HEADER IMMUNE SYSTEM 22-JUL-10 3O2D TITLE CRYSTAL STRUCTURE OF HIV-1 PRIMARY RECEPTOR CD4 IN COMPLEX WITH A TITLE 2 POTENT ANTIVIRAL ANTIBODY COMPND MOL_ID: 1; COMPND 2 MOLECULE: IBALIZUMAB LIGHT CHAIN; COMPND 3 CHAIN: L; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: IBALIZUMAB HEAVY CHAIN; COMPND 7 CHAIN: H; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: T-CELL SURFACE GLYCOPROTEIN CD4; COMPND 11 CHAIN: A; COMPND 12 FRAGMENT: UNP RESIDUES 26-207; COMPND 13 SYNONYM: T-CELL SURFACE ANTIGEN T4/LEU-3; COMPND 14 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 EXPRESSION_SYSTEM: MUS MUSCULUS; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 10090; SOURCE 7 EXPRESSION_SYSTEM_CELL_LINE: NS/O; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 10 ORGANISM_COMMON: MOUSE; SOURCE 11 ORGANISM_TAXID: 10090; SOURCE 12 EXPRESSION_SYSTEM: MUS MUSCULUS; SOURCE 13 EXPRESSION_SYSTEM_TAXID: 10090; SOURCE 14 EXPRESSION_SYSTEM_CELL_LINE: NS/O; SOURCE 15 MOL_ID: 3; SOURCE 16 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 17 ORGANISM_COMMON: HUMAN; SOURCE 18 ORGANISM_TAXID: 9606; SOURCE 19 GENE: CD4; SOURCE 20 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 21 EXPRESSION_SYSTEM_COMMON: FALL ARMYWORM; SOURCE 22 EXPRESSION_SYSTEM_TAXID: 7108 KEYWDS IMMUNOGLOBULIN FOLD, HIV-1 PRIMARY RECEPTOR, T CELL CORECEPTOR, KEYWDS 2 MONOCLONAL ANTIBODY, MEMBRANE, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR M.M.FREEMAN,M.S.SEAMAN,S.RITS-VOLLOCH,X.HONG,D.D.HO,B.CHEN REVDAT 2 09-OCT-24 3O2D 1 SEQADV REVDAT 1 22-DEC-10 3O2D 0 JRNL AUTH M.M.FREEMAN,M.S.SEAMAN,S.RITS-VOLLOCH,X.HONG,C.Y.KAO,D.D.HO, JRNL AUTH 2 B.CHEN JRNL TITL CRYSTAL STRUCTURE OF HIV-1 PRIMARY RECEPTOR CD4 IN COMPLEX JRNL TITL 2 WITH A POTENT ANTIVIRAL ANTIBODY. JRNL REF STRUCTURE V. 18 1632 2010 JRNL REFN ISSN 0969-2126 JRNL PMID 21134642 JRNL DOI 10.1016/J.STR.2010.09.017 REMARK 2 REMARK 2 RESOLUTION. 2.19 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 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) : 2.19 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.60 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 93.7 REMARK 3 NUMBER OF REFLECTIONS : 43149 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) : 0.194 REMARK 3 R VALUE (WORKING SET) : 0.192 REMARK 3 FREE R VALUE : 0.224 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2295 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) : 2.19 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.25 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2836 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 85.35 REMARK 3 BIN R VALUE (WORKING SET) : 0.2590 REMARK 3 BIN FREE R VALUE SET COUNT : 152 REMARK 3 BIN FREE R VALUE : 0.2800 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4751 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 215 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 44.91 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.60000 REMARK 3 B22 (A**2) : 0.96000 REMARK 3 B33 (A**2) : -0.37000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.174 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.126 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 11.181 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.952 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.931 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4858 ; 0.015 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6599 ; 1.572 ; 1.957 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 613 ; 6.621 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 198 ;38.311 ;25.101 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 831 ;17.174 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 17 ;20.326 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 747 ; 0.105 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3623 ; 0.007 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 3065 ; 0.897 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4970 ; 1.730 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1793 ; 2.582 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1629 ; 4.268 ; 4.500 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 : 3 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : L -10 L 9999 REMARK 3 ORIGIN FOR THE GROUP (A): 3.7580 15.5920 57.3880 REMARK 3 T TENSOR REMARK 3 T11: 0.1293 T22: 0.2684 REMARK 3 T33: 0.0872 T12: -0.0236 REMARK 3 T13: -0.0006 T23: 0.0082 REMARK 3 L TENSOR REMARK 3 L11: 1.7315 L22: 0.2476 REMARK 3 L33: 1.7138 L12: -0.0186 REMARK 3 L13: 1.3527 L23: 0.0358 REMARK 3 S TENSOR REMARK 3 S11: 0.0243 S12: -0.0949 S13: 0.0709 REMARK 3 S21: 0.1214 S22: -0.0726 S23: 0.0081 REMARK 3 S31: 0.0215 S32: -0.1703 S33: 0.0483 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : H -10 H 9999 REMARK 3 ORIGIN FOR THE GROUP (A): 13.2510 5.8620 46.1600 REMARK 3 T TENSOR REMARK 3 T11: 0.1553 T22: 0.3242 REMARK 3 T33: 0.0974 T12: 0.0304 REMARK 3 T13: -0.0305 T23: -0.0174 REMARK 3 L TENSOR REMARK 3 L11: 2.1160 L22: 0.3255 REMARK 3 L33: 1.5394 L12: -0.5813 REMARK 3 L13: 1.3705 L23: -0.6698 REMARK 3 S TENSOR REMARK 3 S11: 0.2106 S12: 0.4124 S13: -0.1605 REMARK 3 S21: 0.0191 S22: -0.1495 S23: 0.0115 REMARK 3 S31: 0.1109 S32: 0.2980 S33: -0.0610 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 : A -10 A 9999 REMARK 3 ORIGIN FOR THE GROUP (A): -12.8960 9.3470 12.0780 REMARK 3 T TENSOR REMARK 3 T11: 0.0759 T22: 0.7310 REMARK 3 T33: 0.0430 T12: 0.0514 REMARK 3 T13: -0.0470 T23: -0.0352 REMARK 3 L TENSOR REMARK 3 L11: 2.6420 L22: 1.1762 REMARK 3 L33: 2.7514 L12: 1.2648 REMARK 3 L13: -0.7443 L23: 0.1488 REMARK 3 S TENSOR REMARK 3 S11: -0.0456 S12: 0.6024 S13: -0.0487 REMARK 3 S21: -0.1448 S22: 0.0767 S23: 0.1012 REMARK 3 S31: 0.1514 S32: -0.0872 S33: -0.0311 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3O2D COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 27-JUL-10. REMARK 100 THE DEPOSITION ID IS D_1000060577. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-AUG-09 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 24-ID-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97930 REMARK 200 MONOCHROMATOR : CRYO-COOLED SI(111) DOUBLE REMARK 200 CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 45445 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.190 REMARK 200 RESOLUTION RANGE LOW (A) : 48.600 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.5 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.19 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.25 REMARK 200 COMPLETENESS FOR SHELL (%) : 89.3 REMARK 200 DATA REDUNDANCY IN SHELL : 6.40 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.63100 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.86 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.31 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 3 M NA MALONATE, PH 5.5, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293.0K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 26.08200 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 133.32950 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 33.13300 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 133.32950 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 26.08200 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 33.13300 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5840 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27450 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -30.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 GLY L 211 REMARK 465 GLU L 212 REMARK 465 CYS L 213 REMARK 465 LYS H 214 REMARK 465 TYR H 215 REMARK 465 GLY H 216 REMARK 465 PHE A 179 REMARK 465 GLN A 180 REMARK 465 LYS A 181 REMARK 465 ALA A 182 REMARK 465 HIS A 183 REMARK 465 HIS A 184 REMARK 465 HIS A 185 REMARK 465 HIS A 186 REMARK 465 HIS A 187 REMARK 465 HIS A 188 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 OG1 THR L 205 O HOH L 269 2.18 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 LEU H 178 CA - CB - CG ANGL. DEV. = 16.9 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 ALA L 51 -31.87 72.43 REMARK 500 ALA L 84 176.38 177.62 REMARK 500 TYR L 94 -144.20 56.86 REMARK 500 ASN L 137 64.14 60.60 REMARK 500 SER L 170 19.90 56.94 REMARK 500 ARG H 129 57.20 -92.13 REMARK 500 THR H 131 -167.15 -167.34 REMARK 500 ASP H 144 63.02 63.56 REMARK 500 SER H 173 -19.58 -48.82 REMARK 500 GLN A 33 -4.48 73.05 REMARK 500 SER A 49 147.91 -38.77 REMARK 500 LYS A 50 -2.10 -57.00 REMARK 500 SER A 57 -166.87 -123.31 REMARK 500 PHE A 67 65.56 -118.97 REMARK 500 GLU A 87 49.80 38.75 REMARK 500 ASP A 88 1.12 51.57 REMARK 500 SER A 104 61.20 -167.21 REMARK 500 ASP A 105 88.86 -175.45 REMARK 500 GLN A 148 75.76 -167.90 REMARK 500 ASN A 164 -103.68 52.40 REMARK 500 REMARK 500 REMARK: NULL DBREF 3O2D A 1 182 UNP P01730 CD4_HUMAN 26 207 DBREF 3O2D L 1 213 PDB 3O2D 3O2D 1 213 DBREF 3O2D H 1 216 PDB 3O2D 3O2D 1 216 SEQADV 3O2D HIS A 183 UNP P01730 EXPRESSION TAG SEQADV 3O2D HIS A 184 UNP P01730 EXPRESSION TAG SEQADV 3O2D HIS A 185 UNP P01730 EXPRESSION TAG SEQADV 3O2D HIS A 186 UNP P01730 EXPRESSION TAG SEQADV 3O2D HIS A 187 UNP P01730 EXPRESSION TAG SEQADV 3O2D HIS A 188 UNP P01730 EXPRESSION TAG SEQRES 1 L 219 ASP ILE VAL MET THR GLN SER PRO ASP SER LEU ALA VAL SEQRES 2 L 219 SER LEU GLY GLU ARG VAL THR MET ASN CYS LYS SER SER SEQRES 3 L 219 GLN SER LEU LEU TYR SER THR ASN GLN LYS ASN TYR LEU SEQRES 4 L 219 ALA TRP TYR GLN GLN LYS PRO GLY GLN SER PRO LYS LEU SEQRES 5 L 219 LEU ILE TYR TRP ALA SER THR ARG GLU SER GLY VAL PRO SEQRES 6 L 219 ASP ARG PHE SER GLY SER GLY SER GLY THR ASP PHE THR SEQRES 7 L 219 LEU THR ILE SER SER VAL GLN ALA GLU ASP VAL ALA VAL SEQRES 8 L 219 TYR TYR CYS GLN GLN TYR TYR SER TYR ARG THR PHE GLY SEQRES 9 L 219 GLY GLY THR LYS LEU GLU ILE LYS ARG THR VAL ALA ALA SEQRES 10 L 219 PRO SER VAL PHE ILE PHE PRO PRO SER ASP GLU GLN LEU SEQRES 11 L 219 LYS SER GLY THR ALA SER VAL VAL CYS LEU LEU ASN ASN SEQRES 12 L 219 PHE TYR PRO ARG GLU ALA LYS VAL GLN TRP LYS VAL ASP SEQRES 13 L 219 ASN ALA LEU GLN SER GLY ASN SER GLN GLU SER VAL THR SEQRES 14 L 219 GLU GLN ASP SER LYS ASP SER THR TYR SER LEU SER SER SEQRES 15 L 219 THR LEU THR LEU SER LYS ALA ASP TYR GLU LYS HIS LYS SEQRES 16 L 219 VAL TYR ALA CYS GLU VAL THR HIS GLN GLY LEU SER SER SEQRES 17 L 219 PRO VAL THR LYS SER PHE ASN ARG GLY GLU CYS SEQRES 1 H 225 GLN VAL GLN LEU GLN GLN SER GLY PRO GLU VAL VAL LYS SEQRES 2 H 225 PRO GLY ALA SER VAL LYS MET SER CYS LYS ALA SER GLY SEQRES 3 H 225 TYR THR PHE THR SER TYR VAL ILE HIS TRP VAL ARG GLN SEQRES 4 H 225 LYS PRO GLY GLN GLY LEU ASP TRP ILE GLY TYR ILE ASN SEQRES 5 H 225 PRO TYR ASN ASP GLY THR ASP TYR ASP GLU LYS PHE LYS SEQRES 6 H 225 GLY LYS ALA THR LEU THR SER ASP THR SER THR SER THR SEQRES 7 H 225 ALA TYR MET GLU LEU SER SER LEU ARG SER GLU ASP THR SEQRES 8 H 225 ALA VAL TYR TYR CYS ALA ARG GLU LYS ASP ASN TYR ALA SEQRES 9 H 225 THR GLY ALA TRP PHE ALA TYR TRP GLY GLN GLY THR LEU SEQRES 10 H 225 VAL THR VAL SER SER ALA SER THR LYS GLY PRO SER VAL SEQRES 11 H 225 PHE PRO LEU ALA PRO CYS SER ARG SER THR SER GLU SER SEQRES 12 H 225 THR ALA ALA LEU GLY CYS LEU VAL LYS ASP TYR PHE PRO SEQRES 13 H 225 GLU PRO VAL THR VAL SER TRP ASN SER GLY ALA LEU THR SEQRES 14 H 225 SER GLY VAL HIS THR PHE PRO ALA VAL LEU GLN SER SER SEQRES 15 H 225 GLY LEU TYR SER LEU SER SER VAL VAL THR VAL PRO SER SEQRES 16 H 225 SER SER LEU GLY THR LYS THR TYR THR CYS ASN VAL ASP SEQRES 17 H 225 HIS LYS PRO SER ASN THR LYS VAL ASP LYS ARG VAL GLU SEQRES 18 H 225 SER LYS TYR GLY SEQRES 1 A 188 LYS LYS VAL VAL LEU GLY LYS LYS GLY ASP THR VAL GLU SEQRES 2 A 188 LEU THR CYS THR ALA SER GLN LYS LYS SER ILE GLN PHE SEQRES 3 A 188 HIS TRP LYS ASN SER ASN GLN ILE LYS ILE LEU GLY ASN SEQRES 4 A 188 GLN GLY SER PHE LEU THR LYS GLY PRO SER LYS LEU ASN SEQRES 5 A 188 ASP ARG ALA ASP SER ARG ARG SER LEU TRP ASP GLN GLY SEQRES 6 A 188 ASN PHE PRO LEU ILE ILE LYS ASN LEU LYS ILE GLU ASP SEQRES 7 A 188 SER ASP THR TYR ILE CYS GLU VAL GLU ASP GLN LYS GLU SEQRES 8 A 188 GLU VAL GLN LEU LEU VAL PHE GLY LEU THR ALA ASN SER SEQRES 9 A 188 ASP THR HIS LEU LEU GLN GLY GLN SER LEU THR LEU THR SEQRES 10 A 188 LEU GLU SER PRO PRO GLY SER SER PRO SER VAL GLN CYS SEQRES 11 A 188 ARG SER PRO ARG GLY LYS ASN ILE GLN GLY GLY LYS THR SEQRES 12 A 188 LEU SER VAL SER GLN LEU GLU LEU GLN ASP SER GLY THR SEQRES 13 A 188 TRP THR CYS THR VAL LEU GLN ASN GLN LYS LYS VAL GLU SEQRES 14 A 188 PHE LYS ILE ASP ILE VAL VAL LEU ALA PHE GLN LYS ALA SEQRES 15 A 188 HIS HIS HIS HIS HIS HIS FORMUL 4 HOH *215(H2 O) HELIX 1 1 GLN L 79 VAL L 83 5 5 HELIX 2 2 SER L 120 SER L 126 1 7 HELIX 3 3 LYS L 182 LYS L 187 1 6 HELIX 4 4 THR H 28 TYR H 32 5 5 HELIX 5 5 GLU H 61 LYS H 64 5 4 HELIX 6 6 ARG H 83 THR H 87 5 5 HELIX 7 7 SER H 156 ALA H 158 5 3 HELIX 8 8 SER H 187 LEU H 189 5 3 HELIX 9 9 LYS H 201 ASN H 204 5 4 HELIX 10 10 LEU A 51 ASP A 53 5 3 HELIX 11 11 ARG A 58 GLY A 65 5 8 HELIX 12 12 LYS A 75 SER A 79 5 5 HELIX 13 13 GLU A 150 SER A 154 5 5 SHEET 1 A 4 MET L 4 SER L 7 0 SHEET 2 A 4 VAL L 19 SER L 25 -1 O LYS L 24 N THR L 5 SHEET 3 A 4 ASP 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 SER L 63 O THR L 74 SHEET 1 B 6 SER L 10 SER L 14 0 SHEET 2 B 6 THR L 101 LYS L 106 1 O GLU L 104 N LEU L 11 SHEET 3 B 6 ALA L 84 GLN L 90 -1 N ALA L 84 O LEU L 103 SHEET 4 B 6 LEU L 33 GLN L 38 -1 N GLN L 38 O VAL L 85 SHEET 5 B 6 LYS L 45 TYR L 49 -1 O LEU L 47 N TRP L 35 SHEET 6 B 6 THR L 53 ARG L 54 -1 O THR L 53 N TYR L 49 SHEET 1 C 4 SER L 10 SER L 14 0 SHEET 2 C 4 THR L 101 LYS L 106 1 O GLU L 104 N LEU L 11 SHEET 3 C 4 ALA L 84 GLN L 90 -1 N ALA L 84 O LEU L 103 SHEET 4 C 4 THR L 96 PHE L 97 -1 O THR L 96 N GLN L 90 SHEET 1 D 2 LEU L 30 TYR L 30A 0 SHEET 2 D 2 LYS L 30F ASN L 31 -1 O LYS L 30F N TYR L 30A SHEET 1 E 4 SER L 113 PHE L 117 0 SHEET 2 E 4 THR L 128 PHE L 138 -1 O LEU L 134 N PHE L 115 SHEET 3 E 4 TYR L 172 SER L 181 -1 O LEU L 178 N VAL L 131 SHEET 4 E 4 SER L 158 VAL L 162 -1 N SER L 161 O SER L 175 SHEET 1 F 4 ALA L 152 LEU L 153 0 SHEET 2 F 4 LYS L 144 VAL L 149 -1 N VAL L 149 O ALA L 152 SHEET 3 F 4 VAL L 190 THR L 196 -1 O GLU L 194 N GLN L 146 SHEET 4 F 4 VAL L 204 ASN L 209 -1 O VAL L 204 N VAL L 195 SHEET 1 G 4 GLN H 3 GLN H 6 0 SHEET 2 G 4 VAL H 18 SER H 25 -1 O LYS H 23 N GLN H 5 SHEET 3 G 4 THR H 77 LEU H 82 -1 O MET H 80 N MET H 20 SHEET 4 G 4 ALA H 67 ASP H 72 -1 N THR H 70 O TYR H 79 SHEET 1 H 6 GLU H 10 VAL H 12 0 SHEET 2 H 6 THR H 107 VAL H 111 1 O THR H 110 N GLU H 10 SHEET 3 H 6 ALA H 88 GLU H 95 -1 N ALA H 88 O VAL H 109 SHEET 4 H 6 ILE H 34 GLN H 39 -1 N HIS H 35 O ALA H 93 SHEET 5 H 6 ASP H 46 ILE H 51 -1 O ILE H 48 N TRP H 36 SHEET 6 H 6 THR H 57 TYR H 59 -1 O ASP H 58 N TYR H 50 SHEET 1 I 4 GLU H 10 VAL H 12 0 SHEET 2 I 4 THR H 107 VAL H 111 1 O THR H 110 N GLU H 10 SHEET 3 I 4 ALA H 88 GLU H 95 -1 N ALA H 88 O VAL H 109 SHEET 4 I 4 PHE H 100E TRP H 103 -1 O TYR H 102 N ARG 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 184 N ALA H 136 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 184 N ALA H 136 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 TYR H 194 HIS H 200 -1 O ASN H 197 N SER H 153 SHEET 3 L 3 THR H 205 VAL H 211 -1 O VAL H 207 N VAL H 198 SHEET 1 M 6 LYS A 2 LYS A 7 0 SHEET 2 M 6 GLN A 89 ALA A 102 1 O GLN A 94 N VAL A 4 SHEET 3 M 6 ASP A 80 VAL A 86 -1 N TYR A 82 O VAL A 93 SHEET 4 M 6 PHE A 26 ASN A 30 -1 N LYS A 29 O ILE A 83 SHEET 5 M 6 LYS A 35 GLN A 40 -1 O LEU A 37 N TRP A 28 SHEET 6 M 6 PHE A 43 LYS A 46 -1 O PHE A 43 N GLN A 40 SHEET 1 N 4 LYS A 2 LYS A 7 0 SHEET 2 N 4 GLN A 89 ALA A 102 1 O GLN A 94 N VAL A 4 SHEET 3 N 4 LEU A 114 GLU A 119 -1 O GLU A 119 N GLY A 99 SHEET 4 N 4 THR A 143 VAL A 146 -1 O VAL A 146 N LEU A 114 SHEET 1 O 3 VAL A 12 LEU A 14 0 SHEET 2 O 3 LEU A 69 ILE A 71 -1 O LEU A 69 N LEU A 14 SHEET 3 O 3 ALA A 55 ASP A 56 -1 N ASP A 56 O ILE A 70 SHEET 1 P 5 HIS A 107 LEU A 109 0 SHEET 2 P 5 LYS A 166 LEU A 177 1 O VAL A 175 N LEU A 108 SHEET 3 P 5 GLY A 155 GLN A 163 -1 N TRP A 157 O ILE A 172 SHEET 4 P 5 SER A 127 ARG A 131 -1 N GLN A 129 O THR A 160 SHEET 5 P 5 ASN A 137 GLY A 140 -1 O ILE A 138 N CYS A 130 SSBOND 1 CYS L 23 CYS L 88 1555 1555 2.10 SSBOND 2 CYS L 133 CYS L 193 1555 1555 2.03 SSBOND 3 CYS H 22 CYS H 92 1555 1555 2.05 SSBOND 4 CYS H 140 CYS H 196 1555 1555 2.03 SSBOND 5 CYS A 16 CYS A 84 1555 1555 2.05 SSBOND 6 CYS A 130 CYS A 159 1555 1555 2.05 CISPEP 1 SER L 7 PRO L 8 0 -4.82 CISPEP 2 TYR L 139 PRO L 140 0 1.01 CISPEP 3 PHE H 146 PRO H 147 0 -7.25 CISPEP 4 GLU H 148 PRO H 149 0 -2.46 CRYST1 52.164 66.266 266.659 90.00 90.00 90.00 P 21 21 21 4 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.019170 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015091 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003750 0.00000