HEADER IMMUNE SYSTEM 17-AUG-05 2AQ2 TITLE CRYSTAL STRUCTURE OF T-CELL RECEPTOR V BETA DOMAIN VARIANT COMPLEXED TITLE 2 WITH SUPERANTIGEN SEC3 MUTANT COMPND MOL_ID: 1; COMPND 2 MOLECULE: T-CELL RECEPTOR BETA CHAIN V; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: ENTEROTOXIN TYPE C-3; COMPND 8 CHAIN: B; COMPND 9 SYNONYM: SEC3; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)PLYSS; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PT7-7; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: STAPHYLOCOCCUS AUREUS; SOURCE 12 ORGANISM_TAXID: 1280; SOURCE 13 GENE: ENTC3; SOURCE 14 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS T-CELL RECEPTOR V BETA DOMAIN, STAPHLOCOCCAL ENTEROTOXIN C3, COMPLEX KEYWDS 2 STRUCTURE, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR S.CHO,C.P.SWAMINATHAN,J.YANG,M.C.KERZIC,R.GUAN,M.C.KIEKE,D.M.KRANZ, AUTHOR 2 R.A.MARIUZZA,E.J.SUNDBERG REVDAT 3 11-OCT-17 2AQ2 1 REMARK REVDAT 2 24-FEB-09 2AQ2 1 VERSN REVDAT 1 21-MAR-06 2AQ2 0 JRNL AUTH S.CHO,C.P.SWAMINATHAN,J.YANG,M.C.KERZIC,R.GUAN,M.C.KIEKE, JRNL AUTH 2 D.M.KRANZ,R.A.MARIUZZA,E.J.SUNDBERG JRNL TITL STRUCTURAL BASIS OF AFFINITY MATURATION AND INTRAMOLECULAR JRNL TITL 2 COOPERATIVITY IN A PROTEIN-PROTEIN INTERACTION. JRNL REF STRUCTURE V. 13 1775 2005 JRNL REFN ISSN 0969-2126 JRNL PMID 16338399 JRNL DOI 10.1016/J.STR.2005.08.015 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 3 NUMBER OF REFLECTIONS : 44890 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) : 0.185 REMARK 3 R VALUE (WORKING SET) : 0.185 REMARK 3 FREE R VALUE : 0.213 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2257 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) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2922 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 93.04 REMARK 3 BIN R VALUE (WORKING SET) : 0.2520 REMARK 3 BIN FREE R VALUE SET COUNT : 167 REMARK 3 BIN FREE R VALUE : 0.3100 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2764 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 29 REMARK 3 SOLVENT ATOMS : 231 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.71 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.98000 REMARK 3 B22 (A**2) : 0.98000 REMARK 3 B33 (A**2) : -1.47000 REMARK 3 B12 (A**2) : 0.49000 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): 0.107 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.104 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.068 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.149 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.961 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.952 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2848 ; 0.014 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3851 ; 1.379 ; 1.950 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 340 ; 6.103 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 141 ;36.489 ;25.248 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 491 ;14.205 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 8 ;10.700 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 403 ; 0.109 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2161 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1219 ; 0.228 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1932 ; 0.304 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 242 ; 0.157 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 1 ; 0.189 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 52 ; 0.159 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 14 ; 0.136 ; 0.200 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): 1704 ; 1.034 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2750 ; 1.933 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1189 ; 2.910 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1101 ; 4.592 ; 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 : 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 ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 2AQ2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-JAN-06. REMARK 100 THE DEPOSITION ID IS D_1000034178. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-OCT-04 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 : NSLS REMARK 200 BEAMLINE : X25 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.072 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 44916 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 4.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 200 DATA REDUNDANCY : 3.600 REMARK 200 R MERGE (I) : 0.05200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.86 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.20 REMARK 200 R MERGE FOR SHELL (I) : 0.36900 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 63.30 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.0 M AMMONIUM SULFATE, 0.1 M TRIS, REMARK 280 0.3 % 1,6-DIAMINOHEXANE, PH 7.0, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 61.45467 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 30.72733 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 46.09100 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 15.36367 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 76.81833 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2720 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15970 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -97.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2840 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15860 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -104.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B 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 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 2 -0.500000 0.866025 0.000000 -48.26850 REMARK 350 BIOMT2 2 -0.866025 -0.500000 0.000000 83.60349 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 30.72733 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 ILE A -1 REMARK 465 LEU A 0 REMARK 465 GLU B 1 REMARK 465 ASN B 236 REMARK 465 GLY B 237 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 B 1052 O HOH B 1173 2.09 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 ASP A 62 C GLY A 63 N -0.174 REMARK 500 TYR A 101 C PHE A 108 N 0.214 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 GLY A 63 O - C - N ANGL. DEV. = -12.2 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 HIS A 41 -142.77 -128.87 REMARK 500 ILE A 46 -60.68 -94.81 REMARK 500 SER A 88 173.80 179.87 REMARK 500 PHE B 44 -72.49 -101.95 REMARK 500 LEU B 58 -156.98 -109.14 REMARK 500 ASP B 122 22.26 -67.18 REMARK 500 ASN B 123 21.34 -163.83 REMARK 500 SER B 176 -153.38 -138.96 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 TYR A 101 -12.51 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B1001 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 120 NE2 REMARK 620 2 HIS B 116 ND1 133.8 REMARK 620 3 ASP B 83 OD1 146.8 77.2 REMARK 620 4 ASP B 83 OD2 95.2 119.3 52.9 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA B 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA B 1003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA B 1004 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 500 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 504 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2APB RELATED DB: PDB REMARK 900 THE G17E/S54N/L81S VARIANT OF THE MURINE T CELL RECEPTOR V BETA 8.2 REMARK 900 DOMAIN REMARK 900 RELATED ID: 2APF RELATED DB: PDB REMARK 900 THE G17E/A52V/S54N/K66E/L81S VARIANT OF THE MURINE T CELL RECEPTOR REMARK 900 V BETA 8.2 DOMAIN REMARK 900 RELATED ID: 2APT RELATED DB: PDB REMARK 900 THE G17E/S54N/K66E/Q72H/E80V/L81S/T87S/G96V VARIANT OF THE MURINE T REMARK 900 CELL RECEPTOR V BETA 8.2 DOMAIN REMARK 900 RELATED ID: 2APV RELATED DB: PDB REMARK 900 THE G17E/A52V/S54N/Q72H/E80V/L81S/T87S/G96V VARIANT OF THE MURINE T REMARK 900 CELL RECEPTOR V BETA 8.2 DOMAIN REMARK 900 RELATED ID: 2APW RELATED DB: PDB REMARK 900 THE G17E/A52V/S54N/K66E/E80V/L81S/T87S/G96V VARIANT OF THE MURINE T REMARK 900 CELL RECEPTOR V BETA 8.2 DOMAIN REMARK 900 RELATED ID: 2APX RELATED DB: PDB REMARK 900 THE G17E/A52V/S54N/K66E/Q72H/E80V/L81S/T87S/G96V VARIANT OF THE REMARK 900 MURINE T CELL RECEPTOR V BETA 8.2 DOMAIN REMARK 900 RELATED ID: 2AQ1 RELATED DB: PDB REMARK 900 T-CELL RECEPTOR V BETA DOMAIN VARIANT (G17E/A52V/S54N/K66E/E80V/ REMARK 900 L81S/T87S/G96V) COMPLEXED WITH SUPERANTIGEN SEC3 MUTANT REMARK 900 RELATED ID: 2AQ3 RELATED DB: PDB REMARK 900 T-CELL RECEPTOR V BETA DOMAIN VARIANT (G17E/L81S) COMPLEXED WITH REMARK 900 SUPERANTIGEN SEC3 MUTANT REMARK 999 REMARK 999 SEQUENCE REMARK 999 NO SUITABLE SEQUENCE DATABASE REFERENCE WAS AVAILABLE REMARK 999 FOR THE CHAIN A AT THE TIME OF PROCESSING THIS ENTRY. REMARK 999 THE FIVE SEC3 WILD TYPE RESIDUES AT POSITIONS 102-106 REMARK 999 (GKVTG) IN CHAIN B ARE REPLACED BY THREE RESIDUES (WWP). DBREF 2AQ2 A 1 117 UNP P04213 TVB5_MOUSE 9 122 DBREF 2AQ2 B 1 237 UNP P0A0L5 ENTC3_STAAU 28 266 SEQADV 2AQ2 B UNP P0A0L5 GLY 129 SEE REMARK 999 SEQADV 2AQ2 B UNP P0A0L5 LYS 130 SEE REMARK 999 SEQADV 2AQ2 TRP B 102 UNP P0A0L5 VAL 131 SEE REMARK 999 SEQADV 2AQ2 TRP B 103 UNP P0A0L5 THR 132 SEE REMARK 999 SEQADV 2AQ2 PRO B 104 UNP P0A0L5 GLY 133 SEE REMARK 999 SEQRES 1 A 112 ILE LEU GLU ALA ALA VAL THR GLN SER PRO ARG ASN LYS SEQRES 2 A 112 VAL ALA VAL THR GLY GLU LYS VAL THR LEU SER CYS GLN SEQRES 3 A 112 GLN THR ASN ASN HIS ASN ASN MET TYR TRP TYR ARG GLN SEQRES 4 A 112 ASP THR GLY HIS GLY LEU ARG LEU ILE HIS TYR SER TYR SEQRES 5 A 112 GLY VAL GLY ASN THR GLU LYS GLY ASP ILE PRO ASP GLY SEQRES 6 A 112 TYR GLU ALA SER ARG PRO SER GLN GLU GLN PHE SER LEU SEQRES 7 A 112 ILE LEU GLU SER ALA THR PRO SER GLN THR SER VAL TYR SEQRES 8 A 112 PHE CYS ALA SER GLY GLY GLY GLY THR LEU TYR PHE GLY SEQRES 9 A 112 ALA GLY THR ARG LEU SER VAL LEU SEQRES 1 B 237 GLU SER GLN PRO ASP PRO MET PRO ASP ASP LEU HIS LYS SEQRES 2 B 237 SER SER GLU PHE THR GLY THR MET GLY ASN MET LYS TYR SEQRES 3 B 237 LEU TYR ASP ASP HIS TYR VAL SER ALA THR LYS VAL LYS SEQRES 4 B 237 SER VAL ASP LYS PHE LEU ALA HIS ASP LEU ILE TYR ASN SEQRES 5 B 237 ILE SER ASP LYS LYS LEU LYS ASN TYR ASP LYS VAL LYS SEQRES 6 B 237 THR GLU LEU LEU ASN GLU ASP LEU ALA LYS LYS TYR LYS SEQRES 7 B 237 ASP GLU VAL VAL ASP VAL TYR GLY SER ASN TYR TYR VAL SEQRES 8 B 237 ASN CYS TYR PHE SER SER LYS ASP ASN VAL TRP TRP PRO SEQRES 9 B 237 GLY LYS THR CYS MET TYR GLY GLY ILE THR LYS HIS GLU SEQRES 10 B 237 GLY ASN HIS PHE ASP ASN GLY ASN LEU GLN ASN VAL LEU SEQRES 11 B 237 VAL ARG VAL TYR GLU ASN LYS ARG ASN THR ILE SER PHE SEQRES 12 B 237 GLU VAL GLN THR ASP LYS LYS SER VAL THR ALA GLN GLU SEQRES 13 B 237 LEU ASP ILE LYS ALA ARG ASN PHE LEU ILE ASN LYS LYS SEQRES 14 B 237 ASN LEU TYR GLU PHE ASN SER SER PRO TYR GLU THR GLY SEQRES 15 B 237 TYR ILE LYS PHE ILE GLU ASN ASN GLY ASN THR PHE TRP SEQRES 16 B 237 TYR ASP MET MET PRO ALA PRO GLY ASP LYS PHE ASP GLN SEQRES 17 B 237 SER LYS TYR LEU MET MET TYR ASN ASP ASN LYS THR VAL SEQRES 18 B 237 ASP SER LYS SER VAL LYS ILE GLU VAL HIS LEU THR THR SEQRES 19 B 237 LYS ASN GLY HET ZN B1001 1 HET NA B1002 1 HET NA B1003 1 HET NA B1004 1 HET SO4 B 500 5 HET SO4 B 501 5 HET SO4 B 502 5 HET SO4 B 503 5 HET SO4 B 504 5 HETNAM ZN ZINC ION HETNAM NA SODIUM ION HETNAM SO4 SULFATE ION FORMUL 3 ZN ZN 2+ FORMUL 4 NA 3(NA 1+) FORMUL 7 SO4 5(O4 S 2-) FORMUL 12 HOH *231(H2 O) HELIX 1 1 THR A 83 THR A 87 5 5 HELIX 2 2 MET B 7 LEU B 11 5 5 HELIX 3 3 LYS B 13 PHE B 17 5 5 HELIX 4 4 MET B 21 TYR B 26 1 6 HELIX 5 5 ASN B 70 LYS B 78 1 9 HELIX 6 6 ALA B 154 ASN B 170 1 17 HELIX 7 7 ASP B 207 MET B 213 1 7 HELIX 8 8 MET B 214 ASN B 218 5 5 SHEET 1 A 4 VAL A 4 SER A 7 0 SHEET 2 A 4 VAL A 19 GLN A 25 -1 O SER A 22 N SER A 7 SHEET 3 A 4 GLN A 74 LEU A 79 -1 O LEU A 79 N VAL A 19 SHEET 4 A 4 GLU A 66 SER A 71 -1 N GLU A 66 O ILE A 78 SHEET 1 B 6 ASN A 10 ALA A 13 0 SHEET 2 B 6 THR A 112 VAL A 116 1 O SER A 115 N ALA A 13 SHEET 3 B 6 SER A 88 GLY A 96 -1 N TYR A 90 O THR A 112 SHEET 4 B 6 ASN A 31 GLN A 37 -1 N TYR A 35 O PHE A 91 SHEET 5 B 6 LEU A 43 SER A 49 -1 O ILE A 46 N TRP A 34 SHEET 6 B 6 GLU A 56 LYS A 57 -1 O GLU A 56 N TYR A 48 SHEET 1 C 4 ASN A 10 ALA A 13 0 SHEET 2 C 4 THR A 112 VAL A 116 1 O SER A 115 N ALA A 13 SHEET 3 C 4 SER A 88 GLY A 96 -1 N TYR A 90 O THR A 112 SHEET 4 C 4 THR A 99 PHE A 108 -1 O TYR A 101 N SER A 94 SHEET 1 D 3 VAL B 33 VAL B 38 0 SHEET 2 D 3 VAL B 82 GLY B 86 -1 O VAL B 82 N VAL B 38 SHEET 3 D 3 ILE B 113 LYS B 115 -1 O THR B 114 N ASP B 83 SHEET 1 E 3 ASP B 48 TYR B 51 0 SHEET 2 E 3 TYR B 61 GLU B 67 -1 O THR B 66 N LEU B 49 SHEET 3 E 3 GLY B 105 TYR B 110 1 O GLY B 105 N ASP B 62 SHEET 1 F 5 ARG B 138 THR B 147 0 SHEET 2 F 5 GLN B 127 GLU B 135 -1 N VAL B 131 O PHE B 143 SHEET 3 F 5 LYS B 227 THR B 234 1 O VAL B 230 N TYR B 134 SHEET 4 F 5 TYR B 179 ILE B 187 -1 N LYS B 185 O GLU B 229 SHEET 5 F 5 THR B 193 ASP B 197 -1 O PHE B 194 N PHE B 186 SHEET 1 G 2 SER B 151 THR B 153 0 SHEET 2 G 2 THR B 220 ASP B 222 -1 O VAL B 221 N VAL B 152 SSBOND 1 CYS A 23 CYS A 92 1555 1555 1.97 SSBOND 2 CYS B 93 CYS B 108 1555 1555 2.11 LINK ZN ZN B1001 NE2 HIS B 120 1555 1555 1.87 LINK ZN ZN B1001 ND1 HIS B 116 1555 1555 2.12 LINK ZN ZN B1001 OD1 ASP B 83 1555 1555 2.69 LINK ZN ZN B1001 OD2 ASP B 83 1555 1555 2.18 LINK NA NA B1004 O HOH B1150 1555 1555 2.67 CISPEP 1 SER A 7 PRO A 8 0 -1.85 SITE 1 AC1 3 ASP B 83 HIS B 116 HIS B 120 SITE 1 AC2 3 GLU A 1 PHE B 174 ASN B 175 SITE 1 AC3 2 LYS B 25 PHE B 174 SITE 1 AC4 4 TYR B 77 THR B 114 LYS B 115 HOH B1150 SITE 1 AC5 5 TYR A 33 HOH A 174 HIS B 47 ASN B 70 SITE 2 AC5 5 GLU B 71 SITE 1 AC6 10 HOH A 131 TYR B 26 HIS B 31 ASP B 55 SITE 2 AC6 10 ASN B 60 ASN B 88 TYR B 90 HOH B1050 SITE 3 AC6 10 HOH B1086 HOH B1088 SITE 1 AC7 4 LYS B 75 ARG B 138 HOH B1038 HOH B1142 SITE 1 AC8 4 LYS B 75 LYS B 78 ARG B 138 HOH B1059 SITE 1 AC9 4 GLY B 203 ASP B 204 LYS B 205 HOH B1151 CRYST1 96.537 96.537 92.182 90.00 90.00 120.00 P 65 6 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.010360 0.005980 0.000000 0.00000 SCALE2 0.000000 0.011960 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010850 0.00000