HEADER IMMUNE SYSTEM 03-DEC-06 2JB5 TITLE FAB FRAGMENT IN COMPLEX WITH SMALL MOLECULE HAPTEN, CRYSTAL FORM-1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: FAB FRAGMENT MOR03268 HEAVY CHAIN; COMPND 3 CHAIN: H; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: FAB FRAGMENT MOR03268 LIGHT CHAIN; COMPND 7 CHAIN: L; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 OTHER_DETAILS: IN VITRO SELECTED FROM A LIBRARY AND OPTIMIZED IN SOURCE 8 SEVERAL MATURATION STEPS; SOURCE 9 MOL_ID: 2; SOURCE 10 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_COMMON: HUMAN; SOURCE 12 ORGANISM_TAXID: 9606; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 15 OTHER_DETAILS: IN VITRO SELECTED FROM A LIBRARY AND OPTIMIZED IN SOURCE 16 SEVERAL MATURATION STEPS KEYWDS CDR, TSC, FAB, HUCAL, FLUORESCENT DYE, IMMUNOGLOBULIN DOMAIN, KEYWDS 2 ANTIBODY FRAGMENT, DIAGNOSTIC IMAGING, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR R.C.HILLIG,S.BAESLER,G.MALAWSKI,V.BADOCK,I.BAHR,M.SCHIRNER,K.LICHA REVDAT 4 13-DEC-23 2JB5 1 REMARK REVDAT 3 24-FEB-09 2JB5 1 VERSN REVDAT 2 11-MAR-08 2JB5 1 JRNL REVDAT 1 08-JAN-08 2JB5 0 JRNL AUTH R.C.HILLIG,S.URLINGER,J.FANGHANEL,B.BROCKS,C.HAENEL,Y.STARK, JRNL AUTH 2 D.SULZLE,D.I.SVERGUN,S.BAESLER,G.MALAWSKI,D.MOOSMAYER, JRNL AUTH 3 A.MENRAD,M.SCHIRNER,K.LICHA JRNL TITL FAB MOR03268 TRIGGERS ABSORPTION SHIFT OF A DIAGNOSTIC DYE JRNL TITL 2 VIA PACKAGING IN A SOLVENT-SHIELDED FAB DIMER INTERFACE JRNL REF J.MOL.BIOL. V. 377 206 2008 JRNL REFN ISSN 0022-2836 JRNL PMID 18241888 JRNL DOI 10.1016/J.JMB.2007.12.071 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH R.C.HILLIG,S.BAESLER,S.URLINGER,Y.STARK,S.BAUER,V.BADOCK, REMARK 1 AUTH 2 M.HUBER,I.BAHR,M.SCHIRNER,K.LICHA REMARK 1 TITL CRYSTALLIZATION AND MOLECULAR-REPLACEMENT SOLUTION OF A REMARK 1 TITL 2 DIAGNOSTIC FLUORESCENT DYE IN COMPLEX WITH A SPECIFIC FAB REMARK 1 TITL 3 FRAGMENT. REMARK 1 REF ACTA CRYSTALLOGR.,SECT.F V. 63 217 2007 REMARK 1 REFN ESSN 1744-3091 REMARK 1 PMID 17329818 REMARK 1 DOI 10.1107/S1744309107005957 REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNX 2005 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN,ACCELRYS REMARK 3 : SOFTWARE INC.(BADGER,BERARD,KUMAR,SZALMA, REMARK 3 : YIP,DZAKULA) REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.70 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 13432 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) : 0.211 REMARK 3 R VALUE (WORKING SET) : 0.211 REMARK 3 FREE R VALUE : 0.272 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.700 REMARK 3 FREE R VALUE TEST SET COUNT : 656 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.011 REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL WITH ALL DATA. REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : NULL REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : NULL REMARK 3 FREE R VALUE (NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : NULL REMARK 3 ESTIMATED ERROR OF FREE R VALUE (NO CUTOFF) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 10 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.90 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 79.00 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.3520 REMARK 3 BIN FREE R VALUE : 0.3960 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.70 REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.056 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3191 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 30 REMARK 3 SOLVENT ATOMS : 47 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 61.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 51.00 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.01200 REMARK 3 B22 (A**2) : -0.07700 REMARK 3 B33 (A**2) : 0.08900 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.33 REMARK 3 ESD FROM SIGMAA (A) : 0.43 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.44 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.52 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.007 REMARK 3 BOND ANGLES (DEGREES) : 1.400 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 26.90 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.910 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 2.090 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 3.530 ; 3.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 5.530 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 7.350 ; 6.000 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.35 REMARK 3 BSOL : 41.99 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : NULL REMARK 3 TOPOLOGY FILE 1 : LIG_FULL_LINKER.TOP REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE LIGAND TSC IS PARTIALLY DISORDERED. REMARK 3 THEREFORE ONLY A FRAGMENT WAS MODELLED. H222-244 REPRESENTS A C- REMARK 3 TERMINAL MYC- AND HIS-6 TAG REMARK 4 REMARK 4 2JB5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 03-DEC-06. REMARK 100 THE DEPOSITION ID IS D_1290030706. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-JUN-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : BESSY REMARK 200 BEAMLINE : 14.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9184 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 13432 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 REMARK 200 RESOLUTION RANGE LOW (A) : 41.700 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 200 DATA REDUNDANCY : 5.500 REMARK 200 R MERGE (I) : 0.10000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.85 REMARK 200 COMPLETENESS FOR SHELL (%) : 79.8 REMARK 200 DATA REDUNDANCY IN SHELL : 3.40 REMARK 200 R MERGE FOR SHELL (I) : 0.55000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.200 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: PDB ENTRY 1VGE REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.80 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.3M AMMONIUM SULPHATE, 5% PEG400, REMARK 280 0.1M SODIUM CITRATE PH 4.0, FOR CRYO BUFFER ADITIONAL 15% REMARK 280 GLYCEROL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 2 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,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-Z+1/2 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 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 35.97450 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 49.24000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 76.89100 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 35.97450 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 49.24000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 76.89100 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 35.97450 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 49.24000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 76.89100 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 35.97450 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 49.24000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 76.89100 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 TOTAL BURIED SURFACE AREA: 4040 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23370 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -30.7 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: H, L 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 GLN H 1 REMARK 465 VAL H 2 REMARK 465 THR H 138 REMARK 465 SER H 139 REMARK 465 GLY H 140 REMARK 465 GLU H 223 REMARK 465 PHE H 224 REMARK 465 GLU H 225 REMARK 465 GLN H 226 REMARK 465 LYS H 227 REMARK 465 LEU H 228 REMARK 465 ILE H 229 REMARK 465 SER H 230 REMARK 465 GLU H 231 REMARK 465 GLU H 232 REMARK 465 ASP H 233 REMARK 465 LEU H 234 REMARK 465 ASN H 235 REMARK 465 GLY H 236 REMARK 465 ALA H 237 REMARK 465 PRO H 238 REMARK 465 HIS H 239 REMARK 465 HIS H 240 REMARK 465 HIS H 241 REMARK 465 HIS H 242 REMARK 465 HIS H 243 REMARK 465 HIS H 244 REMARK 465 ASP L 1 REMARK 465 ILE L 2 REMARK 465 GLU L 215 REMARK 465 ALA L 216 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 SER H 222 CA C O CB OG REMARK 470 THR L 214 CA C O CB OG1 CG2 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 NE ARG H 38 O HOH H 2007 2.11 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 PRO H 14 C - N - CA ANGL. DEV. = 10.2 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 PRO H 14 11.56 -45.06 REMARK 500 SER H 16 -164.08 -74.20 REMARK 500 PRO H 41 115.04 -37.78 REMARK 500 TYR H 54 -86.63 -51.01 REMARK 500 LEU H 86 115.68 -37.89 REMARK 500 SER H 102 -64.51 -99.55 REMARK 500 LYS H 104 10.36 57.93 REMARK 500 SER H 120 30.13 -99.31 REMARK 500 PRO H 133 -159.43 -85.24 REMARK 500 SER H 134 150.40 76.91 REMARK 500 SER H 135 -85.09 74.95 REMARK 500 ASP H 151 71.34 39.89 REMARK 500 PHE H 153 138.04 -177.29 REMARK 500 PRO H 154 -159.86 -91.94 REMARK 500 SER H 163 -0.09 50.15 REMARK 500 LEU H 166 89.33 -63.77 REMARK 500 LEU H 196 -82.43 -39.58 REMARK 500 GLU H 219 169.57 179.03 REMARK 500 PRO H 220 -167.32 -106.14 REMARK 500 PRO L 14 153.62 -45.13 REMARK 500 THR L 25 -163.74 -114.54 REMARK 500 ASP L 28 -92.42 -137.71 REMARK 500 ASN L 32 -172.04 175.79 REMARK 500 ASN L 62 10.83 -65.64 REMARK 500 LEU L 80 122.02 -33.43 REMARK 500 ALA L 86 176.64 175.31 REMARK 500 ASP L 143 77.99 17.09 REMARK 500 ALA L 148 62.37 -101.28 REMARK 500 ASP L 156 -32.25 66.83 REMARK 500 SER L 157 -0.41 161.92 REMARK 500 PRO L 159 94.49 -44.77 REMARK 500 VAL L 160 41.26 -79.85 REMARK 500 ALA L 162 121.45 73.41 REMARK 500 GLU L 165 108.88 -175.49 REMARK 500 LYS L 171 95.64 -50.48 REMARK 500 GLN L 172 -177.19 -62.63 REMARK 500 ASN L 174 44.93 -68.78 REMARK 500 ASN L 175 -16.13 49.98 REMARK 500 SER L 181 118.98 -172.85 REMARK 500 PRO L 187 3.46 -58.86 REMARK 500 HIS L 193 145.53 175.87 REMARK 500 ARG L 194 -81.54 -62.63 REMARK 500 HIS L 202 101.90 -162.12 REMARK 500 GLU L 203 -124.37 69.64 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 T5C H 1223 REMARK 700 REMARK 700 SHEET REMARK 700 THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN REMARK 700 ORDER TO REPRESENT THIS FEATURE IN THE SHEET RECORDS BELOW, REMARK 700 TWO SHEETS ARE DEFINED. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE T5C H1223 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2C0V RELATED DB: PDB REMARK 900 IGG RHEUMATOID FACTOR IN HOMO SAPIENS REMARK 900 RELATED ID: 2JB6 RELATED DB: PDB REMARK 900 FAB FRAGMENT IN COMPLEX WITH SMALL MOLECULE HAPTEN, CRYSTAL FORM-2 REMARK 999 REMARK 999 SEQUENCE REMARK 999 HEAVY CHAIN HAS A C-TERMINAL MYC-HIS6 TAG REMARK 999 FAB FRAGMENT SELECTED IN VITRO FROM A LIBRARY, AND REMARK 999 OPTIMIZED FURTHER BY MATURATION STEPS. DBREF 2JB5 H 1 244 PDB 2JB5 2JB5 1 244 DBREF 2JB5 L 1 216 PDB 2JB5 2JB5 1 216 SEQRES 1 H 244 GLN VAL GLN LEU VAL GLN SER GLY ALA GLU VAL LYS LYS SEQRES 2 H 244 PRO GLY SER SER VAL LYS VAL SER CYS LYS ALA SER GLY SEQRES 3 H 244 GLY THR PHE SER ASN TYR ALA ILE ASN TRP VAL ARG GLN SEQRES 4 H 244 ALA PRO GLY GLN GLY LEU GLU TRP MET GLY ASN ILE GLU SEQRES 5 H 244 PRO TYR PHE GLY THR ALA ASN TYR ALA GLN LYS PHE GLN SEQRES 6 H 244 GLY ARG VAL THR ILE THR ALA ASP GLU SER THR SER THR SEQRES 7 H 244 ALA TYR MET GLU LEU SER SER LEU ARG SER GLU ASP THR SEQRES 8 H 244 ALA VAL TYR TYR CYS ALA ARG TYR PHE MET SER TYR LYS SEQRES 9 H 244 HIS LEU SER ASP TYR TRP GLY GLN GLY THR LEU VAL THR SEQRES 10 H 244 VAL SER SER ALA SER THR LYS GLY PRO SER VAL PHE PRO SEQRES 11 H 244 LEU ALA PRO SER SER LYS SER THR SER GLY GLY THR ALA SEQRES 12 H 244 ALA LEU GLY CYS LEU VAL LYS ASP TYR PHE PRO GLU PRO SEQRES 13 H 244 VAL THR VAL SER TRP ASN SER GLY ALA LEU THR SER GLY SEQRES 14 H 244 VAL HIS THR PHE PRO ALA VAL LEU GLN SER SER GLY LEU SEQRES 15 H 244 TYR SER LEU SER SER VAL VAL THR VAL PRO SER SER SER SEQRES 16 H 244 LEU GLY THR GLN THR TYR ILE CYS ASN VAL ASN HIS LYS SEQRES 17 H 244 PRO SER ASN THR LYS VAL ASP LYS LYS VAL GLU PRO LYS SEQRES 18 H 244 SER GLU PHE GLU GLN LYS LEU ILE SER GLU GLU ASP LEU SEQRES 19 H 244 ASN GLY ALA PRO HIS HIS HIS HIS HIS HIS SEQRES 1 L 216 ASP ILE ALA LEU THR GLN PRO ALA SER VAL SER GLY SER SEQRES 2 L 216 PRO GLY GLN SER ILE THR ILE SER CYS THR GLY THR SER SEQRES 3 L 216 SER ASP VAL GLY SER ASN ASN TYR VAL SER TRP TYR GLN SEQRES 4 L 216 GLN HIS PRO GLY LYS ALA PRO LYS LEU MET ILE TYR GLY SEQRES 5 L 216 GLY SER ASN ARG PRO SER GLY VAL SER ASN ARG PHE SER SEQRES 6 L 216 GLY SER LYS SER GLY ASN THR ALA SER LEU THR ILE SER SEQRES 7 L 216 GLY LEU GLN ALA GLU ASP GLU ALA ASP TYR TYR CYS ARG SEQRES 8 L 216 SER TRP ASP SER ASN LEU SER TYR SER VAL PHE GLY GLY SEQRES 9 L 216 GLY THR LYS LEU THR VAL LEU GLY GLN PRO LYS ALA ALA SEQRES 10 L 216 PRO SER VAL THR LEU PHE PRO PRO SER SER GLU GLU LEU SEQRES 11 L 216 GLN ALA ASN LYS ALA THR LEU VAL CYS LEU ILE SER ASP SEQRES 12 L 216 PHE TYR PRO GLY ALA VAL THR VAL ALA TRP LYS ALA ASP SEQRES 13 L 216 SER SER PRO VAL LYS ALA GLY VAL GLU THR THR THR PRO SEQRES 14 L 216 SER LYS GLN SER ASN ASN LYS TYR ALA ALA SER SER TYR SEQRES 15 L 216 LEU SER LEU THR PRO GLU GLN TRP LYS SER HIS ARG SER SEQRES 16 L 216 TYR SER CYS GLN VAL THR HIS GLU GLY SER THR VAL GLU SEQRES 17 L 216 LYS THR VAL ALA PRO THR GLU ALA HET T5C H1223 30 HETNAM T5C 2-{(1E,3Z,5E,7E)-7-[3,3-DIMETHYL-5-SULFO-1-(2- HETNAM 2 T5C SULFOETHYL)-1,3-DIHYDRO-2H-INDOL-2-YLIDENE]-4- HETNAM 3 T5C METHYLHEPTA-1,3,5-TRIEN-1-YL}-3,3-DIMETHYL-5-SULFO-1- HETNAM 4 T5C (2-SULFOETHYL)-3H-INDOLIUM HETSYN T5C TETRASULFOCYANINE FORMUL 3 T5C C32 H39 N2 O12 S4 1+ FORMUL 4 HOH *47(H2 O) HELIX 1 1 GLN H 62 GLN H 65 5 4 HELIX 2 2 GLU H 74 THR H 76 5 3 HELIX 3 3 ARG H 87 THR H 91 5 5 HELIX 4 4 SER H 163 ALA H 165 5 3 HELIX 5 5 SER H 195 GLN H 199 5 5 HELIX 6 6 LYS H 208 ASN H 211 5 4 HELIX 7 7 ASP L 28 ASN L 32 5 5 HELIX 8 8 GLN L 81 GLU L 85 5 5 HELIX 9 9 SER L 126 ALA L 132 1 7 SHEET 1 HA 4 LEU H 4 GLN H 6 0 SHEET 2 HA 4 VAL H 18 ALA H 24 -1 O LYS H 23 N VAL H 5 SHEET 3 HA 4 THR H 78 LEU H 83 -1 O ALA H 79 N CYS H 22 SHEET 4 HA 4 VAL H 68 ASP H 73 -1 O THR H 69 N GLU H 82 SHEET 1 HB 6 GLU H 10 LYS H 12 0 SHEET 2 HB 6 THR H 114 VAL H 118 1 O LEU H 115 N GLU H 10 SHEET 3 HB 6 ALA H 92 MET H 101 -1 O ALA H 92 N VAL H 116 SHEET 4 HB 6 ILE H 34 GLN H 39 -1 O ASN H 35 N ALA H 97 SHEET 5 HB 6 GLU H 46 ILE H 51 -1 O GLU H 46 N ARG H 38 SHEET 6 HB 6 ALA H 58 TYR H 60 -1 O ASN H 59 N ASN H 50 SHEET 1 HC 4 GLU H 10 LYS H 12 0 SHEET 2 HC 4 THR H 114 VAL H 118 1 O LEU H 115 N GLU H 10 SHEET 3 HC 4 ALA H 92 MET H 101 -1 O ALA H 92 N VAL H 116 SHEET 4 HC 4 LEU H 106 TRP H 110 -1 O SER H 107 N PHE H 100 SHEET 1 HD 4 SER H 127 LEU H 131 0 SHEET 2 HD 4 THR H 142 TYR H 152 -1 O GLY H 146 N LEU H 131 SHEET 3 HD 4 TYR H 183 PRO H 192 -1 O TYR H 183 N TYR H 152 SHEET 4 HD 4 VAL H 170 THR H 172 -1 O HIS H 171 N VAL H 188 SHEET 1 HE 4 SER H 127 LEU H 131 0 SHEET 2 HE 4 THR H 142 TYR H 152 -1 O GLY H 146 N LEU H 131 SHEET 3 HE 4 TYR H 183 PRO H 192 -1 O TYR H 183 N TYR H 152 SHEET 4 HE 4 VAL H 176 LEU H 177 -1 O VAL H 176 N SER H 184 SHEET 1 HF 3 THR H 158 TRP H 161 0 SHEET 2 HF 3 TYR H 201 HIS H 207 -1 O ASN H 204 N SER H 160 SHEET 3 HF 3 THR H 212 VAL H 218 -1 O THR H 212 N HIS H 207 SHEET 1 LA 5 SER L 9 GLY L 12 0 SHEET 2 LA 5 THR L 106 VAL L 110 1 O LYS L 107 N VAL L 10 SHEET 3 LA 5 ASP L 87 TRP L 93 -1 O TYR L 88 N THR L 106 SHEET 4 LA 5 VAL L 35 GLN L 40 -1 O SER L 36 N ARG L 91 SHEET 5 LA 5 LYS L 47 ILE L 50 -1 O LYS L 47 N GLN L 39 SHEET 1 LB 4 SER L 9 GLY L 12 0 SHEET 2 LB 4 THR L 106 VAL L 110 1 O LYS L 107 N VAL L 10 SHEET 3 LB 4 ASP L 87 TRP L 93 -1 O TYR L 88 N THR L 106 SHEET 4 LB 4 SER L 100 PHE L 102 -1 O VAL L 101 N SER L 92 SHEET 1 LC 3 ILE L 18 THR L 23 0 SHEET 2 LC 3 THR L 72 ILE L 77 -1 O ALA L 73 N CYS L 22 SHEET 3 LC 3 PHE L 64 SER L 69 -1 O SER L 65 N THR L 76 SHEET 1 LD 3 LEU L 122 PHE L 123 0 SHEET 2 LD 3 ALA L 135 CYS L 139 -1 O VAL L 138 N PHE L 123 SHEET 3 LD 3 TYR L 182 LEU L 185 -1 O LEU L 183 N LEU L 137 SHEET 1 LE 2 ILE L 141 PHE L 144 0 SHEET 2 LE 2 TYR L 177 ALA L 179 -1 O TYR L 177 N PHE L 144 SHEET 1 LF 4 SER L 158 PRO L 159 0 SHEET 2 LF 4 THR L 150 ALA L 155 -1 O ALA L 155 N SER L 158 SHEET 3 LF 4 TYR L 196 HIS L 202 -1 O SER L 197 N LYS L 154 SHEET 4 LF 4 SER L 205 VAL L 211 -1 O SER L 205 N HIS L 202 SSBOND 1 CYS H 22 CYS H 96 1555 1555 2.03 SSBOND 2 CYS H 147 CYS H 203 1555 1555 2.03 SSBOND 3 CYS L 22 CYS L 90 1555 1555 2.04 SSBOND 4 CYS L 139 CYS L 198 1555 1555 2.03 CISPEP 1 PHE H 153 PRO H 154 0 -0.29 CISPEP 2 GLU H 155 PRO H 156 0 -0.06 CISPEP 3 TYR L 145 PRO L 146 0 0.00 SITE 1 AC1 19 TYR H 32 ALA H 33 ASN H 35 ASN H 50 SITE 2 AC1 19 TYR H 99 MET H 101 LYS H 104 LEU H 106 SITE 3 AC1 19 HOH H2016 HOH H2017 HOH H2027 ASN L 33 SITE 4 AC1 19 TYR L 34 VAL L 35 TYR L 51 GLY L 52 SITE 5 AC1 19 TRP L 93 LEU L 97 HOH L2003 CRYST1 71.949 98.480 153.782 90.00 90.00 90.00 I 2 2 2 8 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 0.013899 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010154 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006503 0.00000