PDB Short entry for 2OK0 HEADER IMMUNE SYSTEM/DNA 15-JAN-07 2OK0 TITLE FAB ED10-DNA COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-D(*TP*C)-3'; COMPND 3 CHAIN: D; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: FAB ED10 LIGHT CHAIN; COMPND 7 CHAIN: L; COMPND 8 MOL_ID: 3; COMPND 9 MOLECULE: FAB ED10 HEAVY CHAIN; COMPND 10 CHAIN: H SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 5 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 6 ORGANISM_TAXID: 10090; SOURCE 7 MOL_ID: 3; SOURCE 8 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 9 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 10 ORGANISM_TAXID: 10090 KEYWDS IMMUNOGLOBULIN FOLD, IMMUNE SYSTEM-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR R.L.STANFIELD,S.SANGUINETI,I.A.WILSON,G.DE PRAT-GAY REVDAT 5 27-DEC-23 2OK0 1 REMARK REVDAT 4 13-JUL-11 2OK0 1 VERSN REVDAT 3 24-FEB-09 2OK0 1 VERSN REVDAT 2 26-JUN-07 2OK0 1 JRNL REVDAT 1 12-JUN-07 2OK0 0 JRNL AUTH S.SANGUINETI,J.M.CENTENO CROWLEY,M.F.LODEIRO MERLO, JRNL AUTH 2 M.L.CERUTTI,I.A.WILSON,F.A.GOLDBAUM,R.L.STANFIELD, JRNL AUTH 3 G.DE PRAT-GAY JRNL TITL SPECIFIC RECOGNITION OF A DNA IMMUNOGEN BY ITS ELICITED JRNL TITL 2 ANTIBODY JRNL REF J.MOL.BIOL. V. 370 183 2007 JRNL REFN ISSN 0022-2836 JRNL PMID 17512945 JRNL DOI 10.1016/J.JMB.2007.04.046 REMARK 2 REMARK 2 RESOLUTION. 1.89 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 1.89 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.49 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 42211 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) : 0.178 REMARK 3 R VALUE (WORKING SET) : 0.177 REMARK 3 FREE R VALUE : 0.204 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2235 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) : 1.89 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.94 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2943 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.3070 REMARK 3 BIN FREE R VALUE SET COUNT : 157 REMARK 3 BIN FREE R VALUE : 0.3780 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3350 REMARK 3 NUCLEIC ACID ATOMS : 35 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 157 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 29.70 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 37.06 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.16000 REMARK 3 B22 (A**2) : 0.53000 REMARK 3 B33 (A**2) : -1.25000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.99000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.121 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.113 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.089 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.471 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.971 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.962 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3479 ; 0.022 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2306 ; 0.003 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4750 ; 1.856 ; 1.964 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5646 ; 0.926 ; 3.003 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 433 ; 6.573 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 134 ;33.166 ;24.403 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 548 ;14.226 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 11 ;17.404 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 534 ; 0.098 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3825 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 674 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 669 ; 0.198 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2596 ; 0.220 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1846 ; 0.205 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 2213 ; 0.103 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 252 ; 0.151 ; 0.200 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): 15 ; 0.303 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 38 ; 0.258 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 7 ; 0.152 ; 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): 2498 ; 1.246 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 872 ; 0.264 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3533 ; 1.643 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1524 ; 2.784 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1217 ; 3.876 ; 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 : 4 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 1 L 112 REMARK 3 ORIGIN FOR THE GROUP (A): 66.7150 68.3057 33.6833 REMARK 3 T TENSOR REMARK 3 T11: -0.1733 T22: -0.2396 REMARK 3 T33: -0.1544 T12: 0.0395 REMARK 3 T13: -0.0220 T23: 0.0149 REMARK 3 L TENSOR REMARK 3 L11: 4.8769 L22: 1.9664 REMARK 3 L33: 2.2703 L12: 1.4918 REMARK 3 L13: 0.2591 L23: -0.0514 REMARK 3 S TENSOR REMARK 3 S11: -0.0323 S12: 0.2238 S13: 0.1083 REMARK 3 S21: -0.1149 S22: -0.0242 S23: -0.1811 REMARK 3 S31: -0.0788 S32: 0.1201 S33: 0.0565 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 : L 113 L 214 REMARK 3 ORIGIN FOR THE GROUP (A): 96.2399 57.9792 50.2595 REMARK 3 T TENSOR REMARK 3 T11: -0.2327 T22: -0.1854 REMARK 3 T33: -0.1864 T12: 0.0105 REMARK 3 T13: 0.0224 T23: -0.0093 REMARK 3 L TENSOR REMARK 3 L11: 3.0979 L22: 5.2264 REMARK 3 L33: 4.5268 L12: -1.9860 REMARK 3 L13: 1.3914 L23: -2.2143 REMARK 3 S TENSOR REMARK 3 S11: 0.0985 S12: 0.0715 S13: -0.1731 REMARK 3 S21: 0.0053 S22: 0.0455 S23: 0.0872 REMARK 3 S31: 0.1814 S32: 0.2635 S33: -0.1440 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : H 1 H 116 REMARK 3 RESIDUE RANGE : D 1 D 2 REMARK 3 ORIGIN FOR THE GROUP (A): 57.0933 59.9657 51.2041 REMARK 3 T TENSOR REMARK 3 T11: -0.1901 T22: -0.2350 REMARK 3 T33: -0.1691 T12: 0.0046 REMARK 3 T13: -0.0047 T23: -0.0193 REMARK 3 L TENSOR REMARK 3 L11: 4.0306 L22: 2.2180 REMARK 3 L33: 3.5643 L12: -0.4440 REMARK 3 L13: 2.0269 L23: -1.0752 REMARK 3 S TENSOR REMARK 3 S11: 0.0075 S12: -0.2945 S13: -0.1393 REMARK 3 S21: 0.1641 S22: 0.0135 S23: 0.0524 REMARK 3 S31: 0.1780 S32: -0.1307 S33: -0.0210 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 : H 117 H 228 REMARK 3 ORIGIN FOR THE GROUP (A): 92.3961 66.2680 63.0264 REMARK 3 T TENSOR REMARK 3 T11: -0.1259 T22: -0.1600 REMARK 3 T33: -0.1938 T12: -0.0122 REMARK 3 T13: 0.0311 T23: -0.0077 REMARK 3 L TENSOR REMARK 3 L11: 6.1943 L22: 3.4555 REMARK 3 L33: 8.0852 L12: 1.7268 REMARK 3 L13: -2.8913 L23: -1.4341 REMARK 3 S TENSOR REMARK 3 S11: 0.1373 S12: -0.3436 S13: 0.0575 REMARK 3 S21: -0.0347 S22: -0.0087 S23: -0.3607 REMARK 3 S31: -0.5259 S32: 0.5552 S33: -0.1286 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH 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 2OK0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-JAN-07. REMARK 100 THE DEPOSITION ID IS D_1000041231. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 298 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : LNLS REMARK 200 BEAMLINE : D03B-MX1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.427 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 44585 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.890 REMARK 200 RESOLUTION RANGE LOW (A) : 40.500 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.5 REMARK 200 DATA REDUNDANCY : 2.500 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 4.60000 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 17.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.89 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.92 REMARK 200 COMPLETENESS FOR SHELL (%) : 91.5 REMARK 200 DATA REDUNDANCY IN SHELL : 2.50 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 43.3000 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: EPMR REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.05 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.08 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 15% PEG 6000, 0.05M KCL, 0.01M MGCL2, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 61.85550 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 31.91650 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 61.85550 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 31.91650 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 300 REMARK: CHAINS L, H AND D (ONE FAB-DNA COMPLEX) 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 APPLY THE FOLLOWING TO CHAINS: D, L, H 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 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 DC D 2 O3' 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 CYS L 194 CB CYS L 194 SG -0.107 REMARK 500 THR L 202 CB THR L 202 OG1 0.146 REMARK 500 CYS H 208 CB CYS H 208 SG -0.148 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 DT D 1 C3' - C2' - C1' ANGL. DEV. = -8.1 DEGREES REMARK 500 DT D 1 O4' - C1' - N1 ANGL. DEV. = -4.2 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 VAL L 51 -51.70 75.63 REMARK 500 SER H 82B 70.35 23.94 REMARK 500 GLN H 133 41.65 -141.63 REMARK 500 THR H 134 -32.93 -145.53 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2OJZ RELATED DB: PDB REMARK 900 STRUCTURAL BASIS FOR THE RECOGNITION OF A DNA IMMUNOGEN BY ITS REMARK 900 ELICITED ANTIBODY REMARK 999 REMARK 999 SEQUENCE REMARK 999 CURRENTLY, THERE IS NO AMINOACID SEQUENCE DATABASE REMARK 999 REFERENCE AVAILABLE FOR THE PROTEINS DBREF 2OK0 D 1 2 PDB 2OK0 2OK0 1 2 DBREF 2OK0 L 1 214 PDB 2OK0 2OK0 1 214 DBREF 2OK0 H 1 228 PDB 2OK0 2OK0 1 228 SEQRES 1 D 2 DT DC SEQRES 1 L 219 ASP ILE LEU MET THR GLN THR PRO LEU SER LEU PRO VAL SEQRES 2 L 219 SER LEU GLY ASP GLN ALA SER ILE SER CYS ARG SER SER SEQRES 3 L 219 GLN SER ILE VAL HIS SER ASN GLY ASN THR TYR LEU GLU SEQRES 4 L 219 TRP TYR LEU GLN LYS PRO GLY GLN SER PRO THR LEU LEU SEQRES 5 L 219 ILE TYR LYS VAL SER ASN ARG PHE SER GLY VAL PRO ASP SEQRES 6 L 219 ARG PHE SER GLY SER GLY SER GLY THR ASP PHE THR LEU SEQRES 7 L 219 LYS ILE SER ARG VAL GLU ALA GLU ASP LEU GLY VAL TYR SEQRES 8 L 219 TYR CYS PHE GLN GLY SER HIS ILE PRO LEU THR PHE GLY SEQRES 9 L 219 ALA GLY THR LYS LEU GLU VAL LYS ARG SER ASP ALA ALA SEQRES 10 L 219 PRO THR VAL SER ILE PHE PRO PRO SER SER GLU GLN LEU SEQRES 11 L 219 THR SER GLY GLY ALA SER VAL VAL CYS PHE LEU ASN ASN SEQRES 12 L 219 PHE TYR PRO LYS ASP ILE ASN VAL LYS TRP LYS ILE ASP SEQRES 13 L 219 GLY SER GLU ARG GLN ASN GLY VAL LEU ASN SER TRP THR SEQRES 14 L 219 ASP GLN ASP SER LYS ASP SER THR TYR SER MET SER SER SEQRES 15 L 219 THR LEU THR LEU THR LYS ASP GLU TYR GLU ARG HIS ASN SEQRES 16 L 219 SER TYR THR CYS GLU ALA THR HIS LYS THR SER THR SER SEQRES 17 L 219 PRO ILE VAL LYS SER PHE ASN ARG ASN GLU CYS SEQRES 1 H 216 GLU VAL GLN LEU GLU GLU SER GLY PRO GLU LEU VAL LYS SEQRES 2 H 216 PRO GLY ALA SER VAL LYS ILE SER CYS LYS ALA SER GLY SEQRES 3 H 216 TYR THR PHE THR ASP TYR TYR MET ASN TRP LEU ARG GLN SEQRES 4 H 216 LYS PRO GLY GLN GLY LEU GLU TRP ILE GLY TRP VAL TYR SEQRES 5 H 216 PRO GLY SER ILE LYS TYR ASN GLU LYS PHE LYS ASP LYS SEQRES 6 H 216 ALA THR LEU THR ALA ASP THR SER SER SER ILE VAL TYR SEQRES 7 H 216 MET HIS LEU SER SER LEU THR SER ASP ASP ASN ALA VAL SEQRES 8 H 216 TYR PHE CYS THR ARG TRP THR TYR GLY SER SER PHE ASP SEQRES 9 H 216 TYR TRP GLY GLU GLY THR LEU LEU THR VAL SER SER ALA SEQRES 10 H 216 LYS THR THR PRO PRO SER VAL TYR PRO LEU ALA PRO GLY SEQRES 11 H 216 SER ALA ALA GLN THR ASN SER MET VAL THR LEU GLY CYS SEQRES 12 H 216 LEU VAL LYS GLY TYR PHE PRO GLU PRO VAL THR VAL THR SEQRES 13 H 216 TRP ASN SER GLY SER LEU SER SER GLY VAL HIS THR PHE SEQRES 14 H 216 PRO ALA VAL LEU GLN SER ASP LEU TYR THR LEU SER SER SEQRES 15 H 216 SER VAL THR VAL PRO SER SER THR TRP PRO SER GLU THR SEQRES 16 H 216 VAL THR CYS ASN VAL ALA HIS PRO ALA SER SER THR LYS SEQRES 17 H 216 VAL ASP LYS LYS ILE VAL PRO ARG FORMUL 4 HOH *157(H2 O) HELIX 1 1 GLU L 79 LEU L 83 5 5 HELIX 2 2 SER L 121 SER L 127 1 7 HELIX 3 3 LYS L 183 ARG L 188 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 THR H 83 ASN H 87 5 5 HELIX 7 7 SER H 163 SER H 165 5 3 HELIX 8 8 PRO H 213 SER H 216 5 4 SHEET 1 A 4 MET L 4 THR L 7 0 SHEET 2 A 4 ALA L 19 SER L 25 -1 O ARG L 24 N THR L 5 SHEET 3 A 4 ASP L 70 ILE L 75 -1 O ILE L 75 N ALA L 19 SHEET 4 A 4 PHE L 62 SER L 67 -1 N SER L 63 O LYS L 74 SHEET 1 B 6 SER L 10 VAL L 13 0 SHEET 2 B 6 THR L 102 VAL L 106 1 O LYS L 103 N LEU L 11 SHEET 3 B 6 VAL L 85 GLN L 90 -1 N TYR L 86 O THR L 102 SHEET 4 B 6 LEU L 33 GLN L 38 -1 N GLN L 38 O VAL L 85 SHEET 5 B 6 THR L 45 TYR L 49 -1 O LEU L 47 N TRP L 35 SHEET 6 B 6 ASN L 53 ARG L 54 -1 O ASN L 53 N TYR L 49 SHEET 1 C 4 SER L 10 VAL L 13 0 SHEET 2 C 4 THR L 102 VAL L 106 1 O LYS L 103 N LEU L 11 SHEET 3 C 4 VAL L 85 GLN L 90 -1 N TYR L 86 O THR L 102 SHEET 4 C 4 THR L 97 PHE L 98 -1 O THR L 97 N GLN L 90 SHEET 1 D 4 THR L 114 PHE L 118 0 SHEET 2 D 4 GLY L 129 PHE L 139 -1 O ASN L 137 N THR L 114 SHEET 3 D 4 TYR L 173 THR L 182 -1 O LEU L 179 N VAL L 132 SHEET 4 D 4 VAL L 159 TRP L 163 -1 N LEU L 160 O THR L 178 SHEET 1 E 4 SER L 153 ARG L 155 0 SHEET 2 E 4 ILE L 144 ILE L 150 -1 N TRP L 148 O ARG L 155 SHEET 3 E 4 SER L 191 HIS L 198 -1 O GLU L 195 N LYS L 147 SHEET 4 E 4 ILE L 205 ASN L 210 -1 O ILE L 205 N ALA L 196 SHEET 1 F 4 GLN H 3 GLU H 6 0 SHEET 2 F 4 VAL H 18 SER H 25 -1 O LYS H 23 N GLU H 5 SHEET 3 F 4 ILE H 77 LEU H 82 -1 O MET H 80 N ILE H 20 SHEET 4 F 4 ALA H 67 ASP H 72 -1 N ASP H 72 O ILE H 77 SHEET 1 G 6 GLU H 10 VAL H 12 0 SHEET 2 G 6 THR H 107 VAL H 111 1 O LEU H 108 N GLU H 10 SHEET 3 G 6 ALA H 88 TRP H 95 -1 N ALA H 88 O LEU H 109 SHEET 4 G 6 TYR H 33 GLN H 39 -1 N TYR H 33 O TRP H 95 SHEET 5 G 6 LEU H 45 TYR H 52 -1 O ILE H 48 N TRP H 36 SHEET 6 G 6 SER H 56 TYR H 59 -1 O SER H 56 N TYR H 52 SHEET 1 H 4 SER H 120 LEU H 124 0 SHEET 2 H 4 MET H 137 TYR H 147 -1 O GLY H 141 N LEU H 124 SHEET 3 H 4 LEU H 184 PRO H 194 -1 O TYR H 185 N TYR H 147 SHEET 4 H 4 VAL H 171 THR H 173 -1 N HIS H 172 O SER H 190 SHEET 1 I 4 SER H 120 LEU H 124 0 SHEET 2 I 4 MET H 137 TYR H 147 -1 O GLY H 141 N LEU H 124 SHEET 3 I 4 LEU H 184 PRO H 194 -1 O TYR H 185 N TYR H 147 SHEET 4 I 4 VAL H 177 GLN H 179 -1 N GLN H 179 O LEU H 184 SHEET 1 J 3 THR H 153 TRP H 157 0 SHEET 2 J 3 VAL H 206 HIS H 212 -1 O ASN H 209 N THR H 156 SHEET 3 J 3 THR H 217 ILE H 223 -1 O VAL H 219 N VAL H 210 SSBOND 1 CYS L 23 CYS L 88 1555 1555 2.03 SSBOND 2 CYS L 134 CYS L 194 1555 1555 2.03 SSBOND 3 CYS H 22 CYS H 92 1555 1555 1.98 SSBOND 4 CYS H 142 CYS H 208 1555 1555 1.99 CISPEP 1 THR L 7 PRO L 8 0 -4.34 CISPEP 2 ILE L 94 PRO L 95 0 1.40 CISPEP 3 TYR L 140 PRO L 141 0 4.97 CISPEP 4 PHE H 148 PRO H 149 0 -5.89 CISPEP 5 GLU H 150 PRO H 151 0 -3.59 CISPEP 6 TRP H 200 PRO H 202 0 6.24 CRYST1 123.711 63.833 83.880 90.00 116.26 90.00 C 1 2 1 4 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.008083 0.000000 0.003989 0.00000 SCALE2 0.000000 0.015666 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013294 0.00000