HEADER IMMUNE SYSTEM 07-NOV-11 3UJJ TITLE CRYSTAL STRUCTURE OF ANTI-HIV-1 V3 FAB 4025 IN COMPLEX WITH CON A TITLE 2 PEPTIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: LIGHT CHAIN OF ANTI-HIV-1 V3 MONOCLONAL ANTIBODY 4025; COMPND 3 CHAIN: L; COMPND 4 MOL_ID: 2; COMPND 5 MOLECULE: FAB REGION OF THE HEAVY CHAIN OF ANTI-HIV-1 V3 MONOCLONAL COMPND 6 ANTIBODY 4025; COMPND 7 CHAIN: H; COMPND 8 MOL_ID: 3; COMPND 9 MOLECULE: GP120; COMPND 10 CHAIN: P; COMPND 11 FRAGMENT: UNP RESIDUES 30-52; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_TAXID: 9606; SOURCE 4 MOL_ID: 2; SOURCE 5 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 6 ORGANISM_TAXID: 9606; SOURCE 7 MOL_ID: 3; SOURCE 8 SYNTHETIC: YES; SOURCE 9 ORGANISM_SCIENTIFIC: HUMAN IMMUNODEFICIENCY VIRUS 1; SOURCE 10 ORGANISM_TAXID: 11676; SOURCE 11 OTHER_DETAILS: SYNTHESIZED BASED ON HIV-1 STRAIN OF CONSENSUS CLADE SOURCE 12 A KEYWDS IG DOMAINS, ANTIBODY FAB, ANTIGEN BINDING, THE THIRD VARIABLE REGION KEYWDS 2 OF HIV-1 GP120, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR X.P.KONG,J.SAMPSON REVDAT 3 08-NOV-17 3UJJ 1 REMARK REVDAT 2 11-JAN-12 3UJJ 1 SEQRES REVDAT 1 28-DEC-11 3UJJ 0 JRNL AUTH M.K.GORNY,J.SAMPSON,H.LI,X.JIANG,M.TOTROV,X.H.WANG, JRNL AUTH 2 C.WILLIAMS,T.O'NEAL,B.VOLSKY,L.LI,T.CARDOZO,P.NYAMBI, JRNL AUTH 3 S.ZOLLA-PAZNER,X.P.KONG JRNL TITL HUMAN ANTI-V3 HIV-1 MONOCLONAL ANTIBODIES ENCODED BY THE JRNL TITL 2 VH5-51/VL LAMBDA GENES DEFINE A CONSERVED ANTIGENIC JRNL TITL 3 STRUCTURE. JRNL REF PLOS ONE V. 6 27780 2011 JRNL REFN ESSN 1932-6203 JRNL PMID 22164215 JRNL DOI 10.1371/JOURNAL.PONE.0027780 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.7.2_869) 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) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.30 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 3 NUMBER OF REFLECTIONS : 52488 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.178 REMARK 3 R VALUE (WORKING SET) : 0.177 REMARK 3 FREE R VALUE : 0.213 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.080 REMARK 3 FREE R VALUE TEST SET COUNT : 2665 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 39.3087 - 5.3254 1.00 2812 139 0.2004 0.2163 REMARK 3 2 5.3254 - 4.2285 1.00 2723 143 0.1463 0.1651 REMARK 3 3 4.2285 - 3.6944 1.00 2676 148 0.1411 0.1969 REMARK 3 4 3.6944 - 3.3569 1.00 2697 131 0.1564 0.1798 REMARK 3 5 3.3569 - 3.1164 1.00 2675 148 0.1603 0.2020 REMARK 3 6 3.1164 - 2.9327 1.00 2671 131 0.1692 0.1958 REMARK 3 7 2.9327 - 2.7859 1.00 2671 130 0.1734 0.2398 REMARK 3 8 2.7859 - 2.6646 1.00 2647 147 0.1766 0.2164 REMARK 3 9 2.6646 - 2.5621 1.00 2647 156 0.1813 0.2157 REMARK 3 10 2.5621 - 2.4737 1.00 2659 126 0.1750 0.2222 REMARK 3 11 2.4737 - 2.3963 1.00 2661 133 0.1872 0.2433 REMARK 3 12 2.3963 - 2.3278 1.00 2643 146 0.1934 0.2248 REMARK 3 13 2.3278 - 2.2666 1.00 2656 129 0.2046 0.2228 REMARK 3 14 2.2666 - 2.2113 1.00 2614 168 0.2059 0.2655 REMARK 3 15 2.2113 - 2.1610 0.99 2593 150 0.2112 0.2586 REMARK 3 16 2.1610 - 2.1150 0.99 2620 149 0.2157 0.2550 REMARK 3 17 2.1150 - 2.0727 0.96 2539 143 0.2326 0.2850 REMARK 3 18 2.0727 - 2.0336 0.90 2371 122 0.2495 0.2868 REMARK 3 19 2.0336 - 1.9973 0.85 2248 126 0.2817 0.3142 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.00 REMARK 3 SHRINKAGE RADIUS : 0.73 REMARK 3 K_SOL : 0.38 REMARK 3 B_SOL : 69.20 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.610 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.950 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) : -0.24040 REMARK 3 B22 (A**2) : -0.24040 REMARK 3 B33 (A**2) : 0.48430 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 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 : 0.007 3689 REMARK 3 ANGLE : 1.149 4979 REMARK 3 CHIRALITY : 0.078 536 REMARK 3 PLANARITY : 0.006 619 REMARK 3 DIHEDRAL : 12.622 1293 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 3UJJ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-NOV-11. REMARK 100 THE DEPOSITION ID IS D_1000068834. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-MAR-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 3.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X4C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97883 REMARK 200 MONOCHROMATOR : SI (111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 52523 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.1 REMARK 200 DATA REDUNDANCY : 5.900 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.08100 REMARK 200 FOR THE DATA SET : 17.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.07 REMARK 200 COMPLETENESS FOR SHELL (%) : 67.4 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ID 2B0S REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 68.86 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.95 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.6 M AMMONIUM SULFATE, 80 MM SODIUM REMARK 280 ACETATE, 30% GLYCEROL, PH 3.8, EVAPORATION, TEMPERATURE 296K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 24.47033 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 48.94067 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 48.94067 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 24.47033 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 300 REMARK: THE FAB IS THE BIOLOGICAL ASSEMBLY AND THERE IS ONLY ONE REMARK 300 FAB IN THE ASYMMETRIC SUBUNIT. 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: 11760 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19990 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -144.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: L, H, 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 ASN P 301 REMARK 465 ASN P 302 REMARK 465 ASP P 322 REMARK 465 ILE P 323 REMARK 465 ILE P 324 REMARK 465 GLY P 325 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 O HOH H 243 O HOH H 396 2.08 REMARK 500 O HOH L 390 O HOH H 378 2.08 REMARK 500 O HOH L 235 O HOH H 285 2.09 REMARK 500 O HOH H 241 O HOH H 333 2.11 REMARK 500 OH TYR L 89 O HOH L 267 2.14 REMARK 500 O HOH H 241 O HOH H 299 2.16 REMARK 500 O HOH L 305 O HOH L 338 2.16 REMARK 500 O HOH H 335 O HOH H 384 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH L 268 O HOH H 443 3564 2.09 REMARK 500 O HOH H 248 O HOH H 248 6555 2.10 REMARK 500 O THR L 209 O HOH P 251 5564 2.14 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 ASP L 51 -47.95 75.87 REMARK 500 SER L 52 -0.09 -142.68 REMARK 500 ASN L 170 -1.17 75.39 REMARK 500 GLU L 198 -109.37 57.22 REMARK 500 ASP H 144 60.41 62.40 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 GOL L 212 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL L 213 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL L 214 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL L 215 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL L 216 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL L 217 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL L 218 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL L 219 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 L 220 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 L 221 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 L 222 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 L 223 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 L 224 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 L 225 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT L 226 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT L 227 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT L 228 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL H 220 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL H 221 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL H 222 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL H 223 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL H 224 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL H 225 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL H 226 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL H 227 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL H 228 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL H 229 REMARK 800 REMARK 800 SITE_IDENTIFIER: DC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL H 230 REMARK 800 REMARK 800 SITE_IDENTIFIER: DC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 H 231 REMARK 800 REMARK 800 SITE_IDENTIFIER: DC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 H 232 REMARK 800 REMARK 800 SITE_IDENTIFIER: DC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT H 233 REMARK 800 REMARK 800 SITE_IDENTIFIER: DC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT H 234 REMARK 800 REMARK 800 SITE_IDENTIFIER: DC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT H 235 REMARK 800 REMARK 800 SITE_IDENTIFIER: DC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT P 2 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3UJI RELATED DB: PDB DBREF 3UJJ P 301 325 UNP Q9YXJ8 Q9YXJ8_9HIV1 30 52 DBREF 3UJJ L 1 211 PDB 3UJJ 3UJJ 1 211 DBREF 3UJJ H 1 219 PDB 3UJJ 3UJJ 1 219 SEQRES 1 L 213 SER TYR GLU LEU THR GLN PRO PRO SER VAL SER VAL SER SEQRES 2 L 213 PRO GLY GLN THR ALA ARG ILE THR CYS SER GLY ASP ALA SEQRES 3 L 213 LEU PRO GLU LYS TYR ALA TYR TRP TYR GLN GLN LYS SER SEQRES 4 L 213 GLY GLN ALA PRO VAL LEU ILE ILE TYR GLU ASP SER LYS SEQRES 5 L 213 ARG PRO SER GLY ILE PRO GLU ARG PHE SER GLY SER ARG SEQRES 6 L 213 SER GLY THR MET ALA THR LEU THR ILE SER GLY ALA GLN SEQRES 7 L 213 VAL ASP ASP GLU ALA ASP TYR TYR CYS TYR SER THR ASN SEQRES 8 L 213 SER GLY GLY THR PHE PHE VAL PHE GLY THR GLY THR LYS SEQRES 9 L 213 VAL THR VAL LEU GLY GLN PRO LYS ALA ASN PRO THR VAL SEQRES 10 L 213 THR LEU PHE PRO PRO SER SER GLU GLU LEU GLN ALA ASN SEQRES 11 L 213 LYS ALA THR LEU VAL CYS LEU ILE SER ASP PHE TYR PRO SEQRES 12 L 213 GLY ALA VAL THR VAL ALA TRP LYS ALA ASP SER SER PRO SEQRES 13 L 213 VAL LYS ALA GLY VAL GLU THR THR THR PRO SER LYS GLN SEQRES 14 L 213 SER ASN ASN LYS TYR ALA ALA SER SER TYR LEU SER LEU SEQRES 15 L 213 THR PRO GLU GLN TRP LYS SER HIS ARG SER TYR SER CYS SEQRES 16 L 213 GLN VAL THR HIS GLU GLY SER THR VAL GLU LYS THR VAL SEQRES 17 L 213 ALA PRO THR GLU CYS SEQRES 1 H 230 GLU VAL GLN LEU VAL GLN SER GLY ALA GLU VAL LYS LYS SEQRES 2 H 230 PRO GLY GLU SER LEU LYS ILE SER CYS LYS ALA SER GLY SEQRES 3 H 230 TYR SER PHE SER SER TYR TRP ILE ALA TRP VAL ARG GLN SEQRES 4 H 230 MET PRO GLY LYS GLY LEU GLU TRP MET GLY PHE ILE TYR SEQRES 5 H 230 PRO ALA ASP SER ASP THR ARG TYR SER PRO SER PHE GLN SEQRES 6 H 230 GLY GLN GLY THR ILE SER ALA ASP LYS SER ILE SER THR SEQRES 7 H 230 ALA TYR LEU GLN TRP SER SER LEU LYS ALA SER ASP THR SEQRES 8 H 230 ALA MET TYR TYR CYS ALA ILE LEU GLY PHE TRP GLY ALA SEQRES 9 H 230 ASN ARG GLY GLY GLY GLY MET ASP VAL TRP GLY GLN GLY SEQRES 10 H 230 THR THR VAL ILE VAL SER SER ALA SER THR LYS GLY PRO SEQRES 11 H 230 SER VAL PHE PRO LEU ALA PRO SER SER LYS SER THR SER SEQRES 12 H 230 GLY GLY THR ALA ALA LEU GLY CYS LEU VAL LYS ASP TYR SEQRES 13 H 230 PHE PRO GLU PRO VAL THR VAL SER TRP ASN SER GLY ALA SEQRES 14 H 230 LEU THR SER GLY VAL HIS THR PHE PRO ALA VAL LEU GLN SEQRES 15 H 230 SER SER GLY LEU TYR SER LEU SER SER VAL VAL THR VAL SEQRES 16 H 230 PRO SER SER SER LEU GLY THR GLN THR TYR ILE CYS ASN SEQRES 17 H 230 VAL ASN HIS LYS PRO SER ASN THR LYS VAL ASP LYS LYS SEQRES 18 H 230 VAL GLU PRO LYS SER CYS ASP LYS THR SEQRES 1 P 23 ASN ASN THR ARG LYS SER ILE ARG ILE GLY PRO GLY GLN SEQRES 2 P 23 ALA PHE TYR ALA THR GLY ASP ILE ILE GLY HET GOL L 212 6 HET GOL L 213 6 HET GOL L 214 6 HET GOL L 215 6 HET GOL L 216 6 HET GOL L 217 6 HET GOL L 218 6 HET GOL L 219 6 HET SO4 L 220 5 HET SO4 L 221 5 HET SO4 L 222 5 HET SO4 L 223 5 HET SO4 L 224 5 HET SO4 L 225 5 HET ACT L 226 4 HET ACT L 227 4 HET ACT L 228 4 HET GOL H 220 6 HET GOL H 221 6 HET GOL H 222 6 HET GOL H 223 6 HET GOL H 224 6 HET GOL H 225 6 HET GOL H 226 6 HET GOL H 227 6 HET GOL H 228 6 HET GOL H 229 6 HET GOL H 230 6 HET SO4 H 231 5 HET SO4 H 232 5 HET ACT H 233 4 HET ACT H 234 4 HET ACT H 235 4 HET ACT P 2 4 HETNAM GOL GLYCEROL HETNAM SO4 SULFATE ION HETNAM ACT ACETATE ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 4 GOL 19(C3 H8 O3) FORMUL 12 SO4 8(O4 S 2-) FORMUL 18 ACT 7(C2 H3 O2 1-) FORMUL 38 HOH *489(H2 O) HELIX 1 1 GLN L 79 GLU L 83 5 5 HELIX 2 2 SER L 121 ALA L 127 1 7 HELIX 3 3 THR L 181 HIS L 188 1 8 HELIX 4 4 SER H 28 TYR H 32 5 5 HELIX 5 5 LYS H 73 ILE H 75 5 3 HELIX 6 6 LYS H 83 THR H 87 5 5 HELIX 7 7 TRP H 98 ARG H 100B 5 5 HELIX 8 8 SER H 187 LEU H 189 5 3 HELIX 9 9 LYS H 201 ASN H 204 5 4 SHEET 1 A 5 SER L 9 VAL L 13 0 SHEET 2 A 5 THR L 102 VAL L 106 1 O THR L 105 N VAL L 11 SHEET 3 A 5 ALA L 84 THR L 91 -1 N ALA L 84 O VAL L 104 SHEET 4 A 5 TYR L 34 GLN L 38 -1 N GLN L 38 O ASP L 85 SHEET 5 A 5 VAL L 45 ILE L 48 -1 O ILE L 48 N TRP L 35 SHEET 1 B 4 SER L 9 VAL L 13 0 SHEET 2 B 4 THR L 102 VAL L 106 1 O THR L 105 N VAL L 11 SHEET 3 B 4 ALA L 84 THR L 91 -1 N ALA L 84 O VAL L 104 SHEET 4 B 4 PHE L 96 PHE L 98 -1 O VAL L 97 N SER L 90 SHEET 1 C 3 ALA L 19 SER L 24 0 SHEET 2 C 3 MET L 70 ILE L 75 -1 O ILE L 75 N ALA L 19 SHEET 3 C 3 PHE L 62 SER L 67 -1 N SER L 63 O THR L 74 SHEET 1 D 4 THR L 114 PHE L 118 0 SHEET 2 D 4 ALA L 130 PHE L 139 -1 O LEU L 135 N THR L 116 SHEET 3 D 4 TYR L 172 LEU L 180 -1 O ALA L 174 N ILE L 136 SHEET 4 D 4 VAL L 159 THR L 161 -1 N GLU L 160 O TYR L 177 SHEET 1 E 4 THR L 114 PHE L 118 0 SHEET 2 E 4 ALA L 130 PHE L 139 -1 O LEU L 135 N THR L 116 SHEET 3 E 4 TYR L 172 LEU L 180 -1 O ALA L 174 N ILE L 136 SHEET 4 E 4 SER L 165 LYS L 166 -1 N SER L 165 O ALA L 173 SHEET 1 F 4 SER L 153 VAL L 155 0 SHEET 2 F 4 THR L 145 ALA L 150 -1 N ALA L 150 O SER L 153 SHEET 3 F 4 TYR L 191 HIS L 197 -1 O GLN L 194 N ALA L 147 SHEET 4 F 4 SER L 200 VAL L 206 -1 O VAL L 202 N VAL L 195 SHEET 1 G 4 GLN H 3 GLN H 6 0 SHEET 2 G 4 LEU H 18 SER H 25 -1 O LYS H 23 N VAL H 5 SHEET 3 G 4 THR H 77 TRP H 82 -1 O LEU H 80 N ILE H 20 SHEET 4 G 4 THR H 68 ASP H 72 -1 N SER H 70 O TYR H 79 SHEET 1 H 6 GLU H 10 LYS H 12 0 SHEET 2 H 6 THR H 107 VAL H 111 1 O ILE H 110 N LYS H 12 SHEET 3 H 6 ALA H 88 LEU H 95 -1 N ALA H 88 O VAL H 109 SHEET 4 H 6 ILE H 34 GLN H 39 -1 N GLN H 39 O MET H 89 SHEET 5 H 6 GLU H 46 TYR H 52 -1 O GLY H 49 N TRP H 36 SHEET 6 H 6 ASP H 56 TYR H 59 -1 O ARG H 58 N PHE H 50 SHEET 1 I 4 GLU H 10 LYS H 12 0 SHEET 2 I 4 THR H 107 VAL H 111 1 O ILE H 110 N LYS H 12 SHEET 3 I 4 ALA H 88 LEU H 95 -1 N ALA H 88 O VAL H 109 SHEET 4 I 4 MET H 100G TRP H 103 -1 O VAL H 102 N ILE H 94 SHEET 1 J 4 SER H 120 LEU H 124 0 SHEET 2 J 4 THR H 135 TYR H 145 -1 O GLY H 139 N LEU H 124 SHEET 3 J 4 TYR H 176 PRO H 185 -1 O VAL H 182 N LEU H 138 SHEET 4 J 4 VAL H 163 THR H 165 -1 N HIS H 164 O VAL H 181 SHEET 1 K 4 SER H 120 LEU H 124 0 SHEET 2 K 4 THR H 135 TYR H 145 -1 O GLY H 139 N LEU H 124 SHEET 3 K 4 TYR H 176 PRO H 185 -1 O VAL H 182 N LEU H 138 SHEET 4 K 4 VAL H 169 LEU H 170 -1 N VAL H 169 O SER H 177 SHEET 1 L 3 THR H 151 TRP H 154 0 SHEET 2 L 3 ILE H 195 HIS H 200 -1 O ASN H 197 N SER H 153 SHEET 3 L 3 THR H 205 LYS H 210 -1 O THR H 205 N HIS H 200 SHEET 1 M 2 ARG P 308 GLY P 312 0 SHEET 2 M 2 GLN P 315 ALA P 316 -1 O GLN P 315 N ILE P 309 SSBOND 1 CYS L 23 CYS L 88 1555 1555 2.08 SSBOND 2 CYS L 134 CYS L 193 1555 1555 2.02 SSBOND 3 CYS L 211 CYS H 216 1555 1555 2.04 SSBOND 4 CYS H 22 CYS H 92 1555 1555 2.07 SSBOND 5 CYS H 140 CYS H 196 1555 1555 2.04 CISPEP 1 TYR L 140 PRO L 141 0 -2.16 CISPEP 2 SER H 132 GLY H 133 0 -15.53 CISPEP 3 PHE H 146 PRO H 147 0 -5.43 CISPEP 4 GLU H 148 PRO H 149 0 2.04 SITE 1 AC1 5 TYR L 2 ASN L 92 SER L 93 GLY L 94 SITE 2 AC1 5 HOH L 427 SITE 1 AC2 7 GLN L 37 VAL L 45 PRO L 59 HOH L 271 SITE 2 AC2 7 HOH L 302 HOH L 364 HOH L 397 SITE 1 AC3 8 ALA H 100 TYR L 49 ARG L 54 PRO L 55 SITE 2 AC3 8 SER L 56 HOH L 252 HOH L 333 HOH L 350 SITE 1 AC4 4 THR L 205 ACT L 228 HOH L 386 THR P 303 SITE 1 AC5 8 TYR H 91 GLN L 38 LYS L 39 GLY L 41 SITE 2 AC5 8 GLN L 42 HOH L 308 HOH L 327 HOH L 349 SITE 1 AC6 4 HOH H 339 SER L 121 SER L 122 HOH L 372 SITE 1 AC7 8 SER L 52 LYS L 53 ARG L 54 SO4 L 224 SITE 2 AC7 8 SO4 L 225 HOH L 304 HOH L 435 HOH L 468 SITE 1 AC8 7 HOH H 307 HOH H 325 GLN L 42 ALA L 43 SITE 2 AC8 7 VAL L 45 HOH L 283 HOH L 417 SITE 1 AC9 5 HIS H 164 GLN L 167 SER L 168 HOH L 341 SITE 2 AC9 5 HOH L 464 SITE 1 BC1 5 PRO L 59 ARG L 61 GLN L 79 ASP L 81 SITE 2 BC1 5 HOH L 271 SITE 1 BC2 5 SER L 40 GLU L 83 LYS L 103 TYR L 172 SITE 2 BC2 5 HOH L 359 SITE 1 BC3 4 PRO L 154 VAL L 155 LYS L 156 ALA L 157 SITE 1 BC4 5 ARG L 54 SER L 63 GOL L 218 HOH L 249 SITE 2 BC4 5 HOH L 276 SITE 1 BC5 6 LYS L 53 LYS L 186 ARG L 189 GOL L 218 SITE 2 BC5 6 HOH L 435 HOH L 468 SITE 1 BC6 3 THR L 18 ARG L 20 HOH L 434 SITE 1 BC7 4 ASN L 112 THR L 114 VAL L 115 LYS L 204 SITE 1 BC8 7 GLU L 198 GLY L 199 GLU L 203 THR L 205 SITE 2 BC8 7 GOL L 215 HOH L 474 ACT P 2 SITE 1 BC9 9 ALA H 125 SER H 127 ALA H 137 LYS H 214 SITE 2 BC9 9 HOH H 372 HOH H 412 LEU L 117 PHE L 118 SITE 3 BC9 9 PRO L 119 SITE 1 CC1 7 SER H 55 ASP H 56 THR H 57 HOH H 247 SITE 2 CC1 7 THR L 5 GLN L 6 THR L 100 SITE 1 CC2 8 SER H 130 THR H 131 SER H 132 GLY H 133 SITE 2 CC2 8 SER H 186 SER H 187 ACT H 233 HOH H 426 SITE 1 CC3 8 GLY H 65 GLN H 66 GLY H 67 TRP H 82 SITE 2 CC3 8 SER H 82A SER H 82B HOH H 368 HOH H 443 SITE 1 CC4 6 MET H 40 LYS H 43 GLY H 44 GLU H 46 SITE 2 CC4 6 HOH H 239 HOH L 438 SITE 1 CC5 6 LYS H 117 SER H 120 ASP H 144 HOH H 405 SITE 2 CC5 6 LYS L 129 HOH L 313 SITE 1 CC6 5 TYR H 27 SER H 28 PHE H 29 SER H 30 SITE 2 CC6 5 HOH H 323 SITE 1 CC7 10 GLY H 118 SER H 120 VAL H 121 PHE H 122 SITE 2 CC7 10 THR H 205 VAL H 207 LYS H 209 HOH H 248 SITE 3 CC7 10 HOH H 329 GLU L 123 SITE 1 CC8 6 LYS H 83 ALA H 84 SER H 85 HOH H 343 SITE 2 CC8 6 HOH H 373 HOH H 479 SITE 1 CC9 6 PRO H 41 LEU H 170 TYR H 176 HOH H 319 SITE 2 CC9 6 HOH H 370 HOH H 480 SITE 1 DC1 7 ARG H 38 SER H 62 PHE H 63 GLN H 66 SITE 2 DC1 7 LYS H 83 HOH H 299 HOH H 333 SITE 1 DC2 9 GLN H 171 SER H 172 HOH H 237 HOH H 298 SITE 2 DC2 9 HOH H 300 HOH H 303 GLY L 158 GLU L 160 SITE 3 DC2 9 SER L 179 SITE 1 DC3 5 TYR H 27 SER H 28 TYR H 32 HOH H 377 SITE 2 DC3 5 ARG P 304 SITE 1 DC4 7 SER H 127 SER H 128 LYS H 129 SER H 186 SITE 2 DC4 7 LEU H 189 THR H 219 GOL H 222 SITE 1 DC5 2 SER H 30 LYS H 73 SITE 1 DC6 2 GLY H 26 HOH H 421 SITE 1 DC7 3 ACT L 228 THR P 303 HOH P 414 CRYST1 136.143 136.143 73.411 90.00 90.00 120.00 P 31 2 1 6 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 0.007345 0.004241 0.000000 0.00000 SCALE2 0.000000 0.008482 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013622 0.00000 MASTER 433 0 34 9 51 0 63 6 0 0 0 37 END