HEADER DE NOVO PROTEIN 11-AUG-11 3TDN TITLE COMPUTATIONALLY DESIGNED TWO-FOLD SYMMETRIC TIM-BARREL PROTEIN, FLR COMPND MOL_ID: 1; COMPND 2 MOLECULE: FLR SYMMETRIC ALPHA-BETA TIM BARREL; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 3 ORGANISM_COMMON: ARTIFICIAL GENE; SOURCE 4 ORGANISM_TAXID: 32630; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS SYMMETRIC SUPERFOLD, TIM-BARREL, DE NOVO PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR J.M.HARP,C.FORTENBERRY,E.BOWMAN,W.PROFITT,B.DORR,L.MIZOUE,J.MEILER REVDAT 3 03-APR-24 3TDN 1 LINK REVDAT 2 23-NOV-11 3TDN 1 JRNL REVDAT 1 16-NOV-11 3TDN 0 JRNL AUTH C.FORTENBERRY,E.A.BOWMAN,W.PROFFITT,B.DORR,S.COMBS,J.HARP, JRNL AUTH 2 L.MIZOUE,J.MEILER JRNL TITL EXPLORING SYMMETRY AS AN AVENUE TO THE COMPUTATIONAL DESIGN JRNL TITL 2 OF LARGE PROTEIN DOMAINS. JRNL REF J.AM.CHEM.SOC. V. 133 18026 2011 JRNL REFN ISSN 0002-7863 JRNL PMID 21978247 JRNL DOI 10.1021/JA2051217 REMARK 2 REMARK 2 RESOLUTION. 1.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0102 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) : 1.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.50 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.9 REMARK 3 NUMBER OF REFLECTIONS : 60459 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) : 0.159 REMARK 3 R VALUE (WORKING SET) : 0.157 REMARK 3 FREE R VALUE : 0.193 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3264 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) : 1.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.44 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4273 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.05 REMARK 3 BIN R VALUE (WORKING SET) : 0.1750 REMARK 3 BIN FREE R VALUE SET COUNT : 236 REMARK 3 BIN FREE R VALUE : 0.2500 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2719 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 259 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 21.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.27 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -4.31000 REMARK 3 B22 (A**2) : -4.31000 REMARK 3 B33 (A**2) : 8.61000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.013 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.028 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.793 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.968 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.958 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2776 ; 0.023 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1893 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3750 ; 1.814 ; 1.963 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4614 ; 1.096 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 358 ; 5.463 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 113 ;34.021 ;23.451 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 494 ;12.629 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 22 ;18.903 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 443 ; 0.146 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3077 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 570 ; 0.001 ; 0.020 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): 1762 ; 2.916 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 740 ; 0.981 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2840 ; 4.311 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1014 ; 5.273 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 908 ; 7.332 ; 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): 4669 ; 2.353 ; 3.000 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 : BABINET MODEL PARAMETERS FOR MASK CACLULATION REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : NULL REMARK 3 ION PROBE RADIUS : NULL REMARK 3 SHRINKAGE RADIUS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3TDN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-AUG-11. REMARK 100 THE DEPOSITION ID IS D_1000067353. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-NOV-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 12.3.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0720 REMARK 200 MONOCHROMATOR : KOHZU DUAL DOUBLE CRYSTAL REMARK 200 MONOCHROMATOR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 63971 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.400 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 200 DATA REDUNDANCY : 9.700 REMARK 200 R MERGE (I) : 0.07200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 19.3500 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.45 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.9 REMARK 200 DATA REDUNDANCY IN SHELL : 9.60 REMARK 200 R MERGE FOR SHELL (I) : 0.68300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.010 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: COMPUTATIONAL MODEL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.70 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.07 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG 1000, 0.1M SODIUM CITRATE, 0.1 REMARK 280 M AMMONIUM CHLORIDE, PH 4.2, MICROBATCH, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 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 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 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 83.10533 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 41.55267 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 41.55267 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 83.10533 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 116.43192 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 41.55267 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 GLY A -4 REMARK 465 SER A -3 REMARK 465 GLU A -2 REMARK 465 SER A -1 REMARK 465 SER A 0 REMARK 465 SER A 122 REMARK 465 GLN A 123 REMARK 465 ALA A 124 REMARK 465 VAL A 125 REMARK 465 VAL A 126 REMARK 465 VAL A 127 REMARK 465 ALA A 128 REMARK 465 ILE A 129 REMARK 465 ASP A 130 REMARK 465 ALA A 131 REMARK 465 LYS A 132 REMARK 465 ARG A 133 REMARK 465 VAL A 134 REMARK 465 ASP A 135 REMARK 465 GLY A 136 REMARK 465 GLU A 137 REMARK 465 PHE A 138 REMARK 465 MET A 139 REMARK 465 VAL A 140 REMARK 465 PHE A 141 REMARK 465 THR A 142 REMARK 465 TYR A 143 REMARK 465 SER A 144 REMARK 465 GLY A 145 REMARK 465 LYS A 146 REMARK 465 LYS A 147 REMARK 465 ASN A 148 REMARK 465 THR A 149 REMARK 465 GLY A 150 REMARK 465 ILE A 151 REMARK 465 LEU A 152 REMARK 465 LEU A 153 REMARK 465 ARG A 154 REMARK 465 ASP A 155 REMARK 465 TRP A 156 REMARK 465 VAL A 157 REMARK 465 VAL A 158 REMARK 465 GLU A 159 REMARK 465 VAL A 160 REMARK 465 GLU A 161 REMARK 465 LYS A 162 REMARK 465 ARG A 163 REMARK 465 GLY A 164 REMARK 465 ALA A 165 REMARK 465 GLY A 166 REMARK 465 GLU A 167 REMARK 465 ILE A 168 REMARK 465 LEU A 169 REMARK 465 LEU A 170 REMARK 465 THR A 171 REMARK 465 SER A 172 REMARK 465 ILE A 173 REMARK 465 ASP A 174 REMARK 465 ARG A 175 REMARK 465 ASP A 176 REMARK 465 GLY A 177 REMARK 465 THR A 178 REMARK 465 LYS A 179 REMARK 465 SER A 180 REMARK 465 GLY A 181 REMARK 465 TYR A 182 REMARK 465 ASP A 183 REMARK 465 THR A 184 REMARK 465 GLU A 185 REMARK 465 MET A 186 REMARK 465 ILE A 187 REMARK 465 ARG A 188 REMARK 465 PHE A 189 REMARK 465 VAL A 190 REMARK 465 ARG A 191 REMARK 465 PRO A 192 REMARK 465 LEU A 193 REMARK 465 THR A 194 REMARK 465 THR A 195 REMARK 465 LEU A 196 REMARK 465 PRO A 197 REMARK 465 ILE A 198 REMARK 465 ILE A 199 REMARK 465 ALA A 200 REMARK 465 SER A 201 REMARK 465 GLY A 202 REMARK 465 GLY A 203 REMARK 465 ALA A 204 REMARK 465 GLY A 205 REMARK 465 LYS A 206 REMARK 465 MET A 207 REMARK 465 GLU A 208 REMARK 465 HIS A 209 REMARK 465 PHE A 210 REMARK 465 LEU A 211 REMARK 465 GLU A 212 REMARK 465 ALA A 213 REMARK 465 PHE A 214 REMARK 465 LEU A 215 REMARK 465 ARG A 216 REMARK 465 GLY A 217 REMARK 465 ALA A 218 REMARK 465 ASP A 219 REMARK 465 LYS A 220 REMARK 465 VAL A 221 REMARK 465 SER A 222 REMARK 465 ILE A 223 REMARK 465 ASN A 224 REMARK 465 THR A 225 REMARK 465 ALA A 226 REMARK 465 ALA A 227 REMARK 465 VAL A 228 REMARK 465 GLU A 229 REMARK 465 ASN A 230 REMARK 465 PRO A 231 REMARK 465 SER A 232 REMARK 465 LEU A 233 REMARK 465 ILE A 234 REMARK 465 THR A 235 REMARK 465 GLN A 236 REMARK 465 ILE A 237 REMARK 465 ALA A 238 REMARK 465 GLN A 239 REMARK 465 THR A 240 REMARK 465 PHE A 241 REMARK 465 GLY A 242 REMARK 465 GLY B -4 REMARK 465 SER B -3 REMARK 465 GLU B -2 REMARK 465 SER B -1 REMARK 465 SER B 0 REMARK 465 ASP B 174 REMARK 465 ARG B 175 REMARK 465 ASP B 176 REMARK 465 GLY B 177 REMARK 465 THR B 178 REMARK 465 LYS B 179 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 N SER B 1 C GLY B 242 1.74 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 VAL A 36 CB VAL A 36 CG2 -0.177 REMARK 500 GLU A 46 CG GLU A 46 CD 0.130 REMARK 500 SER A 111 CB SER A 111 OG -0.101 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 ARG B 33 NE - CZ - NH2 ANGL. DEV. = -4.4 DEGREES REMARK 500 ARG B 33 NE - CZ - NH2 ANGL. DEV. = 4.4 DEGREES REMARK 500 ASP B 53 CB - CG - OD1 ANGL. DEV. = -8.3 DEGREES REMARK 500 ASP B 53 CB - CG - OD2 ANGL. DEV. = 5.4 DEGREES REMARK 500 ARG B 70 NE - CZ - NH1 ANGL. DEV. = -3.4 DEGREES REMARK 500 ARG B 216 NE - CZ - NH2 ANGL. DEV. = -3.0 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 ASN A 103 -87.03 -144.27 REMARK 500 ASN B 103 -87.16 -140.75 REMARK 500 ASN B 109 78.39 -155.49 REMARK 500 ASN B 224 -88.52 -138.72 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3TDM RELATED DB: PDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE SEQUENCE IS COMPUTATIONALLY DESIGNED BASED ON A TIM-BARREL. THE REMARK 999 FULL CRYSTALLIZED SEQUENCE HAS BEEN PROVIDED IN SEQRES REMARK. REMARK 999 HOWEVER, CHAIN A IS ON A CRYSTALLOGRAPHIC AXIS AND THE FULL REMARK 999 MOLECULE IS GENERATE BY SYMMETRY AS DESCRIBED IN REMARK 350 AND REMARK 999 THEREFORE RESIDUES 122-242 ARE ABSENT FROM THE FINAL MODEL. DBREF 3TDN A -4 242 PDB 3TDN 3TDN -4 242 DBREF 3TDN B -4 242 PDB 3TDN 3TDN -4 242 SEQRES 1 A 247 GLY SER GLU SER SER SER GLN ALA VAL VAL VAL ALA ILE SEQRES 2 A 247 ASP ALA LYS ARG VAL ASP GLY GLU PHE MET VAL PHE THR SEQRES 3 A 247 TYR SER GLY LYS LYS ASN THR GLY ILE LEU LEU ARG ASP SEQRES 4 A 247 TRP VAL VAL GLU VAL GLU LYS ARG GLY ALA GLY GLU ILE SEQRES 5 A 247 LEU LEU THR SER ILE ASP ARG ASP GLY THR LYS SER GLY SEQRES 6 A 247 TYR ASP THR GLU MET ILE ARG PHE VAL ARG PRO LEU THR SEQRES 7 A 247 THR LEU PRO ILE ILE ALA SER GLY GLY ALA GLY LYS MET SEQRES 8 A 247 GLU HIS PHE LEU GLU ALA PHE LEU ARG GLY ALA ASP LYS SEQRES 9 A 247 VAL SER ILE ASN THR ALA ALA VAL GLU ASN PRO SER LEU SEQRES 10 A 247 ILE THR GLN ILE ALA GLN THR PHE GLY SER GLN ALA VAL SEQRES 11 A 247 VAL VAL ALA ILE ASP ALA LYS ARG VAL ASP GLY GLU PHE SEQRES 12 A 247 MET VAL PHE THR TYR SER GLY LYS LYS ASN THR GLY ILE SEQRES 13 A 247 LEU LEU ARG ASP TRP VAL VAL GLU VAL GLU LYS ARG GLY SEQRES 14 A 247 ALA GLY GLU ILE LEU LEU THR SER ILE ASP ARG ASP GLY SEQRES 15 A 247 THR LYS SER GLY TYR ASP THR GLU MET ILE ARG PHE VAL SEQRES 16 A 247 ARG PRO LEU THR THR LEU PRO ILE ILE ALA SER GLY GLY SEQRES 17 A 247 ALA GLY LYS MET GLU HIS PHE LEU GLU ALA PHE LEU ARG SEQRES 18 A 247 GLY ALA ASP LYS VAL SER ILE ASN THR ALA ALA VAL GLU SEQRES 19 A 247 ASN PRO SER LEU ILE THR GLN ILE ALA GLN THR PHE GLY SEQRES 1 B 247 GLY SER GLU SER SER SER GLN ALA VAL VAL VAL ALA ILE SEQRES 2 B 247 ASP ALA LYS ARG VAL ASP GLY GLU PHE MET VAL PHE THR SEQRES 3 B 247 TYR SER GLY LYS LYS ASN THR GLY ILE LEU LEU ARG ASP SEQRES 4 B 247 TRP VAL VAL GLU VAL GLU LYS ARG GLY ALA GLY GLU ILE SEQRES 5 B 247 LEU LEU THR SER ILE ASP ARG ASP GLY THR LYS SER GLY SEQRES 6 B 247 TYR ASP THR GLU MET ILE ARG PHE VAL ARG PRO LEU THR SEQRES 7 B 247 THR LEU PRO ILE ILE ALA SER GLY GLY ALA GLY LYS MET SEQRES 8 B 247 GLU HIS PHE LEU GLU ALA PHE LEU ARG GLY ALA ASP LYS SEQRES 9 B 247 VAL SER ILE ASN THR ALA ALA VAL GLU ASN PRO SER LEU SEQRES 10 B 247 ILE THR GLN ILE ALA GLN THR PHE GLY SER GLN ALA VAL SEQRES 11 B 247 VAL VAL ALA ILE ASP ALA LYS ARG VAL ASP GLY GLU PHE SEQRES 12 B 247 MET VAL PHE THR TYR SER GLY LYS LYS ASN THR GLY ILE SEQRES 13 B 247 LEU LEU ARG ASP TRP VAL VAL GLU VAL GLU LYS ARG GLY SEQRES 14 B 247 ALA GLY GLU ILE LEU LEU THR SER ILE ASP ARG ASP GLY SEQRES 15 B 247 THR LYS SER GLY TYR ASP THR GLU MET ILE ARG PHE VAL SEQRES 16 B 247 ARG PRO LEU THR THR LEU PRO ILE ILE ALA SER GLY GLY SEQRES 17 B 247 ALA GLY LYS MET GLU HIS PHE LEU GLU ALA PHE LEU ARG SEQRES 18 B 247 GLY ALA ASP LYS VAL SER ILE ASN THR ALA ALA VAL GLU SEQRES 19 B 247 ASN PRO SER LEU ILE THR GLN ILE ALA GLN THR PHE GLY FORMUL 3 HOH *259(H2 O) HELIX 1 1 LEU A 32 ARG A 42 1 11 HELIX 2 2 ASP A 62 ARG A 70 1 9 HELIX 3 3 PRO A 71 THR A 73 5 3 HELIX 4 4 LYS A 85 ARG A 95 1 11 HELIX 5 5 ASN A 103 ASN A 109 1 7 HELIX 6 6 PRO A 110 GLY A 121 1 12 HELIX 7 7 LEU B 32 GLY B 43 1 12 HELIX 8 8 ASP B 62 ARG B 70 1 9 HELIX 9 9 PRO B 71 THR B 73 5 3 HELIX 10 10 LYS B 85 ARG B 95 1 11 HELIX 11 11 ASN B 103 ASN B 109 1 7 HELIX 12 12 PRO B 110 GLY B 121 1 12 HELIX 13 13 LEU B 153 GLY B 164 1 12 HELIX 14 14 ASP B 183 ARG B 191 1 9 HELIX 15 15 PRO B 192 THR B 194 5 3 HELIX 16 16 LYS B 206 ARG B 216 1 11 HELIX 17 17 ASN B 224 ASN B 230 1 7 HELIX 18 18 PRO B 231 GLY B 242 1 12 SHEET 1 A 6 LYS A 26 LEU A 31 0 SHEET 2 A 6 GLU A 16 THR A 21 -1 N VAL A 19 O ILE A 30 SHEET 3 A 6 VAL A 5 VAL A 13 -1 N LYS A 11 O MET A 18 SHEET 4 A 6 GLU A 46 SER A 51 1 O LEU A 48 N ILE A 8 SHEET 5 A 6 ILE A 77 SER A 80 1 O ILE A 78 N ILE A 47 SHEET 6 A 6 LYS A 99 VAL A 100 1 O LYS A 99 N ALA A 79 SHEET 1 B 9 LYS B 26 LEU B 31 0 SHEET 2 B 9 GLU B 16 THR B 21 -1 N VAL B 19 O ILE B 30 SHEET 3 B 9 VAL B 4 VAL B 13 -1 N LYS B 11 O MET B 18 SHEET 4 B 9 GLU B 46 SER B 51 1 O LEU B 48 N ILE B 8 SHEET 5 B 9 ILE B 77 SER B 80 1 O ILE B 78 N ILE B 47 SHEET 6 B 9 LYS B 99 ILE B 102 1 O SER B 101 N ALA B 79 SHEET 7 B 9 VAL B 125 VAL B 134 1 O VAL B 126 N VAL B 100 SHEET 8 B 9 GLU B 137 THR B 142 -1 O GLU B 137 N VAL B 134 SHEET 9 B 9 LYS B 147 LEU B 152 -1 O ILE B 151 N VAL B 140 SHEET 1 C 9 LYS B 26 LEU B 31 0 SHEET 2 C 9 GLU B 16 THR B 21 -1 N VAL B 19 O ILE B 30 SHEET 3 C 9 VAL B 4 VAL B 13 -1 N LYS B 11 O MET B 18 SHEET 4 C 9 LYS B 220 ILE B 223 1 O VAL B 221 N VAL B 5 SHEET 5 C 9 ILE B 198 SER B 201 1 N ALA B 200 O SER B 222 SHEET 6 C 9 GLU B 167 SER B 172 1 N ILE B 168 O ILE B 199 SHEET 7 C 9 VAL B 125 VAL B 134 1 N ILE B 129 O LEU B 169 SHEET 8 C 9 GLU B 137 THR B 142 -1 O GLU B 137 N VAL B 134 SHEET 9 C 9 LYS B 147 LEU B 152 -1 O ILE B 151 N VAL B 140 LINK N SER A 1 C GLY A 121 1555 5675 1.83 CRYST1 67.222 67.222 124.658 90.00 90.00 120.00 P 32 2 1 12 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 0.014876 0.008589 0.000000 0.00000 SCALE2 0.000000 0.017177 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008022 0.00000