOH A 657 O HOH A 658 2.00 REMARK 500 O HOH A 669 O HOH A 670 2.02 REMARK 500 O HOH B 629 O HOH B 630 2.06 REMARK 500 ND2 ASN A 355 C2 NAG A 508 2.08 REMARK 500 ND2 ASN A 289 C2 NAG A 505 2.11 REMARK 500 ND2 ASN B 448 C2 NAG B 511 2.14 REMARK 500 ND2 ASN B 392 C2 NAG B 510 2.15 REMARK 500 NZ LYS A 59 O HOH A 655 2.15 REMARK 500 OE2 GLU A 482 O HOH A 635 2.16 REMARK 500 O ALA B 73 O HOH B 623 2.17 REMARK 500 OE1 GLN B 103 O8 EPE B 513 2.18 REMARK 500 N THR A 467 O HOH A 604 2.18 REMARK 500 ND2 ASN A 392 C2 NAG A 510 2.19 REMARK 500 O HOH A 611 O HOH A 660 2.19 REMARK 500 REMARK 500 REMARK: NULL 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 ASN A 355 C LYS A 357 N -0.147 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 ASN A 94 83.58 -159.76 REMARK 500 LEU A 116 52.40 -155.70 REMARK 500 THR A 123 -136.86 -122.79 REMARK 500 ASP A 211 99.58 -171.42 REMARK 500 GLN A 258 -57.89 70.54 REMARK 500 ASN A 262 29.58 49.53 REMARK 500 GLU A 268 -99.76 -102.01 REMARK 500 SER A 274 136.64 -174.48 REMARK 500 ASN A 276 92.11 -174.58 REMARK 500 ILE A 326 1.52 -67.44 REMARK 500 ASN A 334 99.32 -68.72 REMARK 500 ASN A 393 32.03 -81.49 REMARK 500 ASN B 88 9.81 59.60 REMARK 500 ASN B 94 89.49 -154.95 REMARK 500 GLN B 203 -160.59 -117.49 REMARK 500 ASP B 211 101.08 -165.87 REMARK 500 ASN B 232 47.21 -109.75 REMARK 500 GLN B 258 -68.70 67.20 REMARK 500 GLU B 268 -102.75 -134.13 REMARK 500 SER B 274 148.12 -172.27 REMARK 500 ASN B 276 89.37 -171.86 REMARK 500 ASN B 355 14.44 54.51 REMARK 500 PHE B 391 60.29 -118.83 REMARK 500 ASN B 393 -2.15 -54.48 REMARK 500 THR B 430 -88.59 -57.39 REMARK 500 ALA B 460 2.04 -173.25 REMARK 500 ASN B 461 39.54 -72.13 REMARK 500 THR B 463 -169.82 -104.92 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4DVR RELATED DB: PDB REMARK 900 RELATED ID: 4DVS RELATED DB: PDB REMARK 900 RELATED ID: 4DVU RELATED DB: PDB REMARK 900 RELATED ID: 4DVV RELATED DB: PDB REMARK 900 RELATED ID: 4DVW RELATED DB: PDB REMARK 900 RELATED ID: 4DVX RELATED DB: PDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE CRYSTALLIZED SEQUENCE WAS CONSTRUCTED BY DELETION OF N-TERMINAL REMARK 999 1-43, BY REPLACING THE V1/V2 REGIONS WITH A GG LINKER, AND REMARK 999 REPLACING V3 REGION WITH A LINKER GGSGSG DBREF1 4DVT A 44 492 UNP A0A0M3KKW9_9HIV1 DBREF2 4DVT A A0A0M3KKW9 1 353 DBREF1 4DVT B 44 492 UNP A0A0M3KKW9_9HIV1 DBREF2 4DVT B A0A0M3KKW9 1 353 SEQADV 4DVT SER A 375 UNP A0A0M3KKW HIS 242 ENGINEERED MUTATION SEQADV 4DVT SER B 375 UNP A0A0M3KKW HIS 242 ENGINEERED MUTATION SEQRES 1 A 353 VAL TRP LYS ASP ALA ASP THR THR LEU PHE CYS ALA SER SEQRES 2 A 353 ASP ALA LYS ALA HIS GLU THR GLU VAL HIS ASN VAL TRP SEQRES 3 A 353 ALA THR HIS ALA CYS VAL PRO THR ASP PRO ASN PRO GLN SEQRES 4 A 353 GLU ILE HIS LEU GLU ASN VAL THR GLU ASN PHE ASN MET SEQRES 5 A 353 TRP LYS ASN ASN MET VAL GLU GLN MET GLN GLU ASP VAL SEQRES 6 A 353 ILE SER LEU TRP ASP GLN SER LEU GLN PRO CYS VAL LYS SEQRES 7 A 353 LEU THR GLY GLY SER VAL ILE LYS GLN ALA CYS PRO LYS SEQRES 8 A 353 ILE SER PHE ASP PRO ILE PRO ILE HIS TYR CYS THR PRO SEQRES 9 A 353 ALA GLY TYR VAL ILE LEU LYS CYS ASN ASP LYS ASN PHE SEQRES 10 A 353 ASN GLY THR GLY PRO CYS LYS ASN VAL SER SER VAL GLN SEQRES 11 A 353 CYS THR HIS GLY ILE LYS PRO VAL VAL SER THR GLN LEU SEQRES 12 A 353 LEU LEU ASN GLY SER LEU ALA GLU GLU GLU ILE ILE ILE SEQRES 13 A 353 ARG SER GLU ASN LEU THR ASN ASN ALA LYS THR ILE ILE SEQRES 14 A 353 VAL HIS LEU ASN LYS SER VAL GLU ILE ASN CYS THR ARG SEQRES 15 A 353 PRO SER ASN GLY GLY SER GLY SER GLY GLY ASP ILE ARG SEQRES 16 A 353 LYS ALA TYR CYS GLU ILE ASN GLY THR LYS TRP ASN LYS SEQRES 17 A 353 VAL LEU LYS GLN VAL THR GLU LYS LEU LYS GLU HIS PHE SEQRES 18 A 353 ASN ASN LYS THR ILE ILE PHE GLN PRO PRO SER GLY GLY SEQRES 19 A 353 ASP LEU GLU ILE THR MET HIS SER PHE ASN CYS ARG GLY SEQRES 20 A 353 GLU PHE PHE TYR CYS ASN THR THR GLN LEU PHE ASN ASN SEQRES 21 A 353 THR CYS ILE GLY ASN GLU THR MET LYS GLY CYS ASN GLY SEQRES 22 A 353 THR ILE THR LEU PRO CYS LYS ILE LYS GLN ILE ILE ASN SEQRES 23 A 353 MET TRP GLN GLY THR GLY GLN ALA MET TYR ALA PRO PRO SEQRES 24 A 353 ILE ASP GLY LYS ILE ASN CYS VAL SER ASN ILE THR GLY SEQRES 25 A 353 ILE LEU LEU THR ARG ASP GLY GLY ALA ASN ASN THR SER SEQRES 26 A 353 ASN GLU THR PHE ARG PRO GLY GLY GLY ASN ILE LYS ASP SEQRES 27 A 353 ASN TRP ARG SER GLU LEU TYR LYS TYR LYS VAL VAL GLN SEQRES 28 A 353 ILE GLU SEQRES 1 B 353 VAL TRP LYS ASP ALA ASP THR THR LEU PHE CYS ALA SER SEQRES 2 B 353 ASP ALA LYS ALA HIS GLU THR GLU VAL HIS ASN VAL TRP SEQRES 3 B 353 ALA THR HIS ALA CYS VAL PRO THR ASP PRO ASN PRO GLN SEQRES 4 B 353 GLU ILE HIS LEU GLU ASN VAL THR GLU ASN PHE ASN MET SEQRES 5 B 353 TRP LYS ASN ASN MET VAL GLU GLN MET GLN GLU ASP VAL SEQRES 6 B 353 ILE SER LEU TRP ASP GLN SER LEU GLN PRO CYS VAL LYS SEQRES 7 B 353 LEU THR GLY GLY SER VAL ILE LYS GLN ALA CYS PRO LYS SEQRES 8 B 353 ILE SER PHE ASP PRO ILE PRO ILE HIS TYR CYS THR PRO SEQRES 9 B 353 ALA GLY TYR VAL ILE LEU LYS CYS ASN ASP LYS ASN PHE SEQRES 10 B 353 ASN GLY THR GLY PRO CYS LYS ASN VAL SER SER VAL GLN SEQRES 11 B 353 CYS THR HIS GLY ILE LYS PRO VAL VAL SER THR GLN LEU SEQRES 12 B 353 LEU LEU ASN GLY SER LEU ALA GLU GLU GLU ILE ILE ILE SEQRES 13 B 353 ARG SER GLU ASN LEU THR ASN ASN ALA LYS THR ILE ILE SEQRES 14 B 353 VAL HIS LEU ASN LYS SER VAL GLU ILE ASN CYS THR ARG SEQRES 15 B 353 PRO SER ASN GLY GLY SER GLY SER GLY GLY ASP ILE ARG SEQRES 16 B 353 LYS ALA TYR CYS GLU ILE ASN GLY THR LYS TRP ASN LYS SEQRES 17 B 353 VAL LEU LYS GLN VAL THR GLU LYS LEU LYS GLU HIS PHE SEQRES 18 B 353 ASN ASN LYS THR ILE ILE PHE GLN PRO PRO SER GLY GLY SEQRES 19 B 353 ASP LEU GLU ILE THR MET HIS SER PHE ASN CYS ARG GLY SEQRES 20 B 353 GLU PHE PHE TYR CYS ASN THR THR GLN LEU PHE ASN ASN SEQRES 21 B 353 THR CYS ILE GLY ASN GLU THR MET LYS GLY CYS ASN GLY SEQRES 22 B 353 THR ILE THR LEU PRO CYS LYS ILE LYS GLN ILE ILE ASN SEQRES 23 B 353 MET TRP GLN GLY THR GLY GLN ALA MET TYR ALA PRO PRO SEQRES 24 B 353 ILE ASP GLY LYS ILE ASN CYS VAL SER ASN ILE THR GLY SEQRES 25 B 353 ILE LEU LEU THR ARG ASP GLY GLY ALA ASN ASN THR SER SEQRES 26 B 353 ASN GLU THR PHE ARG PRO GLY GLY GLY ASN ILE LYS ASP SEQRES 27 B 353 ASN TRP ARG SER GLU LEU TYR LYS TYR LYS VAL VAL GLN SEQRES 28 B 353 ILE GLU MODRES 4DVT ASN B 295 ASN GLYCOSYLATION SITE MODRES 4DVT ASN A 392 ASN GLYCOSYLATION SITE MODRES 4DVT ASN A 234 ASN GLYCOSYLATION SITE MODRES 4DVT ASN B 386 ASN GLYCOSYLATION SITE MODRES 4DVT ASN A 355 ASN GLYCOSYLATION SITE MODRES 4DVT ASN B 241 ASN GLYCOSYLATION SITE MODRES 4DVT ASN B 448 ASN GLYCOSYLATION SITE MODRES 4DVT ASN A 295 ASN GLYCOSYLATION SITE MODRES 4DVT ASN B 234 ASN GLYCOSYLATION SITE MODRES 4DVT ASN B 355 ASN GLYCOSYLATION SITE MODRES 4DVT ASN A 276 ASN GLYCOSYLATION SITE MODRES 4DVT ASN A 241 ASN GLYCOSYLATION SITE MODRES 4DVT ASN A 334 ASN GLYCOSYLATION SITE MODRES 4DVT ASN B 289 ASN GLYCOSYLATION SITE MODRES 4DVT ASN B 262 ASN GLYCOSYLATION SITE MODRES 4DVT ASN A 386 ASN GLYCOSYLATION SITE MODRES 4DVT ASN A 289 ASN GLYCOSYLATION SITE MODRES 4DVT ASN A 262 ASN GLYCOSYLATION SITE MODRES 4DVT ASN B 392 ASN GLYCOSYLATION SITE MODRES 4DVT ASN B 276 ASN GLYCOSYLATION SITE MODRES 4DVT ASN A 448 ASN GLYCOSYLATION SITE MODRES 4DVT ASN B 334 ASN GLYCOSYLATION SITE HET NAG A 501 14 HET NAG A 502 14 HET NAG A 503 14 HET NAG A 504 14 HET NAG A 505 14 HET NAG A 506 14 HET NAG A 507 14 HET NAG A 508 14 HET NAG A 509 14 HET NAG A 510 14 HET NAG A 511 14 HET 0LZ A 512 42 HET EPE A 513 15 HET NAG B 501 14 HET NAG B 502 14 HET NAG B 503 14 HET NAG B 504 14 HET NAG B 505 14 HET NAG B 506 14 HET NAG B 507 14 HET NAG B 508 14 HET NAG B 509 14 HET NAG B 510 14 HET NAG B 511 14 HET 0LZ B 512 42 HET EPE B 513 15 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM 0LZ N-(4-CHLORO-3-FLUOROPHENYL)-N'-[(1S)-1,2,3,4- HETNAM 2 0LZ TETRAHYDROISOQUINOLIN-1-YLMETHYL]ETHANEDIAMIDE HETNAM EPE 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID 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 HETSYN EPE HEPES FORMUL 3 NAG 22(C8 H15 N O6) FORMUL 14 0LZ 2(C18 H17 CL F N3 O2) FORMUL 15 EPE 2(C8 H18 N2 O4 S) FORMUL 29 HOH *107(H2 O) HELIX 1 1 GLU A 64 ALA A 73 1 10 HELIX 2 2 ASN A 98 LEU A 116 1 19 HELIX 3 3 GLY A 335 PHE A 353 1 19 HELIX 4 4 ASP A 368 MET A 373 1 6 HELIX 5 5 THR A 388 ASN A 392 5 5 HELIX 6 6 ASN A 474 TYR A 484 1 11 HELIX 7 7 GLU B 64 ALA B 73 1 10 HELIX 8 8 ASN B 98 LEU B 116 1 19 HELIX 9 9 GLY B 335 GLU B 351 1 17 HELIX 10 10 ASP B 368 MET B 373 1 6 HELIX 11 11 ASN B 392 ILE B 396 5 5 HELIX 12 12 ILE B 475 TYR B 484 1 10 SHEET 1 A 5 TRP A 45 ASP A 47 0 SHEET 2 A 5 TYR A 486 ILE A 491 -1 O GLN A 490 N LYS A 46 SHEET 3 A 5 TYR A 223 CYS A 228 -1 N LEU A 226 O LYS A 487 SHEET 4 A 5 VAL A 242 VAL A 245 -1 O SER A 243 N LYS A 227 SHEET 5 A 5 GLU A 83 LEU A 86 -1 N LEU A 86 O VAL A 242 SHEET 1 B 3 CYS A 74 PRO A 76 0 SHEET 2 B 3 PHE A 53 SER A 56 1 N SER A 56 O VAL A 75 SHEET 3 B 3 HIS A 216 CYS A 218 -1 O CYS A 218 N PHE A 53 SHEET 1 C 2 GLU A 91 ASN A 94 0 SHEET 2 C 2 THR A 236 CYS A 239 -1 O GLY A 237 N PHE A 93 SHEET 1 D 4 VAL A 200 LYS A 202 0 SHEET 2 D 4 VAL A 120 LEU A 122 -1 N LYS A 121 O ILE A 201 SHEET 3 D 4 GLN A 432 MET A 434 -1 O GLN A 432 N LEU A 122 SHEET 4 D 4 ILE A 423 ASN A 425 -1 N ILE A 424 O ALA A 433 SHEET 1 E 5 LEU A 259 LEU A 261 0 SHEET 2 E 5 ILE A 443 ARG A 456 -1 O GLY A 451 N LEU A 260 SHEET 3 E 5 ILE A 284 ARG A 298 -1 N VAL A 286 O ILE A 452 SHEET 4 E 5 ASN A 465 PRO A 470 0 SHEET 5 E 5 THR A 358 PHE A 361 1 N ILE A 360 O PHE A 468 SHEET 1 F 7 ILE A 271 ARG A 273 0 SHEET 2 F 7 ILE A 284 ARG A 298 -1 O HIS A 287 N ILE A 271 SHEET 3 F 7 ILE A 443 ARG A 456 -1 O ILE A 452 N VAL A 286 SHEET 4 F 7 LYS A 328 ASN A 334 0 SHEET 5 F 7 THR A 413 ILE A 420 -1 O CYS A 418 N ALA A 329 SHEET 6 F 7 GLU A 381 CYS A 385 -1 N TYR A 384 O LYS A 419 SHEET 7 F 7 HIS A 374 CYS A 378 -1 N PHE A 376 O PHE A 383 SHEET 1 G 5 LYS B 46 ASP B 47 0 SHEET 2 G 5 TYR B 486 GLN B 490 -1 O GLN B 490 N LYS B 46 SHEET 3 G 5 TYR B 223 CYS B 228 -1 N VAL B 224 O VAL B 489 SHEET 4 G 5 VAL B 242 VAL B 245 -1 O SER B 243 N LYS B 227 SHEET 5 G 5 GLU B 83 LEU B 86 -1 N ILE B 84 O SER B 244 SHEET 1 H 3 CYS B 74 PRO B 76 0 SHEET 2 H 3 PHE B 53 SER B 56 1 N CYS B 54 O VAL B 75 SHEET 3 H 3 HIS B 216 CYS B 218 -1 O HIS B 216 N ALA B 55 SHEET 1 I 2 GLU B 91 ASN B 94 0 SHEET 2 I 2 THR B 236 CYS B 239 -1 O GLY B 237 N PHE B 93 SHEET 1 J 4 VAL B 200 LYS B 202 0 SHEET 2 J 4 VAL B 120 LEU B 122 -1 N LYS B 121 O ILE B 201 SHEET 3 J 4 GLN B 432 MET B 434 -1 O GLN B 432 N LEU B 122 SHEET 4 J 4 ILE B 423 ASN B 425 -1 N ILE B 424 O ALA B 433 SHEET 1 K 5 LEU B 259 LEU B 261 0 SHEET 2 K 5 ILE B 443 ARG B 456 -1 O GLY B 451 N LEU B 260 SHEET 3 K 5 ILE B 284 ARG B 298 -1 N ILE B 284 O LEU B 454 SHEET 4 K 5 ASN B 465 PRO B 470 0 SHEET 5 K 5 THR B 358 PHE B 361 1 N ILE B 360 O PHE B 468 SHEET 1 L 7 ILE B 271 ARG B 273 0 SHEET 2 L 7 ILE B 284 ARG B 298 -1 O ILE B 285 N ARG B 273 SHEET 3 L 7 ILE B 443 ARG B 456 -1 O LEU B 454 N ILE B 284 SHEET 4 L 7 LYS B 328 ASN B 334 0 SHEET 5 L 7 THR B 413 ILE B 420 -1 O LEU B 416 N CYS B 331 SHEET 6 L 7 GLU B 381 CYS B 385 -1 N TYR B 384 O LYS B 419 SHEET 7 L 7 HIS B 374 CYS B 378 -1 N CYS B 378 O GLU B 381 SSBOND 1 CYS A 54 CYS A 74 1555 1555 2.03 SSBOND 2 CYS A 119 CYS A 205 1555 1555 2.03 SSBOND 3 CYS A 218 CYS A 247 1555 1555 2.03 SSBOND 4 CYS A 228 CYS A 239 1555 1555 2.03 SSBOND 5 CYS A 296 CYS A 331 1555 1555 2.03 SSBOND 6 CYS A 378 CYS A 445 1555 1555 2.03 SSBOND 7 CYS A 385 CYS A 418 1555 1555 2.03 SSBOND 8 CYS B 54 CYS B 74 1555 1555 2.03 SSBOND 9 CYS B 119 CYS B 205 1555 1555 2.03 SSBOND 10 CYS B 218 CYS B 247 1555 1555 2.03 SSBOND 11 CYS B 228 CYS B 239 1555 1555 2.03 SSBOND 12 CYS B 296 CYS B 331 1555 1555 2.03 SSBOND 13 CYS B 378 CYS B 445 1555 1555 2.03 SSBOND 14 CYS B 385 CYS B 418 1555 1555 2.03 LINK ND2 ASN A 234 C1 NAG A 501 1555 1555 1.44 LINK ND2 ASN A 241 C1 NAG A 502 1555 1555 1.44 LINK ND2 ASN A 262 C1 NAG A 503 1555 1555 1.44 LINK ND2 ASN A 276 C1 NAG A 504 1555 1555 1.44 LINK ND2 ASN A 289 C1 NAG A 505 1555 1555 1.44 LINK ND2 ASN A 295 C1 NAG A 506 1555 1555 1.44 LINK ND2 ASN A 334 C1 NAG A 507 1555 1555 1.44 LINK ND2 ASN A 355 C1 NAG A 508 1555 1555 1.44 LINK ND2 ASN A 386 C1 NAG A 509 1555 1555 1.44 LINK ND2 ASN A 392 C1 NAG A 510 1555 1555 1.44 LINK ND2 ASN A 448 C1 NAG A 511 1555 1555 1.44 LINK ND2 ASN B 234 C1 NAG B 501 1555 1555 1.44 LINK ND2 ASN B 241 C1 NAG B 502 1555 1555 1.44 LINK ND2 ASN B 262 C1 NAG B 503 1555 1555 1.44 LINK ND2 ASN B 276 C1 NAG B 504 1555 1555 1.44 LINK ND2 ASN B 289 C1 NAG B 505 1555 1555 1.44 LINK ND2 ASN B 295 C1 NAG B 506 1555 1555 1.44 LINK ND2 ASN B 334 C1 NAG B 507 1555 1555 1.44 LINK ND2 ASN B 355 C1 NAG B 508 1555 1555 1.44 LINK ND2 ASN B 386 C1 NAG B 509 1555 1555 1.44 LINK ND2 ASN B 392 C1 NAG B 510 1555 1555 1.44 LINK ND2 ASN B 448 C1 NAG B 511 1555 1555 1.44 CRYST1 64.809 68.402 93.988 90.00 91.94 90.00 P 1 21 1 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 0.015430 0.000000 0.000523 0.00000 SCALE2 0.000000 0.014619 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010646 0.00000