HEADER VIRAL PROTEIN/IMMUNE SYSTEM 20-NOV-06 2NY5 TITLE HIV-1 GP120 ENVELOPE GLYCOPROTEIN (M95W, W96C, I109C, T257S, V275C, TITLE 2 S334A, S375W, Q428C, A433M) COMPLEXED WITH CD4 AND ANTIBODY 17B COMPND MOL_ID: 1; COMPND 2 MOLECULE: ENVELOPE GLYCOPROTEIN GP120; COMPND 3 CHAIN: G; COMPND 4 FRAGMENT: CORE; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: T-CELL SURFACE GLYCOPROTEIN CD4; COMPND 9 CHAIN: C; COMPND 10 FRAGMENT: D1D2, N-TERMINAL TWO DOMAIN FRAGMENT; COMPND 11 SYNONYM: T-CELL SURFACE ANTIGEN T4/LEU-3; COMPND 12 ENGINEERED: YES; COMPND 13 MOL_ID: 3; COMPND 14 MOLECULE: ANTIBODY 17B, LIGHT CHAIN; COMPND 15 CHAIN: L; COMPND 16 FRAGMENT: ANTIGEN-BINDING FRAGMENT, FAB; COMPND 17 ENGINEERED: YES; COMPND 18 MOL_ID: 4; COMPND 19 MOLECULE: ANTIBODY 17B, HEAVY CHAIN; COMPND 20 CHAIN: H; COMPND 21 FRAGMENT: ANTIGEN-BINDING FRAGMENT, FAB; COMPND 22 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HUMAN IMMUNODEFICIENCY VIRUS 1; SOURCE 3 ORGANISM_TAXID: 11676; SOURCE 4 STRAIN: HXBC2; SOURCE 5 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 6 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 8 EXPRESSION_SYSTEM_CELL_LINE: EMBRYONIC CELL LINE 293; SOURCE 9 EXPRESSION_SYSTEM_ORGAN: KIDNEY; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: CMVR; SOURCE 12 MOL_ID: 2; SOURCE 13 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 14 ORGANISM_COMMON: HUMAN; SOURCE 15 ORGANISM_TAXID: 9606; SOURCE 16 GENE: CD4; SOURCE 17 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 18 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 19 MOL_ID: 3; SOURCE 20 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 21 ORGANISM_COMMON: HUMAN; SOURCE 22 ORGANISM_TAXID: 9606; SOURCE 23 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 24 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 25 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 26 EXPRESSION_SYSTEM_CELL_LINE: EPSTEIN-BARR VIRUS IMMORTALIZED B-CELL SOURCE 27 CLONE FUSED WITH A MURINE B-CELL FUSION PARTNER; SOURCE 28 MOL_ID: 4; SOURCE 29 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 30 ORGANISM_COMMON: HUMAN; SOURCE 31 ORGANISM_TAXID: 9606; SOURCE 32 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 33 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 34 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 35 EXPRESSION_SYSTEM_CELL_LINE: EPSTEIN-BARR VIRUS IMMORTALIZED B-CELL SOURCE 36 CLONE FUSED WITH A MURINE B-CELL FUSION PARTNER KEYWDS HIV, GP120, ANTIBODY, CD4, VIRAL PROTEIN-IMMUNE SYSTEM COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR T.ZHOU,L.XU,B.DEY,A.J.HESSELL,D.VAN RYK,S.H.XIANG,X.YANG,M.Y.ZHANG, AUTHOR 2 M.B.ZWICK,J.ARTHOS,D.R.BURTON,D.S.DIMITROV,J.SODROSKI,R.WYATT, AUTHOR 3 G.J.NABEL,P.D.KWONG REVDAT 8 13-NOV-24 2NY5 1 REMARK REVDAT 7 30-AUG-23 2NY5 1 HETSYN REVDAT 6 29-JUL-20 2NY5 1 COMPND SEQADV HET HETNAM REVDAT 6 2 1 FORMUL LINK ATOM REVDAT 5 18-OCT-17 2NY5 1 REMARK REVDAT 4 13-JUL-11 2NY5 1 VERSN REVDAT 3 24-FEB-09 2NY5 1 VERSN REVDAT 2 27-FEB-07 2NY5 1 JRNL REVDAT 1 06-FEB-07 2NY5 0 JRNL AUTH T.ZHOU,L.XU,B.DEY,A.J.HESSELL,D.VAN RYK,S.H.XIANG,X.YANG, JRNL AUTH 2 M.Y.ZHANG,M.B.ZWICK,J.ARTHOS,D.R.BURTON,D.S.DIMITROV, JRNL AUTH 3 J.SODROSKI,R.WYATT,G.J.NABEL,P.D.KWONG JRNL TITL STRUCTURAL DEFINITION OF A CONSERVED NEUTRALIZATION EPITOPE JRNL TITL 2 ON HIV-1 GP120. JRNL REF NATURE V. 445 732 2007 JRNL REFN ISSN 0028-0836 JRNL PMID 17301785 JRNL DOI 10.1038/NATURE05580 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.97 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 81.6 REMARK 3 NUMBER OF REFLECTIONS : 34804 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.201 REMARK 3 R VALUE (WORKING SET) : 0.198 REMARK 3 FREE R VALUE : 0.255 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1828 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.56 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1160 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 37.33 REMARK 3 BIN R VALUE (WORKING SET) : 0.3200 REMARK 3 BIN FREE R VALUE SET COUNT : 61 REMARK 3 BIN FREE R VALUE : 0.3910 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7078 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 149 REMARK 3 SOLVENT ATOMS : 320 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.92 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.07000 REMARK 3 B22 (A**2) : 0.03000 REMARK 3 B33 (A**2) : 0.04000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.689 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.323 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.221 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 19.497 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.934 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.895 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 7397 ; 0.006 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 10056 ; 0.883 ; 1.972 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 914 ; 4.683 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 304 ;33.282 ;25.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1228 ;14.854 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 31 ;16.074 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1157 ; 0.056 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5447 ; 0.002 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2915 ; 0.220 ; 0.300 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 4963 ; 0.323 ; 0.500 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 637 ; 0.246 ; 0.500 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 51 ; 0.176 ; 0.300 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 18 ; 0.208 ; 0.500 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 4660 ; 0.458 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 7407 ; 0.799 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 3059 ; 0.377 ; 2.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2649 ; 0.612 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 8 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : G 83 G 255 REMARK 3 RESIDUE RANGE : G 734 G 734 REMARK 3 ORIGIN FOR THE GROUP (A): 23.6396 -26.2731 79.4992 REMARK 3 T TENSOR REMARK 3 T11: 0.1666 T22: -0.0153 REMARK 3 T33: 0.0684 T12: -0.1052 REMARK 3 T13: -0.0082 T23: -0.0793 REMARK 3 L TENSOR REMARK 3 L11: 2.4556 L22: 8.8564 REMARK 3 L33: 2.1678 L12: -2.0806 REMARK 3 L13: 0.6368 L23: -1.0290 REMARK 3 S TENSOR REMARK 3 S11: 0.0587 S12: 0.1403 S13: -0.5968 REMARK 3 S21: -0.2547 S22: -0.0457 S23: 0.2230 REMARK 3 S31: 0.5253 S32: 0.0754 S33: -0.0130 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : G 256 G 491 REMARK 3 RESIDUE RANGE : G 762 G 948 REMARK 3 ORIGIN FOR THE GROUP (A): 36.6045 -17.2314 90.4230 REMARK 3 T TENSOR REMARK 3 T11: -0.1271 T22: -0.1957 REMARK 3 T33: -0.1176 T12: -0.0123 REMARK 3 T13: 0.0085 T23: 0.0630 REMARK 3 L TENSOR REMARK 3 L11: 2.5344 L22: 3.2983 REMARK 3 L33: 2.7106 L12: -0.8554 REMARK 3 L13: 0.2192 L23: -0.1737 REMARK 3 S TENSOR REMARK 3 S11: 0.0124 S12: -0.1185 S13: -0.2250 REMARK 3 S21: 0.0780 S22: -0.0115 S23: -0.2671 REMARK 3 S31: 0.1777 S32: 0.2653 S33: -0.0010 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 1001 C 1097 REMARK 3 ORIGIN FOR THE GROUP (A): 44.9125 -8.0824 67.7164 REMARK 3 T TENSOR REMARK 3 T11: 0.0946 T22: -0.0611 REMARK 3 T33: -0.0529 T12: 0.0218 REMARK 3 T13: 0.1311 T23: 0.0675 REMARK 3 L TENSOR REMARK 3 L11: 8.3946 L22: 2.8758 REMARK 3 L33: 3.6711 L12: 2.8872 REMARK 3 L13: -3.3804 L23: -1.8180 REMARK 3 S TENSOR REMARK 3 S11: -0.1275 S12: 0.5365 S13: -0.3981 REMARK 3 S21: -0.4348 S22: -0.0132 S23: -0.3588 REMARK 3 S31: 0.2195 S32: 0.0676 S33: 0.1407 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 1098 C 1181 REMARK 3 ORIGIN FOR THE GROUP (A): 62.7099 16.7628 56.0303 REMARK 3 T TENSOR REMARK 3 T11: -0.0629 T22: 0.0378 REMARK 3 T33: -0.1661 T12: -0.0079 REMARK 3 T13: 0.0709 T23: 0.0074 REMARK 3 L TENSOR REMARK 3 L11: 4.3141 L22: 10.0038 REMARK 3 L33: 3.9798 L12: 2.9471 REMARK 3 L13: -0.2523 L23: -2.8882 REMARK 3 S TENSOR REMARK 3 S11: -0.1401 S12: -0.4603 S13: -0.2967 REMARK 3 S21: 0.1072 S22: -0.0718 S23: 0.0931 REMARK 3 S31: 0.3904 S32: -0.2629 S33: 0.2119 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : L 2001 L 2110 REMARK 3 ORIGIN FOR THE GROUP (A): 3.3181 22.3582 90.6235 REMARK 3 T TENSOR REMARK 3 T11: -0.1892 T22: -0.1214 REMARK 3 T33: -0.2433 T12: -0.0196 REMARK 3 T13: 0.0178 T23: -0.0166 REMARK 3 L TENSOR REMARK 3 L11: 1.9461 L22: 5.9748 REMARK 3 L33: 2.4561 L12: -1.7577 REMARK 3 L13: -0.2872 L23: 1.2469 REMARK 3 S TENSOR REMARK 3 S11: -0.0304 S12: -0.2701 S13: -0.1188 REMARK 3 S21: 0.3083 S22: -0.1329 S23: 0.2456 REMARK 3 S31: -0.0446 S32: -0.2194 S33: 0.1633 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : L 2111 L 2214 REMARK 3 ORIGIN FOR THE GROUP (A): -12.2378 49.8006 73.4048 REMARK 3 T TENSOR REMARK 3 T11: 0.1039 T22: 0.1907 REMARK 3 T33: 0.0524 T12: 0.3248 REMARK 3 T13: -0.1199 T23: -0.1110 REMARK 3 L TENSOR REMARK 3 L11: 1.2972 L22: 2.3406 REMARK 3 L33: 12.1045 L12: -1.1625 REMARK 3 L13: 0.7742 L23: -1.2837 REMARK 3 S TENSOR REMARK 3 S11: 0.0367 S12: 0.2990 S13: 0.4360 REMARK 3 S21: -0.3752 S22: -0.3061 S23: 0.3628 REMARK 3 S31: -1.2748 S32: -1.3139 S33: 0.2694 REMARK 3 REMARK 3 TLS GROUP : 7 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : H 3001 H 3128 REMARK 3 ORIGIN FOR THE GROUP (A): 15.4856 18.3657 73.0787 REMARK 3 T TENSOR REMARK 3 T11: -0.2161 T22: -0.2119 REMARK 3 T33: -0.2112 T12: 0.0299 REMARK 3 T13: 0.0068 T23: -0.0133 REMARK 3 L TENSOR REMARK 3 L11: 0.9632 L22: 3.4250 REMARK 3 L33: 4.4187 L12: -1.3107 REMARK 3 L13: 1.0383 L23: -2.2175 REMARK 3 S TENSOR REMARK 3 S11: 0.0228 S12: 0.0484 S13: -0.0323 REMARK 3 S21: -0.1728 S22: -0.0848 S23: -0.1481 REMARK 3 S31: 0.1658 S32: 0.0971 S33: 0.0620 REMARK 3 REMARK 3 TLS GROUP : 8 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : H 3129 H 3228 REMARK 3 ORIGIN FOR THE GROUP (A): 4.3310 51.5849 69.3519 REMARK 3 T TENSOR REMARK 3 T11: 0.2552 T22: -0.1451 REMARK 3 T33: -0.0352 T12: -0.0284 REMARK 3 T13: -0.0364 T23: -0.0440 REMARK 3 L TENSOR REMARK 3 L11: 2.4663 L22: 7.3557 REMARK 3 L33: 7.4103 L12: 0.2137 REMARK 3 L13: 0.4860 L23: 4.5786 REMARK 3 S TENSOR REMARK 3 S11: -0.0889 S12: -0.0888 S13: 0.6060 REMARK 3 S21: -0.5170 S22: 0.3061 S23: -0.1831 REMARK 3 S31: -1.6062 S32: 0.3766 S33: -0.2172 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: AUTHORS STATE THAT BECAUSE CRYSTALS REMARK 3 WERE SMALL AND SUBJECT TO HIGH RADIATION DOSAGES DURING DATA REMARK 3 COLLECTION, DIFFERENCE FOURIERS COMPARING THE INITIAL AND FINAL REMARK 3 SWATCHES OF DATA WERE INSPECTED TO IDENTIFY RADIATION-INDUCED REMARK 3 DISULFIDE BREAKAGE, AND THE REFINED MODELS WERE ADJUSTED TO REMARK 3 REFLECT THE INITIAL, RADIATION-DAMAGE FREE STRUCTURE. HYDROGENS REMARK 3 HAVE BEEN ADDED IN THE RIDING POSITIONS. REMARK 4 REMARK 4 2NY5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-JAN-07. REMARK 100 THE DEPOSITION ID IS D_1000040447. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-OCT-03 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9794 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 37534 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 84.9 REMARK 200 DATA REDUNDANCY : 3.900 REMARK 200 R MERGE (I) : 0.16300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.2000 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) : 2.59 REMARK 200 COMPLETENESS FOR SHELL (%) : 62.9 REMARK 200 DATA REDUNDANCY IN SHELL : 2.70 REMARK 200 R MERGE FOR SHELL (I) : 0.47800 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: CNS REMARK 200 STARTING MODEL: PDB ENTRY 1GC1 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.83 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.06 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 9.2% PEG 4000, 9.5% MPD, 100 MM NA REMARK 280 CITRATE , PH 5.6, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 98.66700 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 98.66700 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 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 APPLY THE FOLLOWING TO CHAINS: G, C, L, H, 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 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 SER G 398 REMARK 465 THR G 399 REMARK 465 TRP G 400 REMARK 465 SER G 401 REMARK 465 THR G 402 REMARK 465 GLU G 403 REMARK 465 GLY G 404 REMARK 465 SER G 405 REMARK 465 ASN G 406 REMARK 465 ASN G 407 REMARK 465 THR G 408 REMARK 465 GLU G 409 REMARK 465 GLU G 492 REMARK 465 MET C 1000 REMARK 465 ALA C 1182 REMARK 465 SER C 1183 REMARK 465 SER H 3142 REMARK 465 SER H 3143 REMARK 465 LYS H 3144 REMARK 465 SER H 3145 REMARK 465 THR H 3146 REMARK 465 SER H 3147 REMARK 465 GLY H 3148 REMARK 465 LYS H 3229 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 GLY H 3154 O HOH H 59 1.62 REMARK 500 OH TYR L 2091 O HOH L 195 1.74 REMARK 500 O GLY G 451 O HOH G 1001 1.87 REMARK 500 N GLY L 2050 O HOH L 195 1.91 REMARK 500 O HOH G 1017 O HOH G 1036 1.96 REMARK 500 O LYS L 2209 O HOH L 107 1.97 REMARK 500 O SER H 3135 O HOH H 105 1.98 REMARK 500 OG1 THR G 248 O HOH G 965 2.03 REMARK 500 O LYS G 357 O HOH G 963 2.05 REMARK 500 ND2 ASN G 234 C2 NAG G 734 2.10 REMARK 500 OD2 ASP H 3090 O HOH H 202 2.10 REMARK 500 N GLU G 83 O HOH G 1027 2.11 REMARK 500 NE2 GLN C 1148 O HOH C 76 2.12 REMARK 500 N LYS H 3158 O HOH H 105 2.13 REMARK 500 SG CYS L 2023 O HOH L 91 2.17 REMARK 500 SD MET G 426 O HOH G 1006 2.17 REMARK 500 ND2 ASN G 289 C2 NAG G 789 2.18 REMARK 500 ND2 ASN G 448 C2 NAG G 948 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 GLY L2214 CA GLY L2214 C 0.107 REMARK 500 GLY L2214 C GLY L2214 O 0.191 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 CYS G 126 53.59 -115.43 REMARK 500 PRO G 212 124.74 -38.54 REMARK 500 GLN G 258 -50.00 62.75 REMARK 500 GLU G 268 -85.50 -135.32 REMARK 500 ASN G 276 91.55 -177.43 REMARK 500 ASN G 392 66.30 -160.12 REMARK 500 GLN G 442 57.46 -140.70 REMARK 500 ASN G 460 107.04 -56.57 REMARK 500 LEU C1037 144.35 -173.46 REMARK 500 PRO C1048 49.86 -84.75 REMARK 500 ASN C1052 -56.24 -21.65 REMARK 500 SER C1057 -165.45 -128.56 REMARK 500 ASP C1080 -175.88 -173.81 REMARK 500 GLU C1087 47.79 32.02 REMARK 500 ASP C1088 65.44 61.02 REMARK 500 GLN C1089 140.71 -177.35 REMARK 500 SER C1124 117.34 176.98 REMARK 500 GLN C1165 -2.27 69.38 REMARK 500 SER L2030 -119.20 55.84 REMARK 500 ALA L2051 -39.59 80.76 REMARK 500 SER L2052 13.36 -143.44 REMARK 500 SER L2077 87.68 -162.01 REMARK 500 ALA L2084 -165.94 -162.49 REMARK 500 TYR L2091 47.39 -142.35 REMARK 500 ASN L2140 70.39 46.45 REMARK 500 LYS L2192 -66.18 -101.57 REMARK 500 GLN H3065 125.70 -31.44 REMARK 500 LEU H3139 68.08 -112.02 REMARK 500 ASP H3159 60.33 70.28 REMARK 500 THR H3206 -53.50 -122.89 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1GC1 RELATED DB: PDB REMARK 900 THE SAME TERNARY COMPLEX AT 2.5 A REMARK 900 RELATED ID: 1RZJ RELATED DB: PDB REMARK 900 THE SAME TERNARY COMPLEX AT 2.2 A REMARK 900 RELATED ID: 1RZK RELATED DB: PDB REMARK 900 THE SAME TERNARY COMPLEX FROM A PRIMARY ISOLATE REMARK 900 RELATED ID: 2NXY RELATED DB: PDB REMARK 900 RELATED ID: 2NXZ RELATED DB: PDB REMARK 900 RELATED ID: 2NY0 RELATED DB: PDB REMARK 900 RELATED ID: 2NY1 RELATED DB: PDB REMARK 900 RELATED ID: 2NY2 RELATED DB: PDB REMARK 900 RELATED ID: 2NY3 RELATED DB: PDB REMARK 900 RELATED ID: 2NY4 RELATED DB: PDB REMARK 900 RELATED ID: 2NY6 RELATED DB: PDB REMARK 900 RELATED ID: 2NY7 RELATED DB: PDB DBREF 2NY5 C 1001 1183 UNP P01730 CD4_HUMAN 26 208 DBREF 2NY5 G 195 472 UNP Q71057 Q71057_9HIV1 102 350 DBREF 2NY5 L 2002 2214 UNP Q6P5S8 Q6P5S8_HUMAN 22 234 DBREF 2NY5 H 3001 3229 UNP Q6PJA4 Q6PJA4_HUMAN 20 241 SEQADV 2NY5 MET C 1000 UNP P01730 INITIATING METHIONINE SEQRES 1 G 317 GLU VAL VAL LEU VAL ASN VAL THR GLU ASN PHE ASN TRP SEQRES 2 G 317 CYS LYS ASN ASP MET VAL GLU GLN MET HIS GLU ASP ILE SEQRES 3 G 317 CYS SER LEU TRP ASP GLN SER LEU LYS PRO CYS VAL LYS SEQRES 4 G 317 LEU THR PRO LEU CYS VAL GLY ALA GLY SER CYS ASN THR SEQRES 5 G 317 SER VAL ILE THR GLN ALA CYS PRO LYS VAL SER PHE GLU SEQRES 6 G 317 PRO ILE PRO ILE HIS TYR CYS ALA PRO ALA GLY PHE ALA SEQRES 7 G 317 ILE LEU LYS CYS ASN ASN LYS THR PHE ASN GLY THR GLY SEQRES 8 G 317 PRO CYS THR ASN VAL SER THR VAL GLN CYS THR HIS GLY SEQRES 9 G 317 ILE ARG PRO VAL VAL SER SER GLN LEU LEU LEU ASN GLY SEQRES 10 G 317 SER LEU ALA GLU GLU GLU VAL VAL ILE ARG SER CYS ASN SEQRES 11 G 317 PHE THR ASP ASN ALA LYS THR ILE ILE VAL GLN LEU ASN SEQRES 12 G 317 THR SER VAL GLU ILE ASN CYS THR GLY ALA GLY HIS CYS SEQRES 13 G 317 ASN ILE ALA ARG ALA LYS TRP ASN ASN THR LEU LYS GLN SEQRES 14 G 317 ILE ALA SER LYS LEU ARG GLU GLN PHE GLY ASN ASN LYS SEQRES 15 G 317 THR ILE ILE PHE LYS GLN SER SER GLY GLY ASP PRO GLU SEQRES 16 G 317 ILE VAL THR HIS TRP PHE ASN CYS GLY GLY GLU PHE PHE SEQRES 17 G 317 TYR CYS ASN SER THR GLN LEU PHE ASN SER THR TRP PHE SEQRES 18 G 317 ASN SER THR TRP SER THR GLU GLY SER ASN ASN THR GLU SEQRES 19 G 317 GLY SER ASP THR ILE THR LEU PRO CYS ARG ILE LYS GLN SEQRES 20 G 317 ILE ILE ASN MET TRP CYS LYS VAL GLY LYS MET MET TYR SEQRES 21 G 317 ALA PRO PRO ILE SER GLY GLN ILE ARG CYS SER SER ASN SEQRES 22 G 317 ILE THR GLY LEU LEU LEU THR ARG ASP GLY GLY ASN SER SEQRES 23 G 317 ASN ASN GLU SER GLU ILE PHE ARG PRO GLY GLY GLY ASP SEQRES 24 G 317 MET ARG ASP ASN TRP ARG SER GLU LEU TYR LYS TYR LYS SEQRES 25 G 317 VAL VAL LYS ILE GLU SEQRES 1 C 184 MET LYS LYS VAL VAL LEU GLY LYS LYS GLY ASP THR VAL SEQRES 2 C 184 GLU LEU THR CYS THR ALA SER GLN LYS LYS SER ILE GLN SEQRES 3 C 184 PHE HIS TRP LYS ASN SER ASN GLN ILE LYS ILE LEU GLY SEQRES 4 C 184 ASN GLN GLY SER PHE LEU THR LYS GLY PRO SER LYS LEU SEQRES 5 C 184 ASN ASP ARG ALA ASP SER ARG ARG SER LEU TRP ASP GLN SEQRES 6 C 184 GLY ASN PHE PRO LEU ILE ILE LYS ASN LEU LYS ILE GLU SEQRES 7 C 184 ASP SER ASP THR TYR ILE CYS GLU VAL GLU ASP GLN LYS SEQRES 8 C 184 GLU GLU VAL GLN LEU LEU VAL PHE GLY LEU THR ALA ASN SEQRES 9 C 184 SER ASP THR HIS LEU LEU GLN GLY GLN SER LEU THR LEU SEQRES 10 C 184 THR LEU GLU SER PRO PRO GLY SER SER PRO SER VAL GLN SEQRES 11 C 184 CYS ARG SER PRO ARG GLY LYS ASN ILE GLN GLY GLY LYS SEQRES 12 C 184 THR LEU SER VAL SER GLN LEU GLU LEU GLN ASP SER GLY SEQRES 13 C 184 THR TRP THR CYS THR VAL LEU GLN ASN GLN LYS LYS VAL SEQRES 14 C 184 GLU PHE LYS ILE ASP ILE VAL VAL LEU ALA PHE GLN LYS SEQRES 15 C 184 ALA SER SEQRES 1 L 214 ASP ILE VAL MET THR GLN SER PRO ALA THR LEU SER VAL SEQRES 2 L 214 SER PRO GLY GLU ARG ALA THR LEU SER CYS ARG ALA SER SEQRES 3 L 214 GLU SER VAL SER SER ASP LEU ALA TRP TYR GLN GLN LYS SEQRES 4 L 214 PRO GLY GLN ALA PRO ARG LEU LEU ILE TYR GLY ALA SER SEQRES 5 L 214 THR ARG ALA THR GLY VAL PRO ALA ARG PHE SER GLY SER SEQRES 6 L 214 GLY SER GLY ALA GLU PHE THR LEU THR ILE SER SER LEU SEQRES 7 L 214 GLN SER GLU ASP PHE ALA VAL TYR TYR CYS GLN GLN TYR SEQRES 8 L 214 ASN ASN TRP PRO PRO ARG TYR THR PHE GLY GLN GLY THR SEQRES 9 L 214 ARG LEU GLU ILE LYS ARG THR VAL ALA ALA PRO SER VAL SEQRES 10 L 214 PHE ILE PHE PRO PRO SER ASP GLU GLN LEU LYS SER GLY SEQRES 11 L 214 THR ALA SER VAL VAL CYS LEU LEU ASN ASN PHE TYR PRO SEQRES 12 L 214 ARG GLU ALA LYS VAL GLN TRP LYS VAL ASP ASN ALA LEU SEQRES 13 L 214 GLN SER GLY ASN SER GLN GLU SER VAL THR GLU GLN ASP SEQRES 14 L 214 SER LYS ASP SER THR TYR SER LEU SER SER THR LEU THR SEQRES 15 L 214 LEU SER LYS ALA ASP TYR GLU LYS HIS LYS VAL TYR ALA SEQRES 16 L 214 CYS GLU VAL THR HIS GLN GLY LEU SER SER PRO VAL THR SEQRES 17 L 214 LYS SER PHE ASN ARG GLY SEQRES 1 H 229 GLU VAL GLN LEU VAL GLU SER GLY ALA GLU VAL LYS LYS SEQRES 2 H 229 PRO GLY SER SER VAL LYS VAL SER CYS LYS ALA SER GLY SEQRES 3 H 229 ASP THR PHE ILE ARG TYR SER PHE THR TRP VAL ARG GLN SEQRES 4 H 229 ALA PRO GLY GLN GLY LEU GLU TRP MET GLY ARG ILE ILE SEQRES 5 H 229 THR ILE LEU ASP VAL ALA HIS TYR ALA PRO HIS LEU GLN SEQRES 6 H 229 GLY ARG VAL THR ILE THR ALA ASP LYS SER THR SER THR SEQRES 7 H 229 VAL TYR LEU GLU LEU ARG ASN LEU ARG SER ASP ASP THR SEQRES 8 H 229 ALA VAL TYR PHE CYS ALA GLY VAL TYR GLU GLY GLU ALA SEQRES 9 H 229 ASP GLU GLY GLU TYR ASP ASN ASN GLY PHE LEU LYS HIS SEQRES 10 H 229 TRP GLY GLN GLY THR LEU VAL THR VAL SER SER ALA SER SEQRES 11 H 229 THR LYS GLY PRO SER VAL PHE PRO LEU ALA PRO SER SER SEQRES 12 H 229 LYS SER THR SER GLY GLY THR ALA ALA LEU GLY CYS LEU SEQRES 13 H 229 VAL LYS ASP TYR PHE PRO GLU PRO VAL THR VAL SER TRP SEQRES 14 H 229 ASN SER GLY ALA LEU THR SER GLY VAL HIS THR PHE PRO SEQRES 15 H 229 ALA VAL LEU GLN SER SER GLY LEU TYR SER LEU SER SER SEQRES 16 H 229 VAL VAL THR VAL PRO SER SER SER LEU GLY THR GLN THR SEQRES 17 H 229 TYR ILE CYS ASN VAL ASN HIS LYS PRO SER ASN THR LYS SEQRES 18 H 229 VAL ASP LYS LYS VAL GLU PRO LYS MODRES 2NY5 ASN G 234 ASN GLYCOSYLATION SITE MODRES 2NY5 ASN G 262 ASN GLYCOSYLATION SITE MODRES 2NY5 ASN G 276 ASN GLYCOSYLATION SITE MODRES 2NY5 ASN G 289 ASN GLYCOSYLATION SITE MODRES 2NY5 ASN G 295 ASN GLYCOSYLATION SITE MODRES 2NY5 ASN G 339 ASN GLYCOSYLATION SITE MODRES 2NY5 ASN G 386 ASN GLYCOSYLATION SITE MODRES 2NY5 ASN G 392 ASN GLYCOSYLATION SITE MODRES 2NY5 ASN G 448 ASN GLYCOSYLATION SITE HET GLC A 1 11 HET FRU A 2 12 HET NAG G 734 14 HET NAG G 762 14 HET NAG G 776 14 HET NAG G 789 14 HET NAG G 795 14 HET NAG G 839 14 HET NAG G 886 14 HET NAG G 892 14 HET NAG G 948 14 HETNAM GLC ALPHA-D-GLUCOPYRANOSE HETNAM FRU BETA-D-FRUCTOFURANOSE HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETSYN GLC ALPHA-D-GLUCOSE; D-GLUCOSE; GLUCOSE HETSYN FRU BETA-D-FRUCTOSE; D-FRUCTOSE; FRUCTOSE 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 5 GLC C6 H12 O6 FORMUL 5 FRU C6 H12 O6 FORMUL 6 NAG 9(C8 H15 N O6) FORMUL 15 HOH *320(H2 O) HELIX 1 1 ASN G 98 LEU G 116 1 19 HELIX 2 2 ARG G 335 GLY G 354 1 20 HELIX 3 3 ASP G 368 THR G 373 1 6 HELIX 4 4 SER G 387 PHE G 391 5 5 HELIX 5 5 ASP G 474 TYR G 484 1 11 HELIX 6 6 LEU C 1051 ASP C 1053 5 3 HELIX 7 7 LEU C 1061 GLY C 1065 5 5 HELIX 8 8 LYS C 1075 SER C 1079 5 5 HELIX 9 9 GLU C 1150 SER C 1154 5 5 HELIX 10 10 GLN L 2079 PHE L 2083 5 5 HELIX 11 11 SER L 2123 LYS L 2128 1 6 HELIX 12 12 LYS L 2185 HIS L 2191 1 7 HELIX 13 13 THR H 3028 ILE H 3030 5 3 HELIX 14 14 LYS H 3074 THR H 3076 5 3 HELIX 15 15 ARG H 3087 THR H 3091 5 5 HELIX 16 16 GLU H 3103 GLY H 3107 5 5 HELIX 17 17 SER H 3171 ALA H 3173 5 3 HELIX 18 18 SER H 3202 LEU H 3204 5 3 HELIX 19 19 LYS H 3216 ASN H 3219 5 4 SHEET 1 A 4 VAL G 84 VAL G 85 0 SHEET 2 A 4 VAL G 242 VAL G 245 -1 O THR G 244 N VAL G 84 SHEET 3 A 4 PHE G 223 CYS G 228 -1 N LYS G 227 O SER G 243 SHEET 4 A 4 TYR G 486 LYS G 490 -1 O VAL G 489 N ALA G 224 SHEET 1 B 2 GLU G 91 ASN G 94 0 SHEET 2 B 2 THR G 236 CYS G 239 -1 O GLY G 237 N PHE G 93 SHEET 1 C 4 SER G 199 THR G 202 0 SHEET 2 C 4 VAL G 120 THR G 123 -1 N THR G 123 O SER G 199 SHEET 3 C 4 LYS G 432 MET G 434 -1 O LYS G 432 N LEU G 122 SHEET 4 C 4 ILE G 423 ASN G 425 -1 N ILE G 424 O MET G 433 SHEET 1 D 7 LEU G 259 LEU G 261 0 SHEET 2 D 7 ARG G 444 ARG G 456 -1 O GLY G 451 N LEU G 260 SHEET 3 D 7 ILE G 284 THR G 297 -1 N ILE G 284 O LEU G 454 SHEET 4 D 7 HIS G 330 ALA G 334 -1 O HIS G 330 N THR G 297 SHEET 5 D 7 THR G 413 LYS G 421 -1 O ILE G 414 N ILE G 333 SHEET 6 D 7 GLU G 381 CYS G 385 -1 N TYR G 384 O ARG G 419 SHEET 7 D 7 HIS G 374 CYS G 378 -1 N PHE G 376 O PHE G 383 SHEET 1 E 6 VAL G 271 SER G 274 0 SHEET 2 E 6 ILE G 284 THR G 297 -1 O ILE G 285 N ARG G 273 SHEET 3 E 6 ARG G 444 ARG G 456 -1 O LEU G 454 N ILE G 284 SHEET 4 E 6 SER G 465 PRO G 470 -1 O ARG G 469 N THR G 455 SHEET 5 E 6 THR G 358 PHE G 361 1 N ILE G 360 O PHE G 468 SHEET 6 E 6 SER G 393 TRP G 395 -1 O TRP G 395 N ILE G 359 SHEET 1 F 6 LYS C1002 LYS C1007 0 SHEET 2 F 6 LYS C1090 ALA C1102 1 O LEU C1096 N GLY C1006 SHEET 3 F 6 ASP C1080 VAL C1086 -1 N TYR C1082 O VAL C1093 SHEET 4 F 6 PHE C1026 LYS C1029 -1 N LYS C1029 O ILE C1083 SHEET 5 F 6 LYS C1035 GLN C1040 -1 O LEU C1037 N TRP C1028 SHEET 6 F 6 PHE C1043 LYS C1046 -1 O THR C1045 N GLY C1038 SHEET 1 G 4 LYS C1002 LYS C1007 0 SHEET 2 G 4 LYS C1090 ALA C1102 1 O LEU C1096 N GLY C1006 SHEET 3 G 4 LEU C1114 GLU C1119 -1 O GLU C1119 N GLY C1099 SHEET 4 G 4 THR C1143 VAL C1146 -1 O LEU C1144 N LEU C1116 SHEET 1 H 3 VAL C1012 LEU C1014 0 SHEET 2 H 3 LEU C1069 ILE C1071 -1 O LEU C1069 N LEU C1014 SHEET 3 H 3 ALA C1055 ASP C1056 -1 N ASP C1056 O ILE C1070 SHEET 1 I 4 ASN C1137 GLY C1140 0 SHEET 2 I 4 SER C1127 ARG C1131 -1 N CYS C1130 O ILE C1138 SHEET 3 I 4 GLY C1155 GLN C1163 -1 O LEU C1162 N SER C1127 SHEET 4 I 4 LYS C1166 ILE C1174 -1 O ILE C1172 N TRP C1157 SHEET 1 J 4 MET L2004 SER L2007 0 SHEET 2 J 4 ALA L2019 ALA L2025 -1 O ARG L2024 N THR L2005 SHEET 3 J 4 GLU L2070 ILE L2075 -1 O PHE L2071 N CYS L2023 SHEET 4 J 4 PHE L2062 SER L2067 -1 N SER L2063 O THR L2074 SHEET 1 K 6 THR L2010 VAL L2013 0 SHEET 2 K 6 THR L2104 ILE L2108 1 O ARG L2105 N LEU L2011 SHEET 3 K 6 VAL L2085 GLN L2090 -1 N TYR L2086 O THR L2104 SHEET 4 K 6 LEU L2033 GLN L2038 -1 N TYR L2036 O TYR L2087 SHEET 5 K 6 ARG L2045 TYR L2049 -1 O ARG L2045 N GLN L2037 SHEET 6 K 6 THR L2053 ARG L2054 -1 O THR L2053 N TYR L2049 SHEET 1 L 4 THR L2010 VAL L2013 0 SHEET 2 L 4 THR L2104 ILE L2108 1 O ARG L2105 N LEU L2011 SHEET 3 L 4 VAL L2085 GLN L2090 -1 N TYR L2086 O THR L2104 SHEET 4 L 4 THR L2099 PHE L2100 -1 O THR L2099 N GLN L2090 SHEET 1 M 4 SER L2116 PHE L2120 0 SHEET 2 M 4 THR L2131 PHE L2141 -1 O VAL L2135 N PHE L2120 SHEET 3 M 4 TYR L2175 SER L2184 -1 O LEU L2177 N LEU L2138 SHEET 4 M 4 SER L2161 VAL L2165 -1 N GLN L2162 O THR L2180 SHEET 1 N 3 LYS L2147 VAL L2152 0 SHEET 2 N 3 VAL L2193 THR L2199 -1 O THR L2199 N LYS L2147 SHEET 3 N 3 VAL L2207 ASN L2212 -1 O VAL L2207 N VAL L2198 SHEET 1 O 4 GLN H3003 GLU H3006 0 SHEET 2 O 4 VAL H3018 SER H3025 -1 O LYS H3023 N VAL H3005 SHEET 3 O 4 THR H3078 LEU H3083 -1 O VAL H3079 N CYS H3022 SHEET 4 O 4 VAL H3068 ASP H3073 -1 N THR H3069 O GLU H3082 SHEET 1 P 6 GLU H3010 LYS H3012 0 SHEET 2 P 6 THR H3122 VAL H3126 1 O THR H3125 N LYS H3012 SHEET 3 P 6 ALA H3092 TYR H3100 -1 N TYR H3094 O THR H3122 SHEET 4 P 6 TYR H3032 GLN H3039 -1 N THR H3035 O ALA H3097 SHEET 5 P 6 LEU H3045 ILE H3051 -1 O ILE H3051 N PHE H3034 SHEET 6 P 6 ALA H3058 TYR H3060 -1 O HIS H3059 N ARG H3050 SHEET 1 Q 4 GLU H3010 LYS H3012 0 SHEET 2 Q 4 THR H3122 VAL H3126 1 O THR H3125 N LYS H3012 SHEET 3 Q 4 ALA H3092 TYR H3100 -1 N TYR H3094 O THR H3122 SHEET 4 Q 4 HIS H3117 TRP H3118 -1 O HIS H3117 N GLY H3098 SHEET 1 R 4 SER H3135 LEU H3139 0 SHEET 2 R 4 THR H3150 TYR H3160 -1 O LEU H3156 N PHE H3137 SHEET 3 R 4 TYR H3191 PRO H3200 -1 O LEU H3193 N VAL H3157 SHEET 4 R 4 VAL H3178 THR H3180 -1 N HIS H3179 O VAL H3196 SHEET 1 S 4 SER H3135 LEU H3139 0 SHEET 2 S 4 THR H3150 TYR H3160 -1 O LEU H3156 N PHE H3137 SHEET 3 S 4 TYR H3191 PRO H3200 -1 O LEU H3193 N VAL H3157 SHEET 4 S 4 VAL H3184 LEU H3185 -1 N VAL H3184 O SER H3192 SHEET 1 T 3 THR H3166 TRP H3169 0 SHEET 2 T 3 TYR H3209 HIS H3215 -1 O ASN H3212 N SER H3168 SHEET 3 T 3 THR H3220 VAL H3226 -1 O VAL H3222 N VAL H3213 SSBOND 1 CYS G 96 CYS G 275 1555 1555 2.04 SSBOND 2 CYS G 109 CYS G 428 1555 1555 2.05 SSBOND 3 CYS G 119 CYS G 205 1555 1555 2.05 SSBOND 4 CYS G 126 CYS G 196 1555 1555 2.04 SSBOND 5 CYS G 218 CYS G 247 1555 1555 2.04 SSBOND 6 CYS G 228 CYS G 239 1555 1555 2.04 SSBOND 7 CYS G 296 CYS G 331 1555 1555 2.05 SSBOND 8 CYS G 378 CYS G 445 1555 1555 2.04 SSBOND 9 CYS G 385 CYS G 418 1555 1555 2.04 SSBOND 10 CYS C 1016 CYS C 1084 1555 1555 2.04 SSBOND 11 CYS C 1130 CYS C 1159 1555 1555 2.04 SSBOND 12 CYS L 2023 CYS L 2088 1555 1555 2.07 SSBOND 13 CYS L 2136 CYS L 2196 1555 1555 2.05 SSBOND 14 CYS H 3022 CYS H 3096 1555 1555 2.07 SSBOND 15 CYS H 3155 CYS H 3211 1555 1555 2.04 LINK ND2 ASN G 234 C1 NAG G 734 1555 1555 1.44 LINK ND2 ASN G 262 C1 NAG G 762 1555 1555 1.44 LINK ND2 ASN G 276 C1 NAG G 776 1555 1555 1.45 LINK ND2 ASN G 289 C1 NAG G 789 1555 1555 1.44 LINK ND2 ASN G 295 C1 NAG G 795 1555 1555 1.44 LINK ND2 ASN G 339 C1 NAG G 839 1555 1555 1.44 LINK ND2 ASN G 386 C1 NAG G 886 1555 1555 1.44 LINK ND2 ASN G 392 C1 NAG G 892 1555 1555 1.45 LINK ND2 ASN G 448 C1 NAG G 948 1555 1555 1.44 LINK C1 GLC A 1 O2 FRU A 2 1555 1555 1.41 CISPEP 1 SER L 2007 PRO L 2008 0 -8.15 CISPEP 2 TRP L 2094 PRO L 2095 0 -2.35 CISPEP 3 TYR L 2142 PRO L 2143 0 0.56 CISPEP 4 PHE H 3161 PRO H 3162 0 -5.92 CISPEP 5 GLU H 3163 PRO H 3164 0 -3.74 CRYST1 73.262 87.643 197.334 90.00 90.00 90.00 P 2 2 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 0.013650 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011410 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005068 0.00000