HEADER IMMUNE SYSTEM 05-NOV-12 3W0W TITLE THE COMPLEX BETWEEN T36-5 TCR AND HLA-A24 BOUND TO HIV-1 NEF134-10(2F) TITLE 2 PEPTIDE IN SPACE GROUP P212121 COMPND MOL_ID: 1; COMPND 2 MOLECULE: HLA CLASS I HISTOCOMPATIBILITY ANTIGEN, A-24 ALPHA CHAIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 25-298; COMPND 5 SYNONYM: AW-24, HLA CLASS I HISTOCOMPATIBILITY ANTIGEN, A-9 ALPHA COMPND 6 CHAIN, MHC CLASS I ANTIGEN A*24; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: BETA-2-MICROGLOBULIN; COMPND 10 CHAIN: B; COMPND 11 SYNONYM: BETA-2-MICROGLOBULIN FORM PI 5.3; COMPND 12 ENGINEERED: YES; COMPND 13 MOL_ID: 3; COMPND 14 MOLECULE: 10-MER PEPTIDE FROM PROTEIN NEF; COMPND 15 CHAIN: C; COMPND 16 ENGINEERED: YES; COMPND 17 MOL_ID: 4; COMPND 18 MOLECULE: T36-5 TCR ALPHA CHAIN; COMPND 19 CHAIN: D; COMPND 20 ENGINEERED: YES; COMPND 21 MOL_ID: 5; COMPND 22 MOLECULE: T36-5 TCR BETA CHAIN; COMPND 23 CHAIN: E; COMPND 24 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: HLA-A; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET21D(+); SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_COMMON: HUMAN; SOURCE 14 ORGANISM_TAXID: 9606; SOURCE 15 GENE: B2M; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 18 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 19 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 20 EXPRESSION_SYSTEM_PLASMID: PET21A(+); SOURCE 21 MOL_ID: 3; SOURCE 22 SYNTHETIC: YES; SOURCE 23 ORGANISM_SCIENTIFIC: HUMAN IMMUNODEFICIENCY VIRUS 1; SOURCE 24 ORGANISM_TAXID: 11676; SOURCE 25 OTHER_DETAILS: SYNTHETIC PEPTIDE; SOURCE 26 MOL_ID: 4; SOURCE 27 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 28 ORGANISM_COMMON: HUMAN; SOURCE 29 ORGANISM_TAXID: 9606; SOURCE 30 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 31 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 32 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 33 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 34 EXPRESSION_SYSTEM_PLASMID: PET21A(+); SOURCE 35 MOL_ID: 5; SOURCE 36 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 37 ORGANISM_COMMON: HUMAN; SOURCE 38 ORGANISM_TAXID: 9606; SOURCE 39 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 40 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 41 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 42 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 43 EXPRESSION_SYSTEM_PLASMID: PET21A(+) KEYWDS HIV-1, NEF, HLA-A24, T CELL RECEPTOR, MHC CLASS I, TCR, MHC, KEYWDS 2 IMMUNOGLOBURIN DOMAIN, IMMUNE SYSTEM, IMMUNE RESPONSE EXPDTA X-RAY DIFFRACTION AUTHOR A.SHIMIZU,S.FUKAI,A.YAMAGATA,A.IWAMOTO REVDAT 4 08-NOV-23 3W0W 1 SEQADV REVDAT 3 22-NOV-17 3W0W 1 REMARK REVDAT 2 20-NOV-13 3W0W 1 JRNL REVDAT 1 06-NOV-13 3W0W 0 JRNL AUTH A.SHIMIZU,A.KAWANA-TACHIKAWA,A.YAMAGATA,C.HAN,D.ZHU,Y.SATO, JRNL AUTH 2 H.NAKAMURA,T.KOIBUCHI,J.CARLSON,E.MARTIN,C.J.BRUMME,Y.SHI, JRNL AUTH 3 G.F.GAO,Z.L.BRUMME,S.FUKAI,A.IWAMOTO JRNL TITL STRUCTURE OF TCR AND ANTIGEN COMPLEXES AT AN IMMUNODOMINANT JRNL TITL 2 CTL EPITOPE IN HIV-1 INFECTION JRNL REF SCI REP V. 3 3097 2013 JRNL REFN ESSN 2045-2322 JRNL PMID 24192765 JRNL DOI 10.1038/SREP03097 REMARK 2 REMARK 2 RESOLUTION. 2.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 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) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 34950 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) : 0.189 REMARK 3 R VALUE (WORKING SET) : 0.186 REMARK 3 FREE R VALUE : 0.250 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1752 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) : 2.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.67 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2190 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.87 REMARK 3 BIN R VALUE (WORKING SET) : 0.2390 REMARK 3 BIN FREE R VALUE SET COUNT : 112 REMARK 3 BIN FREE R VALUE : 0.3140 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6699 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 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) : 37.33 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.17000 REMARK 3 B22 (A**2) : -0.38000 REMARK 3 B33 (A**2) : 1.54000 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): 0.578 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.305 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.203 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 9.366 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.936 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.881 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6882 ; 0.010 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 9342 ; 1.340 ; 1.936 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 829 ; 6.268 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 355 ;35.938 ;24.028 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1120 ;19.033 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 48 ;18.690 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 966 ; 0.087 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5402 ; 0.006 ; 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : NULL 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: HYDROGENS HAVE BEEN USED IF PRESENT IN REMARK 3 THE INPUT U VALUES: REFINED INDIVIDUALLY REMARK 4 REMARK 4 3W0W COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 07-NOV-12. REMARK 100 THE DEPOSITION ID IS D_1000095745. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-OCT-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : BL-1A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 35008 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.603 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 5.200 REMARK 200 R MERGE (I) : 0.11500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 5.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.64 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.9 REMARK 200 DATA REDUNDANCY IN SHELL : 4.20 REMARK 200 R MERGE FOR SHELL (I) : 0.40200 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: 3VXU REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.97 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.86 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 16% PEG 3350, 0.1 M DIAMMONIUM REMARK 280 TARTRATE, 0.2% N-DODECYL-N,N-DIMETHYLAMINE-N-OXIDE (LDAO) 0.1M REMARK 280 HEPES, PH 7.0, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K 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 25.46050 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 125.88600 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 43.22050 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 125.88600 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 25.46050 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 43.22050 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: PENTAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: PENTAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 11320 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 38220 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -55.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E 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 MET A 0 REMARK 465 ILE A 280 REMARK 465 PHE A 281 REMARK 465 GLU A 282 REMARK 465 ALA A 283 REMARK 465 MET A 284 REMARK 465 LYS A 285 REMARK 465 MET A 286 REMARK 465 GLU A 287 REMARK 465 LEU A 288 REMARK 465 ARG A 289 REMARK 465 ASP A 290 REMARK 465 MET D 0 REMARK 465 MET E 0 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 TRP E 156 CE2 TRP E 156 CD2 0.074 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 ASP E 113 CB - CG - OD2 ANGL. DEV. = 5.8 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 ASP A 29 -125.91 51.08 REMARK 500 LEU A 110 -50.30 -131.53 REMARK 500 ASP A 122 125.19 -34.05 REMARK 500 TYR A 123 -60.97 -106.74 REMARK 500 LEU A 130 13.67 58.57 REMARK 500 ILE A 194 -61.54 58.70 REMARK 500 ASP A 223 94.58 -65.40 REMARK 500 PRO B 32 -177.13 -68.24 REMARK 500 TRP B 60 -1.35 80.46 REMARK 500 GLU D 3 -155.11 -132.28 REMARK 500 GLU D 5 62.33 -109.39 REMARK 500 SER D 82 0.09 -65.36 REMARK 500 ALA D 85 -179.99 -175.43 REMARK 500 LYS D 126 -72.13 -97.45 REMARK 500 ILE E 46 -61.19 -94.69 REMARK 500 ASP E 113 137.62 -170.13 REMARK 500 HIS E 164 -33.74 -138.04 REMARK 500 ASP E 182 52.25 -105.66 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3VXU RELATED DB: PDB REMARK 900 THE SAME COMPLEX OBTAINED FROM A TWIN CRYSTAL. DBREF 3W0W A 1 274 UNP P05534 1A24_HUMAN 25 298 DBREF 3W0W B 1 99 UNP P61769 B2MG_HUMAN 21 119 DBREF 3W0W C 1 10 UNP Q9YYU3 Q9YYU3_9HIV1 143 152 DBREF 3W0W D 0 204 PDB 3W0W 3W0W 0 204 DBREF 3W0W E 0 241 PDB 3W0W 3W0W 0 241 SEQADV 3W0W MET A 0 UNP P05534 EXPRESSION TAG SEQADV 3W0W GLY A 275 UNP P05534 EXPRESSION TAG SEQADV 3W0W SER A 276 UNP P05534 EXPRESSION TAG SEQADV 3W0W LEU A 277 UNP P05534 EXPRESSION TAG SEQADV 3W0W GLY A 278 UNP P05534 EXPRESSION TAG SEQADV 3W0W GLY A 279 UNP P05534 EXPRESSION TAG SEQADV 3W0W ILE A 280 UNP P05534 EXPRESSION TAG SEQADV 3W0W PHE A 281 UNP P05534 EXPRESSION TAG SEQADV 3W0W GLU A 282 UNP P05534 EXPRESSION TAG SEQADV 3W0W ALA A 283 UNP P05534 EXPRESSION TAG SEQADV 3W0W MET A 284 UNP P05534 EXPRESSION TAG SEQADV 3W0W LYS A 285 UNP P05534 EXPRESSION TAG SEQADV 3W0W MET A 286 UNP P05534 EXPRESSION TAG SEQADV 3W0W GLU A 287 UNP P05534 EXPRESSION TAG SEQADV 3W0W LEU A 288 UNP P05534 EXPRESSION TAG SEQADV 3W0W ARG A 289 UNP P05534 EXPRESSION TAG SEQADV 3W0W ASP A 290 UNP P05534 EXPRESSION TAG SEQADV 3W0W MET B 0 UNP P61769 EXPRESSION TAG SEQRES 1 A 291 MET GLY SER HIS SER MET ARG TYR PHE SER THR SER VAL SEQRES 2 A 291 SER ARG PRO GLY ARG GLY GLU PRO ARG PHE ILE ALA VAL SEQRES 3 A 291 GLY TYR VAL ASP ASP THR GLN PHE VAL ARG PHE ASP SER SEQRES 4 A 291 ASP ALA ALA SER GLN ARG MET GLU PRO ARG ALA PRO TRP SEQRES 5 A 291 ILE GLU GLN GLU GLY PRO GLU TYR TRP ASP GLU GLU THR SEQRES 6 A 291 GLY LYS VAL LYS ALA HIS SER GLN THR ASP ARG GLU ASN SEQRES 7 A 291 LEU ARG ILE ALA LEU ARG TYR TYR ASN GLN SER GLU ALA SEQRES 8 A 291 GLY SER HIS THR LEU GLN MET MET PHE GLY CYS ASP VAL SEQRES 9 A 291 GLY SER ASP GLY ARG PHE LEU ARG GLY TYR HIS GLN TYR SEQRES 10 A 291 ALA TYR ASP GLY LYS ASP TYR ILE ALA LEU LYS GLU ASP SEQRES 11 A 291 LEU ARG SER TRP THR ALA ALA ASP MET ALA ALA GLN ILE SEQRES 12 A 291 THR LYS ARG LYS TRP GLU ALA ALA HIS VAL ALA GLU GLN SEQRES 13 A 291 GLN ARG ALA TYR LEU GLU GLY THR CYS VAL ASP GLY LEU SEQRES 14 A 291 ARG ARG TYR LEU GLU ASN GLY LYS GLU THR LEU GLN ARG SEQRES 15 A 291 THR ASP PRO PRO LYS THR HIS MET THR HIS HIS PRO ILE SEQRES 16 A 291 SER ASP HIS GLU ALA THR LEU ARG CYS TRP ALA LEU GLY SEQRES 17 A 291 PHE TYR PRO ALA GLU ILE THR LEU THR TRP GLN ARG ASP SEQRES 18 A 291 GLY GLU ASP GLN THR GLN ASP THR GLU LEU VAL GLU THR SEQRES 19 A 291 ARG PRO ALA GLY ASP GLY THR PHE GLN LYS TRP ALA ALA SEQRES 20 A 291 VAL VAL VAL PRO SER GLY GLU GLU GLN ARG TYR THR CYS SEQRES 21 A 291 HIS VAL GLN HIS GLU GLY LEU PRO LYS PRO LEU THR LEU SEQRES 22 A 291 ARG TRP GLY SER LEU GLY GLY ILE PHE GLU ALA MET LYS SEQRES 23 A 291 MET GLU LEU ARG ASP SEQRES 1 B 100 MET ILE GLN ARG THR PRO LYS ILE GLN VAL TYR SER ARG SEQRES 2 B 100 HIS PRO ALA GLU ASN GLY LYS SER ASN PHE LEU ASN CYS SEQRES 3 B 100 TYR VAL SER GLY PHE HIS PRO SER ASP ILE GLU VAL ASP SEQRES 4 B 100 LEU LEU LYS ASN GLY GLU ARG ILE GLU LYS VAL GLU HIS SEQRES 5 B 100 SER ASP LEU SER PHE SER LYS ASP TRP SER PHE TYR LEU SEQRES 6 B 100 LEU TYR TYR THR GLU PHE THR PRO THR GLU LYS ASP GLU SEQRES 7 B 100 TYR ALA CYS ARG VAL ASN HIS VAL THR LEU SER GLN PRO SEQRES 8 B 100 LYS ILE VAL LYS TRP ASP ARG ASP MET SEQRES 1 C 10 ARG PHE PRO LEU THR PHE GLY TRP CYS PHE SEQRES 1 D 205 MET GLN LYS GLU VAL GLU GLN ASN SER GLY PRO LEU SER SEQRES 2 D 205 VAL PRO GLU GLY ALA ILE ALA SER LEU ASN CYS THR TYR SEQRES 3 D 205 SER ASP ARG GLY SER GLN SER PHE PHE TRP TYR ARG GLN SEQRES 4 D 205 TYR SER GLY LYS SER PRO GLU LEU ILE MET SER ILE TYR SEQRES 5 D 205 SER ASN GLY ASP LYS GLU ASP GLY ARG PHE THR ALA GLN SEQRES 6 D 205 LEU ASN LYS ALA SER GLN TYR VAL SER LEU LEU ILE ARG SEQRES 7 D 205 ASP SER GLN PRO SER ASP SER ALA THR TYR LEU TRP GLY SEQRES 8 D 205 THR TYR ASN GLN GLY GLY LYS LEU ILE PHE GLY GLN GLY SEQRES 9 D 205 THR GLU LEU SER VAL LYS PRO ASN ILE GLN ASN PRO ASP SEQRES 10 D 205 PRO ALA VAL TYR GLN LEU ARG ASP SER LYS SER SER ASP SEQRES 11 D 205 LYS SER VAL CYS LEU PHE THR ASP PHE ASP SER GLN THR SEQRES 12 D 205 ASN VAL SER GLN SER LYS ASP SER ASP VAL TYR ILE THR SEQRES 13 D 205 ASP LYS CYS VAL LEU ASP MET ARG SER MET ASP PHE LYS SEQRES 14 D 205 SER ASN SER ALA VAL ALA TRP SER ASN LYS SER ASP PHE SEQRES 15 D 205 ALA CYS ALA ASN ALA PHE ASN ASN SER ILE ILE PRO GLU SEQRES 16 D 205 ASP THR PHE PHE PRO SER PRO GLU SER SER SEQRES 1 E 242 MET GLU ALA GLN VAL THR GLN ASN PRO ARG TYR LEU ILE SEQRES 2 E 242 THR VAL THR GLY LYS LYS LEU THR VAL THR CYS SER GLN SEQRES 3 E 242 ASN MET ASN HIS GLU TYR MET SER TRP TYR ARG GLN ASP SEQRES 4 E 242 PRO GLY LEU GLY LEU ARG GLN ILE TYR TYR SER MET ASN SEQRES 5 E 242 VAL GLU VAL THR ASP LYS GLY ASP VAL PRO GLU GLY TYR SEQRES 6 E 242 LYS VAL SER ARG LYS GLU LYS ARG ASN PHE PRO LEU ILE SEQRES 7 E 242 LEU GLU SER PRO SER PRO ASN GLN THR SER LEU TYR PHE SEQRES 8 E 242 CYS ALA SER SER GLY ALA SER HIS GLU GLN TYR PHE GLY SEQRES 9 E 242 PRO GLY THR ARG LEU THR VAL THR GLU ASP LEU LYS ASN SEQRES 10 E 242 VAL PHE PRO PRO GLU VAL ALA VAL PHE GLU PRO SER GLU SEQRES 11 E 242 ALA GLU ILE SER HIS THR GLN LYS ALA THR LEU VAL CYS SEQRES 12 E 242 LEU ALA THR GLY PHE TYR PRO ASP HIS VAL GLU LEU SER SEQRES 13 E 242 TRP TRP VAL ASN GLY LYS GLU VAL HIS SER GLY VAL CYS SEQRES 14 E 242 THR ASP PRO GLN PRO LEU LYS GLU GLN PRO ALA LEU ASN SEQRES 15 E 242 ASP SER ARG TYR ALA LEU SER SER ARG LEU ARG VAL SER SEQRES 16 E 242 ALA THR PHE TRP GLN ASN PRO ARG ASN HIS PHE ARG CYS SEQRES 17 E 242 GLN VAL GLN PHE TYR GLY LEU SER GLU ASN ASP GLU TRP SEQRES 18 E 242 THR GLN ASP ARG ALA LYS PRO VAL THR GLN ILE VAL SER SEQRES 19 E 242 ALA GLU ALA TRP GLY ARG ALA ASP FORMUL 6 HOH *320(H2 O) HELIX 1 1 ALA A 49 GLU A 55 5 7 HELIX 2 2 GLY A 56 TYR A 85 1 30 HELIX 3 3 ASP A 137 ALA A 150 1 14 HELIX 4 4 HIS A 151 GLY A 162 1 12 HELIX 5 5 GLY A 162 GLY A 175 1 14 HELIX 6 6 GLY A 175 GLN A 180 1 6 HELIX 7 7 GLU A 253 GLN A 255 5 3 HELIX 8 8 GLN D 80 SER D 84 5 5 HELIX 9 9 ARG D 163 ASP D 166 5 4 HELIX 10 10 ALA D 182 PHE D 187 1 6 HELIX 11 11 SER E 82 THR E 86 5 5 HELIX 12 12 ASP E 113 VAL E 117 5 5 HELIX 13 13 SER E 128 GLN E 136 1 9 HELIX 14 14 ALA E 195 GLN E 199 1 5 SHEET 1 A 8 GLU A 46 PRO A 47 0 SHEET 2 A 8 THR A 31 ASP A 37 -1 N ARG A 35 O GLU A 46 SHEET 3 A 8 ARG A 21 VAL A 28 -1 N VAL A 28 O THR A 31 SHEET 4 A 8 HIS A 3 VAL A 12 -1 N THR A 10 O ILE A 23 SHEET 5 A 8 THR A 94 VAL A 103 -1 O MET A 97 N SER A 9 SHEET 6 A 8 PHE A 109 TYR A 118 -1 O GLN A 115 N MET A 98 SHEET 7 A 8 LYS A 121 LEU A 126 -1 O TYR A 123 N TYR A 116 SHEET 8 A 8 TRP A 133 ALA A 135 -1 O THR A 134 N ALA A 125 SHEET 1 B 4 LYS A 186 HIS A 192 0 SHEET 2 B 4 GLU A 198 PHE A 208 -1 O THR A 200 N HIS A 192 SHEET 3 B 4 PHE A 241 PRO A 250 -1 O ALA A 245 N CYS A 203 SHEET 4 B 4 THR A 228 LEU A 230 -1 N GLU A 229 O ALA A 246 SHEET 1 C 4 LYS A 186 HIS A 192 0 SHEET 2 C 4 GLU A 198 PHE A 208 -1 O THR A 200 N HIS A 192 SHEET 3 C 4 PHE A 241 PRO A 250 -1 O ALA A 245 N CYS A 203 SHEET 4 C 4 ARG A 234 PRO A 235 -1 N ARG A 234 O GLN A 242 SHEET 1 D 3 THR A 214 ARG A 219 0 SHEET 2 D 3 TYR A 257 GLN A 262 -1 O HIS A 260 N THR A 216 SHEET 3 D 3 LEU A 270 LEU A 272 -1 O LEU A 272 N CYS A 259 SHEET 1 E 4 LYS B 6 SER B 11 0 SHEET 2 E 4 ASN B 21 PHE B 30 -1 O ASN B 24 N TYR B 10 SHEET 3 E 4 PHE B 62 PHE B 70 -1 O TYR B 66 N CYS B 25 SHEET 4 E 4 GLU B 50 HIS B 51 -1 N GLU B 50 O TYR B 67 SHEET 1 F 4 LYS B 6 SER B 11 0 SHEET 2 F 4 ASN B 21 PHE B 30 -1 O ASN B 24 N TYR B 10 SHEET 3 F 4 PHE B 62 PHE B 70 -1 O TYR B 66 N CYS B 25 SHEET 4 F 4 SER B 55 PHE B 56 -1 N SER B 55 O TYR B 63 SHEET 1 G 4 GLU B 44 ARG B 45 0 SHEET 2 G 4 GLU B 36 LYS B 41 -1 N LYS B 41 O GLU B 44 SHEET 3 G 4 TYR B 78 ASN B 83 -1 O ASN B 83 N GLU B 36 SHEET 4 G 4 LYS B 91 LYS B 94 -1 O VAL B 93 N CYS B 80 SHEET 1 H 5 PRO D 10 PRO D 14 0 SHEET 2 H 5 THR D 104 LYS D 109 1 O GLU D 105 N LEU D 11 SHEET 3 H 5 ALA D 85 TYR D 92 -1 N ALA D 85 O LEU D 106 SHEET 4 H 5 PHE D 33 GLN D 38 -1 N TYR D 36 O LEU D 88 SHEET 5 H 5 GLU D 45 ILE D 50 -1 O MET D 48 N TRP D 35 SHEET 1 I 4 PRO D 10 PRO D 14 0 SHEET 2 I 4 THR D 104 LYS D 109 1 O GLU D 105 N LEU D 11 SHEET 3 I 4 ALA D 85 TYR D 92 -1 N ALA D 85 O LEU D 106 SHEET 4 I 4 LEU D 98 PHE D 100 -1 O ILE D 99 N THR D 91 SHEET 1 J 4 ALA D 19 THR D 24 0 SHEET 2 J 4 TYR D 71 ILE D 76 -1 O ILE D 76 N ALA D 19 SHEET 3 J 4 PHE D 61 ASN D 66 -1 N ASN D 66 O TYR D 71 SHEET 4 J 4 GLY D 54 ASP D 58 -1 N GLY D 54 O LEU D 65 SHEET 1 K 4 ALA D 118 ARG D 123 0 SHEET 2 K 4 SER D 131 THR D 136 -1 O LEU D 134 N TYR D 120 SHEET 3 K 4 PHE D 167 SER D 176 -1 O ALA D 174 N CYS D 133 SHEET 4 K 4 VAL D 152 ILE D 154 -1 N TYR D 153 O TRP D 175 SHEET 1 L 4 ALA D 118 ARG D 123 0 SHEET 2 L 4 SER D 131 THR D 136 -1 O LEU D 134 N TYR D 120 SHEET 3 L 4 PHE D 167 SER D 176 -1 O ALA D 174 N CYS D 133 SHEET 4 L 4 CYS D 158 MET D 162 -1 N LEU D 160 O SER D 169 SHEET 1 M 4 THR E 5 ASN E 7 0 SHEET 2 M 4 LEU E 19 SER E 24 -1 O SER E 24 N THR E 5 SHEET 3 M 4 LEU E 76 LEU E 78 -1 O LEU E 78 N LEU E 19 SHEET 4 M 4 LYS E 65 VAL E 66 -1 N LYS E 65 O ILE E 77 SHEET 1 N 6 TYR E 10 VAL E 14 0 SHEET 2 N 6 THR E 106 THR E 111 1 O THR E 109 N LEU E 11 SHEET 3 N 6 SER E 87 SER E 94 -1 N TYR E 89 O THR E 106 SHEET 4 N 6 TYR E 31 ASP E 38 -1 N TYR E 35 O PHE E 90 SHEET 5 N 6 GLY E 42 ASN E 51 -1 O SER E 49 N MET E 32 SHEET 6 N 6 VAL E 54 LYS E 57 -1 O ASP E 56 N TYR E 48 SHEET 1 O 4 TYR E 10 VAL E 14 0 SHEET 2 O 4 THR E 106 THR E 111 1 O THR E 109 N LEU E 11 SHEET 3 O 4 SER E 87 SER E 94 -1 N TYR E 89 O THR E 106 SHEET 4 O 4 TYR E 101 PHE E 102 -1 O TYR E 101 N SER E 93 SHEET 1 P 4 GLU E 121 PHE E 125 0 SHEET 2 P 4 LYS E 137 PHE E 147 -1 O VAL E 141 N PHE E 125 SHEET 3 P 4 TYR E 185 SER E 194 -1 O SER E 189 N CYS E 142 SHEET 4 P 4 VAL E 167 THR E 169 -1 N CYS E 168 O ARG E 190 SHEET 1 Q 4 GLU E 121 PHE E 125 0 SHEET 2 Q 4 LYS E 137 PHE E 147 -1 O VAL E 141 N PHE E 125 SHEET 3 Q 4 TYR E 185 SER E 194 -1 O SER E 189 N CYS E 142 SHEET 4 Q 4 LEU E 174 LYS E 175 -1 N LEU E 174 O ALA E 186 SHEET 1 R 4 LYS E 161 GLU E 162 0 SHEET 2 R 4 VAL E 152 VAL E 158 -1 N VAL E 158 O LYS E 161 SHEET 3 R 4 HIS E 204 PHE E 211 -1 O GLN E 208 N SER E 155 SHEET 4 R 4 GLN E 230 TRP E 237 -1 O ALA E 236 N PHE E 205 SSBOND 1 CYS A 101 CYS A 164 1555 1555 2.11 SSBOND 2 CYS A 203 CYS A 259 1555 1555 2.05 SSBOND 3 CYS B 25 CYS B 80 1555 1555 2.05 SSBOND 4 CYS D 133 CYS D 183 1555 1555 2.04 SSBOND 5 CYS D 158 CYS E 168 1555 1555 2.05 SSBOND 6 CYS E 23 CYS E 91 1555 1555 2.02 SSBOND 7 CYS E 142 CYS E 207 1555 1555 2.02 CISPEP 1 TYR A 209 PRO A 210 0 6.41 CISPEP 2 HIS B 31 PRO B 32 0 -5.51 CISPEP 3 GLU D 202 SER D 203 0 -0.70 CISPEP 4 ASN E 7 PRO E 8 0 -1.48 CISPEP 5 TYR E 148 PRO E 149 0 2.36 CRYST1 50.921 86.441 251.772 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 0.019638 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011569 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003972 0.00000