HEADER IMMUNE SYSTEM/VIRAL PROTEIN 16-MAR-13 4JO2 TITLE CRYSTAL STRUCTURE OF RABBIT MAB R56 FAB IN COMPLEX WITH V3 CROWN OF TITLE 2 HIV-1 CONSENSUS A GP120 COMPND MOL_ID: 1; COMPND 2 MOLECULE: MONOCLONAL ANTI-HIV-1 GP120 V3 ANTIBODY R56 LIGHT CHAIN; COMPND 3 CHAIN: L, M; COMPND 4 FRAGMENT: FAB; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: MONOCLONAL ANTI-HIV-1 GP120 V3 ANTIBODY R56 HEAVY CHAIN; COMPND 8 CHAIN: H, I; COMPND 9 FRAGMENT: FAB; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: GP120; COMPND 13 CHAIN: P, Q; COMPND 14 FRAGMENT: THIRD VARIABLE REGION (V3) CROWN (UNP RESIDUES 30-52); COMPND 15 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ORYCTOLAGUS CUNICULUS; SOURCE 3 ORGANISM_COMMON: RABBIT; SOURCE 4 ORGANISM_TAXID: 9986; SOURCE 5 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 6 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: ORYCTOLAGUS CUNICULUS; SOURCE 10 ORGANISM_COMMON: RABBIT; SOURCE 11 ORGANISM_TAXID: 9986; SOURCE 12 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 13 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 15 MOL_ID: 3; SOURCE 16 ORGANISM_SCIENTIFIC: HUMAN IMMUNODEFICIENCY VIRUS 1; SOURCE 17 ORGANISM_COMMON: HIV-1; SOURCE 18 ORGANISM_TAXID: 11676; SOURCE 19 GENE: ENV KEYWDS IG, ANTIBODY, IMMUNE SYSTEM-VIRAL PROTEIN COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR R.M.PAN,X.P.KONG REVDAT 4 20-NOV-24 4JO2 1 REMARK REVDAT 3 15-NOV-17 4JO2 1 REMARK REVDAT 2 04-SEP-13 4JO2 1 JRNL REVDAT 1 31-JUL-13 4JO2 0 JRNL AUTH R.PAN,J.M.SAMPSON,Y.CHEN,M.VAINE,S.WANG,S.LU,X.P.KONG JRNL TITL RABBIT ANTI-HIV-1 MONOCLONAL ANTIBODIES RAISED BY JRNL TITL 2 IMMUNIZATION CAN MIMIC THE ANTIGEN-BINDING MODES OF JRNL TITL 3 ANTIBODIES DERIVED FROM HIV-1-INFECTED HUMANS. JRNL REF J.VIROL. V. 87 10221 2013 JRNL REFN ISSN 0022-538X JRNL PMID 23864637 JRNL DOI 10.1128/JVI.00843-13 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.7.3_928) 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) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 26.47 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 30171 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.193 REMARK 3 R VALUE (WORKING SET) : 0.190 REMARK 3 FREE R VALUE : 0.265 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.190 REMARK 3 FREE R VALUE TEST SET COUNT : 1565 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 26.4666 - 5.3725 0.99 2913 156 0.2050 0.2693 REMARK 3 2 5.3725 - 4.2702 1.00 2901 143 0.1498 0.2243 REMARK 3 3 4.2702 - 3.7321 1.00 2853 190 0.1642 0.2297 REMARK 3 4 3.7321 - 3.3916 1.00 2871 154 0.1927 0.2413 REMARK 3 5 3.3916 - 3.1489 1.00 2824 157 0.2039 0.2771 REMARK 3 6 3.1489 - 2.9635 1.00 2890 154 0.1972 0.3112 REMARK 3 7 2.9635 - 2.8153 1.00 2830 168 0.2052 0.2721 REMARK 3 8 2.8153 - 2.6929 1.00 2831 161 0.2149 0.3203 REMARK 3 9 2.6929 - 2.5893 1.00 2852 146 0.2192 0.3244 REMARK 3 10 2.5893 - 2.5000 1.00 2841 136 0.2008 0.2834 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.20 REMARK 3 SHRINKAGE RADIUS : 0.98 REMARK 3 K_SOL : 0.31 REMARK 3 B_SOL : 32.28 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.380 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 23.540 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) : -0.42030 REMARK 3 B22 (A**2) : 1.07630 REMARK 3 B33 (A**2) : -0.65610 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.12220 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 : 0.008 6478 REMARK 3 ANGLE : 1.147 8836 REMARK 3 CHIRALITY : 0.070 1054 REMARK 3 PLANARITY : 0.005 1134 REMARK 3 DIHEDRAL : 14.717 2240 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 4JO2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-MAR-13. REMARK 100 THE DEPOSITION ID IS D_1000078288. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-JUN-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X6A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : CHANNEL CUT SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 270 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 30171 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 26.465 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 3.900 REMARK 200 R MERGE (I) : 0.12700 REMARK 200 R SYM (I) : 0.16100 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 8.9300 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 (%) : 89.9 REMARK 200 DATA REDUNDANCY IN SHELL : 4.00 REMARK 200 R MERGE FOR SHELL (I) : 0.60700 REMARK 200 R SYM FOR SHELL (I) : 0.58700 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.640 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.45 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.34 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 26% PEG6000, 1 M LITHIUM CHLORIDE, 0.1 REMARK 280 M TRIS, PH 8.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 296K 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 37.17500 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 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: 4520 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18850 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -60.0 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 350 REMARK 350 BIOMOLECULE: 2 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: 4450 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18960 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -61.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: M, I, Q 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 CYS H 124 REMARK 465 GLY H 125 REMARK 465 ASP H 126 REMARK 465 THR H 127 REMARK 465 PRO H 128 REMARK 465 SER H 129 REMARK 465 ASN P 301 REMARK 465 ASN P 302 REMARK 465 GLN P 313 REMARK 465 ALA P 314 REMARK 465 PHE P 315 REMARK 465 TYR P 316 REMARK 465 ALA P 317 REMARK 465 THR P 318 REMARK 465 GLY P 319 REMARK 465 ASP P 320 REMARK 465 ILE P 321 REMARK 465 ILE P 322 REMARK 465 GLY P 323 REMARK 465 CYS I 124 REMARK 465 GLY I 125 REMARK 465 ASP I 126 REMARK 465 THR I 127 REMARK 465 PRO I 128 REMARK 465 SER I 129 REMARK 465 ASN Q 301 REMARK 465 ASN Q 302 REMARK 465 GLN Q 313 REMARK 465 ALA Q 314 REMARK 465 PHE Q 315 REMARK 465 TYR Q 316 REMARK 465 ALA Q 317 REMARK 465 THR Q 318 REMARK 465 GLY Q 319 REMARK 465 ASP Q 320 REMARK 465 ILE Q 321 REMARK 465 ILE Q 322 REMARK 465 GLY Q 323 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 I 475 O HOH I 476 1.81 REMARK 500 O HOH M 527 O HOH M 529 1.82 REMARK 500 O HOH I 455 O HOH I 459 1.86 REMARK 500 O HOH I 487 O HOH I 488 1.96 REMARK 500 O GLY L 198 O HOH L 437 1.96 REMARK 500 O PRO M 119 O HOH M 446 1.98 REMARK 500 O HOH H 443 O HOH H 505 1.98 REMARK 500 OG SER M 187 O HOH M 505 1.98 REMARK 500 O SER L 56 O HOH L 473 2.05 REMARK 500 O HOH L 507 O HOH L 510 2.07 REMARK 500 OG1 THR H 83 O HOH H 415 2.07 REMARK 500 OG SER M 56 O HOH M 473 2.07 REMARK 500 OG SER L 201 O HOH L 440 2.11 REMARK 500 OG1 THR H 21 O HOH H 442 2.12 REMARK 500 O PRO H 41 O HOH H 482 2.13 REMARK 500 O HOH L 465 O HOH L 496 2.13 REMARK 500 NZ LYS H 64 O HOH H 450 2.14 REMARK 500 OG SER I 175 O HOH I 407 2.16 REMARK 500 O HOH I 462 O HOH I 465 2.17 REMARK 500 N THR H 161 O HOH H 434 2.17 REMARK 500 OD2 ASP I 55 O HOH I 422 2.18 REMARK 500 O GLY H 9 O HOH H 427 2.18 REMARK 500 OD1 ASN M 137 O HOH M 498 2.19 REMARK 500 N GLN H 2 O HOH H 428 2.19 REMARK 500 O HIS L 188 NH2 ARG L 208 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 PRO I 186 C - N - CA ANGL. DEV. = 10.2 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ASN L 31 -3.74 -144.30 REMARK 500 ASN L 32 82.99 -68.92 REMARK 500 ALA L 51 -37.31 72.73 REMARK 500 SER L 52 17.19 -151.81 REMARK 500 ALA L 84 -177.76 -178.61 REMARK 500 ASP H 10 -178.31 -175.95 REMARK 500 PHE H 29 36.66 -83.29 REMARK 500 ASP H 55 48.36 -143.97 REMARK 500 SER H 73 -168.25 -168.09 REMARK 500 PRO H 122 150.03 -49.48 REMARK 500 PRO H 143 -158.63 -91.13 REMARK 500 PRO H 145 -161.01 -105.07 REMARK 500 THR H 156 -37.38 -136.99 REMARK 500 THR H 181 -156.50 -90.41 REMARK 500 GLN H 185 127.23 98.98 REMARK 500 PRO H 186 109.47 -13.04 REMARK 500 SER P 306 -149.70 -163.92 REMARK 500 ASN M 30 -14.02 62.56 REMARK 500 ALA M 51 -35.67 71.48 REMARK 500 SER M 52 15.30 -154.44 REMARK 500 ALA M 84 -169.56 -169.24 REMARK 500 LYS M 138 76.54 43.20 REMARK 500 LYS M 189 -65.98 -120.03 REMARK 500 PHE I 29 23.81 -77.18 REMARK 500 ASP I 55 40.77 -158.75 REMARK 500 SER I 73 -168.85 -163.53 REMARK 500 PRO I 143 -167.29 -103.68 REMARK 500 PRO I 186 133.58 -24.31 REMARK 500 ASN I 197 10.39 59.93 REMARK 500 SER Q 306 -145.64 -133.67 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 CA L 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA L 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA H 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA M 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA M 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA I 301 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4JO1 RELATED DB: PDB REMARK 900 RELATED ID: 4JO3 RELATED DB: PDB REMARK 900 RELATED ID: 4JO4 RELATED DB: PDB DBREF 4JO2 P 301 323 UNP Q9YXH5 Q9YXH5_9HIV1 30 52 DBREF 4JO2 Q 301 323 UNP Q9YXH5 Q9YXH5_9HIV1 30 52 DBREF 4JO2 L 2 211 PDB 4JO2 4JO2 2 211 DBREF 4JO2 M 2 211 PDB 4JO2 4JO2 2 211 DBREF 4JO2 H 2 206 PDB 4JO2 4JO2 2 206 DBREF 4JO2 I 2 206 PDB 4JO2 4JO2 2 206 SEQRES 1 L 216 GLN VAL LEU THR GLN THR PRO SER SER VAL SER THR ALA SEQRES 2 L 216 VAL GLY SER ALA VAL THR ILE ASN CYS GLN SER SER GLN SEQRES 3 L 216 ASN VAL TYR SER ASN ASN ASN LEU ALA TRP PHE GLN GLN SEQRES 4 L 216 LYS PRO GLY GLN PRO PRO ARG LEU LEU ILE TYR ASP ALA SEQRES 5 L 216 SER LYS LEU ALA SER GLY VAL PRO SER ARG PHE LYS GLY SEQRES 6 L 216 SER GLY SER GLY THR GLN PHE THR PHE THR ILE SER ASP SEQRES 7 L 216 VAL GLN CYS ASP ASP ALA ALA THR PHE TYR CYS LEU GLY SEQRES 8 L 216 GLY TYR ASP CYS SER SER GLY ASP CYS ALA ALA PHE GLY SEQRES 9 L 216 GLY GLY THR GLU VAL VAL VAL ARG GLY ASP PRO VAL ALA SEQRES 10 L 216 PRO THR VAL LEU ILE PHE PRO PRO ALA ALA ASP GLN VAL SEQRES 11 L 216 ALA THR GLY THR VAL THR ILE VAL CYS VAL ALA ASN LYS SEQRES 12 L 216 TYR PHE PRO ASP VAL THR VAL THR TRP GLU VAL ASP GLY SEQRES 13 L 216 THR THR GLN THR THR GLY ILE GLU ASN SER LYS THR PRO SEQRES 14 L 216 GLN ASN SER ALA ASP CYS THR TYR ASN LEU SER SER THR SEQRES 15 L 216 LEU THR LEU THR SER THR GLN TYR ASN SER HIS LYS GLU SEQRES 16 L 216 TYR THR CYS LYS VAL THR GLN GLY THR THR SER VAL VAL SEQRES 17 L 216 GLN SER PHE ASN ARG GLY ASP CYS SEQRES 1 H 210 GLN SER LEU GLU GLU SER GLY GLY ASP LEU VAL GLN PRO SEQRES 2 H 210 GLY ALA SER LEU THR LEU THR CYS LYS ALA SER GLY PHE SEQRES 3 H 210 SER PHE GLY ASN ASN TYR ASP MET CYS TRP VAL ARG GLN SEQRES 4 H 210 ALA PRO GLY LYS GLY LEU GLU TRP ILE GLY CYS ILE GLU SEQRES 5 H 210 THR GLY SER SER ASP SER ALA ALA TYR ALA THR TRP ALA SEQRES 6 H 210 LYS GLY ARG PHE THR ILE SER LYS THR SER SER THR THR SEQRES 7 H 210 VAL THR LEU GLN MET THR SER LEU THR ALA ALA ASP THR SEQRES 8 H 210 ALA THR TYR PHE CYS ALA ARG ASN PHE ASP LEU TRP GLY SEQRES 9 H 210 PRO GLY THR LEU VAL ILE VAL SER SER GLY GLN PRO LYS SEQRES 10 H 210 ALA PRO SER VAL PHE PRO LEU ALA PRO CYS CYS GLY ASP SEQRES 11 H 210 THR PRO SER SER THR VAL THR LEU GLY CYS LEU VAL LYS SEQRES 12 H 210 GLY TYR LEU PRO GLU PRO VAL THR VAL THR TRP ASN SER SEQRES 13 H 210 GLY THR LEU THR ASN GLY VAL ARG THR PHE PRO SER VAL SEQRES 14 H 210 ARG GLN SER SER GLY LEU TYR SER LEU SER SER VAL VAL SEQRES 15 H 210 SER VAL THR SER SER SER GLN PRO VAL THR CYS ASN VAL SEQRES 16 H 210 ALA HIS PRO ALA THR ASN THR LYS VAL ASP LYS THR VAL SEQRES 17 H 210 ALA PRO 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 SEQRES 1 M 216 GLN VAL LEU THR GLN THR PRO SER SER VAL SER THR ALA SEQRES 2 M 216 VAL GLY SER ALA VAL THR ILE ASN CYS GLN SER SER GLN SEQRES 3 M 216 ASN VAL TYR SER ASN ASN ASN LEU ALA TRP PHE GLN GLN SEQRES 4 M 216 LYS PRO GLY GLN PRO PRO ARG LEU LEU ILE TYR ASP ALA SEQRES 5 M 216 SER LYS LEU ALA SER GLY VAL PRO SER ARG PHE LYS GLY SEQRES 6 M 216 SER GLY SER GLY THR GLN PHE THR PHE THR ILE SER ASP SEQRES 7 M 216 VAL GLN CYS ASP ASP ALA ALA THR PHE TYR CYS LEU GLY SEQRES 8 M 216 GLY TYR ASP CYS SER SER GLY ASP CYS ALA ALA PHE GLY SEQRES 9 M 216 GLY GLY THR GLU VAL VAL VAL ARG GLY ASP PRO VAL ALA SEQRES 10 M 216 PRO THR VAL LEU ILE PHE PRO PRO ALA ALA ASP GLN VAL SEQRES 11 M 216 ALA THR GLY THR VAL THR ILE VAL CYS VAL ALA ASN LYS SEQRES 12 M 216 TYR PHE PRO ASP VAL THR VAL THR TRP GLU VAL ASP GLY SEQRES 13 M 216 THR THR GLN THR THR GLY ILE GLU ASN SER LYS THR PRO SEQRES 14 M 216 GLN ASN SER ALA ASP CYS THR TYR ASN LEU SER SER THR SEQRES 15 M 216 LEU THR LEU THR SER THR GLN TYR ASN SER HIS LYS GLU SEQRES 16 M 216 TYR THR CYS LYS VAL THR GLN GLY THR THR SER VAL VAL SEQRES 17 M 216 GLN SER PHE ASN ARG GLY ASP CYS SEQRES 1 I 210 GLN SER LEU GLU GLU SER GLY GLY ASP LEU VAL GLN PRO SEQRES 2 I 210 GLY ALA SER LEU THR LEU THR CYS LYS ALA SER GLY PHE SEQRES 3 I 210 SER PHE GLY ASN ASN TYR ASP MET CYS TRP VAL ARG GLN SEQRES 4 I 210 ALA PRO GLY LYS GLY LEU GLU TRP ILE GLY CYS ILE GLU SEQRES 5 I 210 THR GLY SER SER ASP SER ALA ALA TYR ALA THR TRP ALA SEQRES 6 I 210 LYS GLY ARG PHE THR ILE SER LYS THR SER SER THR THR SEQRES 7 I 210 VAL THR LEU GLN MET THR SER LEU THR ALA ALA ASP THR SEQRES 8 I 210 ALA THR TYR PHE CYS ALA ARG ASN PHE ASP LEU TRP GLY SEQRES 9 I 210 PRO GLY THR LEU VAL ILE VAL SER SER GLY GLN PRO LYS SEQRES 10 I 210 ALA PRO SER VAL PHE PRO LEU ALA PRO CYS CYS GLY ASP SEQRES 11 I 210 THR PRO SER SER THR VAL THR LEU GLY CYS LEU VAL LYS SEQRES 12 I 210 GLY TYR LEU PRO GLU PRO VAL THR VAL THR TRP ASN SER SEQRES 13 I 210 GLY THR LEU THR ASN GLY VAL ARG THR PHE PRO SER VAL SEQRES 14 I 210 ARG GLN SER SER GLY LEU TYR SER LEU SER SER VAL VAL SEQRES 15 I 210 SER VAL THR SER SER SER GLN PRO VAL THR CYS ASN VAL SEQRES 16 I 210 ALA HIS PRO ALA THR ASN THR LYS VAL ASP LYS THR VAL SEQRES 17 I 210 ALA PRO SEQRES 1 Q 23 ASN ASN THR ARG LYS SER ILE ARG ILE GLY PRO GLY GLN SEQRES 2 Q 23 ALA PHE TYR ALA THR GLY ASP ILE ILE GLY HET CA L 301 1 HET CA L 302 1 HET CA H 301 1 HET CA M 301 1 HET CA M 302 1 HET CA I 301 1 HETNAM CA CALCIUM ION FORMUL 7 CA 6(CA 2+) FORMUL 13 HOH *479(H2 O) HELIX 1 1 VAL L 27B ASN L 31 5 5 HELIX 2 2 GLN L 79 ALA L 83 5 5 HELIX 3 3 SER L 182 ASN L 186 1 5 HELIX 4 4 THR H 83 THR H 87 5 5 HELIX 5 5 SER H 152 THR H 154 5 3 HELIX 6 6 PRO H 194 ASN H 197 5 4 HELIX 7 7 VAL M 27B ASN M 31 5 5 HELIX 8 8 GLN M 79 ALA M 83 5 5 HELIX 9 9 ALA M 121 THR M 127 1 7 HELIX 10 10 SER M 182 SER M 187 1 6 HELIX 11 11 GLY M 209 CYS M 211 5 3 HELIX 12 12 THR I 83 THR I 87 5 5 HELIX 13 13 SER I 152 THR I 154 5 3 HELIX 14 14 PRO I 194 ASN I 197 5 4 SHEET 1 A 4 LEU L 4 THR L 7 0 SHEET 2 A 4 VAL L 19 SER L 25 -1 O ASN L 22 N THR L 7 SHEET 3 A 4 GLN L 70 ILE L 75 -1 O PHE L 71 N CYS L 23 SHEET 4 A 4 PHE L 62 SER L 67 -1 N LYS L 63 O THR L 74 SHEET 1 B 6 SER L 10 ALA L 14 0 SHEET 2 B 6 THR L 102 ARG L 107 1 O ARG L 107 N THR L 13 SHEET 3 B 6 ALA L 84 GLY L 91 -1 N PHE L 86 O THR L 102 SHEET 4 B 6 LEU L 33 GLN L 38 -1 N PHE L 36 O TYR L 87 SHEET 5 B 6 ARG L 45 TYR L 49 -1 O LEU L 47 N TRP L 35 SHEET 6 B 6 LYS L 53 LEU L 54 -1 O LYS L 53 N TYR L 49 SHEET 1 C 4 SER L 10 ALA L 14 0 SHEET 2 C 4 THR L 102 ARG L 107 1 O ARG L 107 N THR L 13 SHEET 3 C 4 ALA L 84 GLY L 91 -1 N PHE L 86 O THR L 102 SHEET 4 C 4 ALA L 96 PHE L 98 -1 O ALA L 97 N GLY L 90 SHEET 1 D 4 THR L 114 PHE L 118 0 SHEET 2 D 4 THR L 129 TYR L 139 -1 O ASN L 137 N THR L 114 SHEET 3 D 4 TYR L 172 THR L 181 -1 O SER L 176 N CYS L 134 SHEET 4 D 4 ILE L 158 LYS L 162 -1 N SER L 161 O SER L 175 SHEET 1 E 4 THR L 152 THR L 153 0 SHEET 2 E 4 THR L 144 VAL L 149 -1 N VAL L 149 O THR L 152 SHEET 3 E 4 GLU L 190 GLN L 197 -1 O THR L 192 N GLU L 148 SHEET 4 E 4 THR L 200 ASN L 207 -1 O THR L 200 N GLN L 197 SHEET 1 F 4 SER H 3 SER H 7 0 SHEET 2 F 4 LEU H 18 SER H 25 -1 O LYS H 23 N GLU H 5 SHEET 3 F 4 THR H 76 MET H 81 -1 O LEU H 79 N LEU H 20 SHEET 4 F 4 THR H 68 LYS H 71 -1 N THR H 68 O GLN H 80 SHEET 1 G 6 LEU H 11 VAL H 12 0 SHEET 2 G 6 THR H 103 VAL H 107 1 O ILE H 106 N VAL H 12 SHEET 3 G 6 ALA H 88 ARG H 94 -1 N TYR H 90 O THR H 103 SHEET 4 G 6 ASP H 34 GLN H 39 -1 N VAL H 37 O PHE H 91 SHEET 5 G 6 GLU H 46 GLU H 52 -1 O GLU H 46 N ARG H 38 SHEET 6 G 6 ALA H 57 TYR H 59 -1 O ALA H 58 N CYS H 50 SHEET 1 H 4 LEU H 11 VAL H 12 0 SHEET 2 H 4 THR H 103 VAL H 107 1 O ILE H 106 N VAL H 12 SHEET 3 H 4 ALA H 88 ARG H 94 -1 N TYR H 90 O THR H 103 SHEET 4 H 4 LEU H 98 TRP H 99 -1 O LEU H 98 N ARG H 94 SHEET 1 I 4 SER H 116 LEU H 120 0 SHEET 2 I 4 VAL H 132 TYR H 141 -1 O GLY H 135 N LEU H 120 SHEET 3 I 4 TYR H 172 VAL H 180 -1 O VAL H 180 N VAL H 132 SHEET 4 I 4 VAL H 159 THR H 161 -1 N ARG H 160 O VAL H 177 SHEET 1 J 4 SER H 116 LEU H 120 0 SHEET 2 J 4 VAL H 132 TYR H 141 -1 O GLY H 135 N LEU H 120 SHEET 3 J 4 TYR H 172 VAL H 180 -1 O VAL H 180 N VAL H 132 SHEET 4 J 4 VAL H 165 ARG H 166 -1 N VAL H 165 O SER H 173 SHEET 1 K 3 THR H 147 TRP H 150 0 SHEET 2 K 3 VAL H 187 HIS H 193 -1 O ASN H 190 N THR H 149 SHEET 3 K 3 THR H 198 VAL H 204 -1 O VAL H 200 N VAL H 191 SHEET 1 L 4 LEU M 4 THR M 7 0 SHEET 2 L 4 VAL M 19 SER M 25 -1 O GLN M 24 N THR M 5 SHEET 3 L 4 GLN M 70 ILE M 75 -1 O PHE M 73 N ILE M 21 SHEET 4 L 4 PHE M 62 SER M 67 -1 N SER M 65 O THR M 72 SHEET 1 M 6 SER M 10 ALA M 14 0 SHEET 2 M 6 THR M 102 ARG M 107 1 O ARG M 107 N THR M 13 SHEET 3 M 6 ALA M 84 GLY M 91 -1 N ALA M 84 O VAL M 104 SHEET 4 M 6 LEU M 33 GLN M 38 -1 N GLN M 38 O THR M 85 SHEET 5 M 6 ARG M 45 TYR M 49 -1 O ARG M 45 N GLN M 37 SHEET 6 M 6 LYS M 53 LEU M 54 -1 O LYS M 53 N TYR M 49 SHEET 1 N 4 SER M 10 ALA M 14 0 SHEET 2 N 4 THR M 102 ARG M 107 1 O ARG M 107 N THR M 13 SHEET 3 N 4 ALA M 84 GLY M 91 -1 N ALA M 84 O VAL M 104 SHEET 4 N 4 ALA M 96 PHE M 98 -1 O ALA M 97 N GLY M 90 SHEET 1 O 4 THR M 114 PHE M 118 0 SHEET 2 O 4 THR M 129 TYR M 139 -1 O VAL M 133 N PHE M 118 SHEET 3 O 4 TYR M 172 THR M 181 -1 O LEU M 180 N VAL M 130 SHEET 4 O 4 ILE M 158 LYS M 162 -1 N SER M 161 O SER M 175 SHEET 1 P 4 THR M 152 THR M 153 0 SHEET 2 P 4 THR M 144 VAL M 149 -1 N VAL M 149 O THR M 152 SHEET 3 P 4 GLU M 190 GLN M 197 -1 O LYS M 194 N THR M 146 SHEET 4 P 4 THR M 200 ASN M 207 -1 O VAL M 202 N VAL M 195 SHEET 1 Q 4 SER I 3 SER I 7 0 SHEET 2 Q 4 LEU I 18 SER I 25 -1 O LYS I 23 N GLU I 5 SHEET 3 Q 4 THR I 76 MET I 81 -1 O VAL I 77 N CYS I 22 SHEET 4 Q 4 PHE I 67 LYS I 71 -1 N THR I 68 O GLN I 80 SHEET 1 R 6 LEU I 11 VAL I 12 0 SHEET 2 R 6 THR I 103 VAL I 107 1 O ILE I 106 N VAL I 12 SHEET 3 R 6 ALA I 88 ARG I 94 -1 N TYR I 90 O THR I 103 SHEET 4 R 6 ASP I 34 GLN I 39 -1 N VAL I 37 O PHE I 91 SHEET 5 R 6 LEU I 45 GLU I 52 -1 O GLU I 46 N ARG I 38 SHEET 6 R 6 ALA I 57 TYR I 59 -1 O ALA I 58 N CYS I 50 SHEET 1 S 4 LEU I 11 VAL I 12 0 SHEET 2 S 4 THR I 103 VAL I 107 1 O ILE I 106 N VAL I 12 SHEET 3 S 4 ALA I 88 ARG I 94 -1 N TYR I 90 O THR I 103 SHEET 4 S 4 LEU I 98 TRP I 99 -1 O LEU I 98 N ARG I 94 SHEET 1 T 4 SER I 116 LEU I 120 0 SHEET 2 T 4 VAL I 132 TYR I 141 -1 O GLY I 135 N LEU I 120 SHEET 3 T 4 TYR I 172 VAL I 180 -1 O LEU I 174 N VAL I 138 SHEET 4 T 4 VAL I 159 THR I 161 -1 N ARG I 160 O VAL I 177 SHEET 1 U 4 SER I 116 LEU I 120 0 SHEET 2 U 4 VAL I 132 TYR I 141 -1 O GLY I 135 N LEU I 120 SHEET 3 U 4 TYR I 172 VAL I 180 -1 O LEU I 174 N VAL I 138 SHEET 4 U 4 VAL I 165 ARG I 166 -1 N VAL I 165 O SER I 173 SHEET 1 V 3 THR I 147 TRP I 150 0 SHEET 2 V 3 VAL I 187 HIS I 193 -1 O ASN I 190 N THR I 149 SHEET 3 V 3 THR I 198 VAL I 204 -1 O VAL I 200 N VAL I 191 SSBOND 1 CYS L 23 CYS L 88 1555 1555 2.02 SSBOND 2 CYS L 80 CYS L 170 1555 1555 2.06 SSBOND 3 CYS L 94 CYS L 95D 1555 1555 2.04 SSBOND 4 CYS L 134 CYS L 193 1555 1555 2.03 SSBOND 5 CYS L 211 CYS H 123 1555 1555 2.03 SSBOND 6 CYS H 22 CYS H 92 1555 1555 2.04 SSBOND 7 CYS H 35A CYS H 50 1555 1555 2.04 SSBOND 8 CYS H 136 CYS H 189 1555 1555 2.04 SSBOND 9 CYS M 23 CYS M 88 1555 1555 2.02 SSBOND 10 CYS M 80 CYS M 170 1555 1555 2.05 SSBOND 11 CYS M 94 CYS M 95D 1555 1555 2.05 SSBOND 12 CYS M 134 CYS M 193 1555 1555 2.03 SSBOND 13 CYS M 211 CYS I 123 1555 1555 2.04 SSBOND 14 CYS I 22 CYS I 92 1555 1555 2.03 SSBOND 15 CYS I 35A CYS I 50 1555 1555 2.05 SSBOND 16 CYS I 136 CYS I 189 1555 1555 2.03 CISPEP 1 THR L 7 PRO L 8 0 -0.24 CISPEP 2 PHE L 140 PRO L 141 0 4.92 CISPEP 3 LEU H 142 PRO H 143 0 -9.75 CISPEP 4 GLU H 144 PRO H 145 0 1.36 CISPEP 5 SER H 183 SER H 184 0 0.16 CISPEP 6 SER H 184 GLN H 185 0 24.01 CISPEP 7 THR M 7 PRO M 8 0 0.65 CISPEP 8 PHE M 140 PRO M 141 0 5.39 CISPEP 9 LEU I 142 PRO I 143 0 -8.75 CISPEP 10 GLU I 144 PRO I 145 0 -1.09 CISPEP 11 SER I 182 SER I 183 0 9.81 SITE 1 AC1 2 TRP H 47 PHE L 98 SITE 1 AC2 2 PRO L 8 SER L 9 SITE 1 AC3 1 TYR H 59 SITE 1 AC4 2 TRP I 47 PHE M 98 SITE 1 AC5 2 PRO M 8 SER M 9 SITE 1 AC6 1 TYR I 59 CRYST1 69.840 74.350 84.960 90.00 90.00 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 0.014318 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013450 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011770 0.00000