HEADER LYASE 28-MAR-03 1UB3 TITLE CRYSTAL STRUCTURE OF TETRAMERIC STRUCTURE OF ALDOLASE FROM TITLE 2 THERMUS THERMOPHILUS HB8 COMPND MOL_ID: 1; COMPND 2 MOLECULE: ALDOLASE PROTEIN; COMPND 3 CHAIN: A, B, C, D; COMPND 4 EC: 4.1.2.4; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMUS THERMOPHILUS; SOURCE 3 ORGANISM_TAXID: 274; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3); SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET-11A KEYWDS SCHIFF BASE, DEOXYRIBOSE PHOSPHATE, CARBINOLAMINE, KEYWDS 2 STRUCTURAL GENOMICS, RIKEN STRUCTURAL GENOMICS/PROTEOMICS KEYWDS 3 INITIATIVE, RSGI, LYASE EXPDTA X-RAY DIFFRACTION AUTHOR N.K.LOKANATH,M.MIYANO,S.YOKOYAMA,S.KURAMITSU,N.KUNISHIMA, AUTHOR 2 RIKEN STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE (RSGI) REVDAT 3 24-FEB-09 1UB3 1 VERSN REVDAT 2 07-DEC-04 1UB3 1 JRNL REVDAT 1 08-APR-03 1UB3 0 JRNL AUTH N.K.LOKANATH,I.SHIROMIZU,N.OHSHIMA,Y.NODAKE, JRNL AUTH 2 M.SUGAHARA,S.YOKOYAMA,S.KURAMITSU,M.MIYANO, JRNL AUTH 3 N.KUNISHIMA JRNL TITL STRUCTURE OF ALDOLASE FROM THERMUS THERMOPHILUS JRNL TITL 2 HB8 SHOWING THE CONTRIBUTION OF OLIGOMERIC STATE JRNL TITL 3 TO THERMOSTABILITY. JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 60 1816 2004 JRNL REFN ISSN 0907-4449 JRNL PMID 15388928 JRNL DOI 10.1107/S0907444904020190 REMARK 1 REMARK 2 REMARK 2 RESOLUTION. 1.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES, PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.25 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 1106896.530 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 97.8 REMARK 3 NUMBER OF REFLECTIONS : 164987 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 SET) : 0.202 REMARK 3 FREE R VALUE : 0.211 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 16428 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.002 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.49 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.40 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 24291 REMARK 3 BIN R VALUE (WORKING SET) : 0.2690 REMARK 3 BIN FREE R VALUE : 0.2830 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 10.20 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 2754 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.005 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6322 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 52 REMARK 3 SOLVENT ATOMS : 442 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 16.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.20 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.96000 REMARK 3 B22 (A**2) : 1.23000 REMARK 3 B33 (A**2) : -4.19000 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) : 0.17 REMARK 3 ESD FROM SIGMAA (A) : 0.15 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) : 0.18 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.16 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.017 REMARK 3 BOND ANGLES (DEGREES) : 1.70 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 22.60 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.27 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.40 REMARK 3 BSOL : 57.99 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 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 3 : HPD.PARAM REMARK 3 PARAMETER FILE 4 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : HPD.TOP REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1UB3 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 01-APR-03. REMARK 100 THE RCSB ID CODE IS RCSB005638. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-DEC-02 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 7.9 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL26B1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.80 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS V REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 164987 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.400 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 3.600 REMARK 200 R MERGE (I) : 0.04800 REMARK 200 R SYM (I) : 0.04600 REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.49 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.4 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL 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: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.52 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.23 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: MPD, TRIS-HCL, MGCL2, DEOXYRIBOSE REMARK 280 PHOSPHATE , PH 7.9, MICROBATCH, TEMPERATURE 295.0K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 31.91000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 68.96250 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 48.44350 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 68.96250 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 31.91000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 48.44350 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: MOLECULE IS IN THE TETRAMER FORM. THE BIOLOGICAL REMARK 300 ASSEMPBLY IS A TETRAMER GENERATED FROM THE MONOMER IN THE REMARK 300 ASYMMETRIC UNIT. 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 10190 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28340 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -58.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 1 REMARK 465 GLY A 213 REMARK 465 GLU A 214 REMARK 465 GLY A 215 REMARK 465 GLY A 216 REMARK 465 THR A 217 REMARK 465 LEU A 218 REMARK 465 GLY A 219 REMARK 465 TYR A 220 REMARK 465 ALA B 212 REMARK 465 GLY B 213 REMARK 465 GLU B 214 REMARK 465 GLY B 215 REMARK 465 GLY B 216 REMARK 465 THR B 217 REMARK 465 LEU B 218 REMARK 465 GLY B 219 REMARK 465 TYR B 220 REMARK 465 MET C 1 REMARK 465 ALA C 212 REMARK 465 GLY C 213 REMARK 465 GLU C 214 REMARK 465 GLY C 215 REMARK 465 GLY C 216 REMARK 465 THR C 217 REMARK 465 LEU C 218 REMARK 465 GLY C 219 REMARK 465 TYR C 220 REMARK 465 MET D 1 REMARK 465 GLY D 213 REMARK 465 GLU D 214 REMARK 465 GLY D 215 REMARK 465 GLY D 216 REMARK 465 THR D 217 REMARK 465 LEU D 218 REMARK 465 GLY D 219 REMARK 465 TYR D 220 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 LEU B 29 C GLU B 30 N -0.158 REMARK 500 GLN B 174 C GLY B 175 N -0.415 REMARK 500 GLY B 207 C VAL B 208 N -0.174 REMARK 500 ALA B 209 C LEU B 210 N -0.520 REMARK 500 LEU B 210 C VAL B 211 N -0.152 REMARK 500 ASP C 2 C LEU C 3 N -0.192 REMARK 500 GLN C 118 C ALA C 119 N -0.173 REMARK 500 GLU C 133 CD GLU C 133 OE1 -0.104 REMARK 500 ALA C 136 C ARG C 137 N -0.144 REMARK 500 ARG C 171 C VAL C 172 N -0.157 REMARK 500 GLU C 189 CD GLU C 189 OE2 -0.121 REMARK 500 LYS C 196 C ALA C 197 N -0.226 REMARK 500 ASP D 2 C LEU D 3 N -0.225 REMARK 500 HIS D 6 C ILE D 7 N -0.220 REMARK 500 GLU D 26 C GLU D 27 N -0.190 REMARK 500 LEU D 29 C GLU D 30 N -0.252 REMARK 500 ARG D 49 C TYR D 50 N -0.154 REMARK 500 HIS D 52 C ALA D 53 N -0.161 REMARK 500 ARG D 110 CZ ARG D 110 NH1 0.079 REMARK 500 ARG D 110 CZ ARG D 110 NH2 -0.087 REMARK 500 PRO D 117 C GLN D 118 N -0.223 REMARK 500 GLN D 174 C GLY D 175 N -0.200 REMARK 500 ARG D 193 C MET D 194 N -0.171 REMARK 500 VAL D 208 C ALA D 209 N -0.271 REMARK 500 LEU D 210 C VAL D 211 N -0.254 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 GLU A 140 O - C - N ANGL. DEV. = -12.6 DEGREES REMARK 500 ARG A 193 NE - CZ - NH1 ANGL. DEV. = 6.7 DEGREES REMARK 500 ARG A 193 NE - CZ - NH2 ANGL. DEV. = -7.6 DEGREES REMARK 500 MET B 1 O - C - N ANGL. DEV. = 11.1 DEGREES REMARK 500 ASP B 2 O - C - N ANGL. DEV. = 10.7 DEGREES REMARK 500 ARG B 171 NE - CZ - NH1 ANGL. DEV. = 5.8 DEGREES REMARK 500 ARG B 171 NE - CZ - NH2 ANGL. DEV. = -7.4 DEGREES REMARK 500 GLY B 175 C - N - CA ANGL. DEV. = 17.7 DEGREES REMARK 500 ASP C 2 CB - CG - OD1 ANGL. DEV. = -10.0 DEGREES REMARK 500 ASP C 2 CB - CG - OD2 ANGL. DEV. = 8.9 DEGREES REMARK 500 ARG C 171 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 GLN C 174 CG - CD - OE1 ANGL. DEV. = -13.1 DEGREES REMARK 500 ASP D 2 N - CA - CB ANGL. DEV. = -16.3 DEGREES REMARK 500 ASP D 2 CB - CG - OD2 ANGL. DEV. = -5.5 DEGREES REMARK 500 ARG D 49 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG D 49 NE - CZ - NH2 ANGL. DEV. = -4.7 DEGREES REMARK 500 HIS D 52 C - N - CA ANGL. DEV. = -16.1 DEGREES REMARK 500 CYS D 81 CA - CB - SG ANGL. DEV. = -12.7 DEGREES REMARK 500 ASP D 103 CB - CG - OD1 ANGL. DEV. = 11.5 DEGREES REMARK 500 ASP D 103 CB - CG - OD2 ANGL. DEV. = -11.6 DEGREES REMARK 500 ARG D 110 CG - CD - NE ANGL. DEV. = 13.6 DEGREES REMARK 500 ARG D 110 CD - NE - CZ ANGL. DEV. = -11.6 DEGREES REMARK 500 ARG D 110 NE - CZ - NH2 ANGL. DEV. = -4.5 DEGREES REMARK 500 ARG D 193 CD - NE - CZ ANGL. DEV. = -11.3 DEGREES REMARK 500 ARG D 193 NE - CZ - NH2 ANGL. DEV. = -4.7 DEGREES REMARK 500 LEU D 210 O - C - N ANGL. DEV. = -13.1 DEGREES REMARK 500 VAL D 211 O - C - N ANGL. DEV. = -13.4 DEGREES REMARK 500 ALA D 212 C - N - CA ANGL. DEV. = 21.2 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 ALA A 5 1.14 -69.02 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG B 171 0.14 SIDE_CHAIN REMARK 500 ARG B 186 0.08 SIDE_CHAIN REMARK 500 ARG C 171 0.08 SIDE_CHAIN REMARK 500 ARG C 186 0.10 SIDE_CHAIN REMARK 500 ARG D 49 0.24 SIDE_CHAIN REMARK 500 ARG D 193 0.13 SIDE_CHAIN 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, 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 GLY B 175 -10.39 REMARK 500 GLU C 189 -11.84 REMARK 500 LEU D 210 12.30 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HPD A 801 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HPD B 802 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HPD C 803 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HPD D 804 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: TTK003000501.2 RELATED DB: TARGETDB DBREF 1UB3 A 1 220 UNP Q7SIC8 Q7SIC8_THETH 1 220 DBREF 1UB3 B 1 220 UNP Q7SIC8 Q7SIC8_THETH 1 220 DBREF 1UB3 C 1 220 UNP Q7SIC8 Q7SIC8_THETH 1 220 DBREF 1UB3 D 1 220 UNP Q7SIC8 Q7SIC8_THETH 1 220 SEQRES 1 A 220 MET ASP LEU ALA ALA HIS ILE ASP HIS THR LEU LEU LYS SEQRES 2 A 220 PRO THR ALA THR LEU GLU GLU VAL ALA LYS ALA ALA GLU SEQRES 3 A 220 GLU ALA LEU GLU TYR GLY PHE TYR GLY LEU CYS ILE PRO SEQRES 4 A 220 PRO SER TYR VAL ALA TRP VAL ARG ALA ARG TYR PRO HIS SEQRES 5 A 220 ALA PRO PHE ARG LEU VAL THR VAL VAL GLY PHE PRO LEU SEQRES 6 A 220 GLY TYR GLN GLU LYS GLU VAL LYS ALA LEU GLU ALA ALA SEQRES 7 A 220 LEU ALA CYS ALA ARG GLY ALA ASP GLU VAL ASP MET VAL SEQRES 8 A 220 LEU HIS LEU GLY ARG ALA LYS ALA GLY ASP LEU ASP TYR SEQRES 9 A 220 LEU GLU ALA GLU VAL ARG ALA VAL ARG GLU ALA VAL PRO SEQRES 10 A 220 GLN ALA VAL LEU LYS VAL ILE LEU GLU THR GLY TYR PHE SEQRES 11 A 220 SER PRO GLU GLU ILE ALA ARG LEU ALA GLU ALA ALA ILE SEQRES 12 A 220 ARG GLY GLY ALA ASP PHE LEU LYS THR SER THR GLY PHE SEQRES 13 A 220 GLY PRO ARG GLY ALA SER LEU GLU ASP VAL ALA LEU LEU SEQRES 14 A 220 VAL ARG VAL ALA GLN GLY ARG ALA GLN VAL LYS ALA ALA SEQRES 15 A 220 GLY GLY ILE ARG ASP ARG GLU THR ALA LEU ARG MET LEU SEQRES 16 A 220 LYS ALA GLY ALA SER ARG LEU GLY THR SER SER GLY VAL SEQRES 17 A 220 ALA LEU VAL ALA GLY GLU GLY GLY THR LEU GLY TYR SEQRES 1 B 220 MET ASP LEU ALA ALA HIS ILE ASP HIS THR LEU LEU LYS SEQRES 2 B 220 PRO THR ALA THR LEU GLU GLU VAL ALA LYS ALA ALA GLU SEQRES 3 B 220 GLU ALA LEU GLU TYR GLY PHE TYR GLY LEU CYS ILE PRO SEQRES 4 B 220 PRO SER TYR VAL ALA TRP VAL ARG ALA ARG TYR PRO HIS SEQRES 5 B 220 ALA PRO PHE ARG LEU VAL THR VAL VAL GLY PHE PRO LEU SEQRES 6 B 220 GLY TYR GLN GLU LYS GLU VAL LYS ALA LEU GLU ALA ALA SEQRES 7 B 220 LEU ALA CYS ALA ARG GLY ALA ASP GLU VAL ASP MET VAL SEQRES 8 B 220 LEU HIS LEU GLY ARG ALA LYS ALA GLY ASP LEU ASP TYR SEQRES 9 B 220 LEU GLU ALA GLU VAL ARG ALA VAL ARG GLU ALA VAL PRO SEQRES 10 B 220 GLN ALA VAL LEU LYS VAL ILE LEU GLU THR GLY TYR PHE SEQRES 11 B 220 SER PRO GLU GLU ILE ALA ARG LEU ALA GLU ALA ALA ILE SEQRES 12 B 220 ARG GLY GLY ALA ASP PHE LEU LYS THR SER THR GLY PHE SEQRES 13 B 220 GLY PRO ARG GLY ALA SER LEU GLU ASP VAL ALA LEU LEU SEQRES 14 B 220 VAL ARG VAL ALA GLN GLY ARG ALA GLN VAL LYS ALA ALA SEQRES 15 B 220 GLY GLY ILE ARG ASP ARG GLU THR ALA LEU ARG MET LEU SEQRES 16 B 220 LYS ALA GLY ALA SER ARG LEU GLY THR SER SER GLY VAL SEQRES 17 B 220 ALA LEU VAL ALA GLY GLU GLY GLY THR LEU GLY TYR SEQRES 1 C 220 MET ASP LEU ALA ALA HIS ILE ASP HIS THR LEU LEU LYS SEQRES 2 C 220 PRO THR ALA THR LEU GLU GLU VAL ALA LYS ALA ALA GLU SEQRES 3 C 220 GLU ALA LEU GLU TYR GLY PHE TYR GLY LEU CYS ILE PRO SEQRES 4 C 220 PRO SER TYR VAL ALA TRP VAL ARG ALA ARG TYR PRO HIS SEQRES 5 C 220 ALA PRO PHE ARG LEU VAL THR VAL VAL GLY PHE PRO LEU SEQRES 6 C 220 GLY TYR GLN GLU LYS GLU VAL LYS ALA LEU GLU ALA ALA SEQRES 7 C 220 LEU ALA CYS ALA ARG GLY ALA ASP GLU VAL ASP MET VAL SEQRES 8 C 220 LEU HIS LEU GLY ARG ALA LYS ALA GLY ASP LEU ASP TYR SEQRES 9 C 220 LEU GLU ALA GLU VAL ARG ALA VAL ARG GLU ALA VAL PRO SEQRES 10 C 220 GLN ALA VAL LEU LYS VAL ILE LEU GLU THR GLY TYR PHE SEQRES 11 C 220 SER PRO GLU GLU ILE ALA ARG LEU ALA GLU ALA ALA ILE SEQRES 12 C 220 ARG GLY GLY ALA ASP PHE LEU LYS THR SER THR GLY PHE SEQRES 13 C 220 GLY PRO ARG GLY ALA SER LEU GLU ASP VAL ALA LEU LEU SEQRES 14 C 220 VAL ARG VAL ALA GLN GLY ARG ALA GLN VAL LYS ALA ALA SEQRES 15 C 220 GLY GLY ILE ARG ASP ARG GLU THR ALA LEU ARG MET LEU SEQRES 16 C 220 LYS ALA GLY ALA SER ARG LEU GLY THR SER SER GLY VAL SEQRES 17 C 220 ALA LEU VAL ALA GLY GLU GLY GLY THR LEU GLY TYR SEQRES 1 D 220 MET ASP LEU ALA ALA HIS ILE ASP HIS THR LEU LEU LYS SEQRES 2 D 220 PRO THR ALA THR LEU GLU GLU VAL ALA LYS ALA ALA GLU SEQRES 3 D 220 GLU ALA LEU GLU TYR GLY PHE TYR GLY LEU CYS ILE PRO SEQRES 4 D 220 PRO SER TYR VAL ALA TRP VAL ARG ALA ARG TYR PRO HIS SEQRES 5 D 220 ALA PRO PHE ARG LEU VAL THR VAL VAL GLY PHE PRO LEU SEQRES 6 D 220 GLY TYR GLN GLU LYS GLU VAL LYS ALA LEU GLU ALA ALA SEQRES 7 D 220 LEU ALA CYS ALA ARG GLY ALA ASP GLU VAL ASP MET VAL SEQRES 8 D 220 LEU HIS LEU GLY ARG ALA LYS ALA GLY ASP LEU ASP TYR SEQRES 9 D 220 LEU GLU ALA GLU VAL ARG ALA VAL ARG GLU ALA VAL PRO SEQRES 10 D 220 GLN ALA VAL LEU LYS VAL ILE LEU GLU THR GLY TYR PHE SEQRES 11 D 220 SER PRO GLU GLU ILE ALA ARG LEU ALA GLU ALA ALA ILE SEQRES 12 D 220 ARG GLY GLY ALA ASP PHE LEU LYS THR SER THR GLY PHE SEQRES 13 D 220 GLY PRO ARG GLY ALA SER LEU GLU ASP VAL ALA LEU LEU SEQRES 14 D 220 VAL ARG VAL ALA GLN GLY ARG ALA GLN VAL LYS ALA ALA SEQRES 15 D 220 GLY GLY ILE ARG ASP ARG GLU THR ALA LEU ARG MET LEU SEQRES 16 D 220 LYS ALA GLY ALA SER ARG LEU GLY THR SER SER GLY VAL SEQRES 17 D 220 ALA LEU VAL ALA GLY GLU GLY GLY THR LEU GLY TYR HET HPD A 801 13 HET HPD B 802 13 HET HPD C 803 13 HET HPD D 804 13 HETNAM HPD 1-HYDROXY-PENTANE-3,4-DIOL-5-PHOSPHATE HETSYN HPD OPEN FORM OF 2'-DEOXY-RIBOFURANOSE-5'-PHOSPHATE FORMUL 5 HPD 4(C5 H13 O7 P) FORMUL 9 HOH *442(H2 O) HELIX 1 1 ASP A 2 ALA A 5 5 4 HELIX 2 2 THR A 17 GLY A 32 1 16 HELIX 3 3 PRO A 39 SER A 41 5 3 HELIX 4 4 TYR A 42 TYR A 50 1 9 HELIX 5 5 GLU A 69 ARG A 83 1 15 HELIX 6 6 HIS A 93 ALA A 99 1 7 HELIX 7 7 ASP A 101 VAL A 116 1 16 HELIX 8 8 GLU A 126 PHE A 130 5 5 HELIX 9 9 SER A 131 GLY A 146 1 16 HELIX 10 10 SER A 162 GLN A 174 1 13 HELIX 11 11 ASP A 187 ALA A 197 1 11 HELIX 12 12 SER A 206 ALA A 212 1 7 HELIX 13 13 LEU B 3 ALA B 5 5 3 HELIX 14 14 THR B 17 GLY B 32 1 16 HELIX 15 15 PRO B 39 SER B 41 5 3 HELIX 16 16 TYR B 42 TYR B 50 1 9 HELIX 17 17 GLU B 69 ARG B 83 1 15 HELIX 18 18 HIS B 93 ALA B 99 1 7 HELIX 19 19 ASP B 101 VAL B 116 1 16 HELIX 20 20 GLU B 126 PHE B 130 5 5 HELIX 21 21 SER B 131 GLY B 145 1 15 HELIX 22 22 SER B 162 GLN B 174 1 13 HELIX 23 23 ASP B 187 ALA B 197 1 11 HELIX 24 24 SER B 206 VAL B 211 1 6 HELIX 25 25 ASP C 2 ALA C 5 5 4 HELIX 26 26 THR C 17 GLY C 32 1 16 HELIX 27 27 PRO C 39 SER C 41 5 3 HELIX 28 28 TYR C 42 TYR C 50 1 9 HELIX 29 29 GLU C 69 ARG C 83 1 15 HELIX 30 30 HIS C 93 ALA C 99 1 7 HELIX 31 31 ASP C 101 VAL C 116 1 16 HELIX 32 32 GLU C 126 PHE C 130 5 5 HELIX 33 33 SER C 131 GLY C 145 1 15 HELIX 34 34 SER C 162 GLN C 174 1 13 HELIX 35 35 ASP C 187 ALA C 197 1 11 HELIX 36 36 SER C 206 VAL C 211 1 6 HELIX 37 37 ASP D 2 ALA D 5 5 4 HELIX 38 38 THR D 17 GLY D 32 1 16 HELIX 39 39 PRO D 39 SER D 41 5 3 HELIX 40 40 TYR D 42 TYR D 50 1 9 HELIX 41 41 GLU D 69 ARG D 83 1 15 HELIX 42 42 HIS D 93 ALA D 99 1 7 HELIX 43 43 ASP D 101 VAL D 116 1 16 HELIX 44 44 GLU D 126 PHE D 130 5 5 HELIX 45 45 SER D 131 GLY D 145 1 15 HELIX 46 46 SER D 162 GLN D 174 1 13 HELIX 47 47 ASP D 187 ALA D 197 1 11 HELIX 48 48 SER D 206 ALA D 212 1 7 SHEET 1 A 9 ILE A 7 THR A 10 0 SHEET 2 A 9 GLY A 35 CYS A 37 1 O CYS A 37 N HIS A 9 SHEET 3 A 9 ARG A 56 VAL A 61 1 O VAL A 58 N LEU A 36 SHEET 4 A 9 GLU A 87 VAL A 91 1 O ASP A 89 N THR A 59 SHEET 5 A 9 VAL A 120 ILE A 124 1 O ILE A 124 N MET A 90 SHEET 6 A 9 PHE A 149 LYS A 151 1 O LYS A 151 N VAL A 123 SHEET 7 A 9 GLN A 178 ALA A 182 1 O LYS A 180 N LEU A 150 SHEET 8 A 9 ARG A 201 THR A 204 1 O GLY A 203 N ALA A 181 SHEET 9 A 9 ILE A 7 THR A 10 1 N ASP A 8 O LEU A 202 SHEET 1 B 9 ILE B 7 THR B 10 0 SHEET 2 B 9 GLY B 35 CYS B 37 1 O CYS B 37 N HIS B 9 SHEET 3 B 9 ARG B 56 VAL B 61 1 O VAL B 58 N LEU B 36 SHEET 4 B 9 GLU B 87 VAL B 91 1 O ASP B 89 N THR B 59 SHEET 5 B 9 VAL B 120 ILE B 124 1 O ILE B 124 N MET B 90 SHEET 6 B 9 PHE B 149 LYS B 151 1 O LYS B 151 N VAL B 123 SHEET 7 B 9 GLN B 178 ALA B 182 1 O LYS B 180 N LEU B 150 SHEET 8 B 9 ARG B 201 THR B 204 1 O GLY B 203 N ALA B 181 SHEET 9 B 9 ILE B 7 THR B 10 1 N ASP B 8 O LEU B 202 SHEET 1 C 9 ILE C 7 THR C 10 0 SHEET 2 C 9 GLY C 35 CYS C 37 1 O CYS C 37 N HIS C 9 SHEET 3 C 9 ARG C 56 VAL C 61 1 O VAL C 58 N LEU C 36 SHEET 4 C 9 GLU C 87 VAL C 91 1 O ASP C 89 N THR C 59 SHEET 5 C 9 VAL C 120 ILE C 124 1 O ILE C 124 N MET C 90 SHEET 6 C 9 PHE C 149 LYS C 151 1 O LYS C 151 N VAL C 123 SHEET 7 C 9 GLN C 178 ALA C 182 1 O LYS C 180 N LEU C 150 SHEET 8 C 9 ARG C 201 THR C 204 1 O GLY C 203 N ALA C 181 SHEET 9 C 9 ILE C 7 THR C 10 1 N ASP C 8 O LEU C 202 SHEET 1 D 9 ILE D 7 THR D 10 0 SHEET 2 D 9 GLY D 35 CYS D 37 1 O CYS D 37 N HIS D 9 SHEET 3 D 9 ARG D 56 VAL D 61 1 O VAL D 58 N LEU D 36 SHEET 4 D 9 GLU D 87 VAL D 91 1 O ASP D 89 N THR D 59 SHEET 5 D 9 VAL D 120 ILE D 124 1 O ILE D 124 N MET D 90 SHEET 6 D 9 PHE D 149 LYS D 151 1 O LYS D 151 N VAL D 123 SHEET 7 D 9 GLN D 178 ALA D 182 1 O LYS D 180 N LEU D 150 SHEET 8 D 9 ARG D 201 THR D 204 1 O GLY D 203 N ALA D 181 SHEET 9 D 9 ILE D 7 THR D 10 1 N ASP D 8 O LEU D 202 LINK C1' HPD A 801 NZ LYS A 151 1555 1555 1.38 LINK C1' HPD B 802 NZ LYS B 151 1555 1555 1.38 LINK C1' HPD C 803 NZ LYS C 151 1555 1555 1.38 LINK C1' HPD D 804 NZ LYS D 151 1555 1555 1.38 CISPEP 1 PHE A 63 PRO A 64 0 0.19 CISPEP 2 PHE B 63 PRO B 64 0 0.02 CISPEP 3 PHE C 63 PRO C 64 0 0.13 CISPEP 4 PHE D 63 PRO D 64 0 0.14 SITE 1 AC1 18 LEU A 12 CYS A 37 VAL A 60 LYS A 151 SITE 2 AC1 18 THR A 154 GLY A 155 ALA A 182 GLY A 183 SITE 3 AC1 18 GLY A 184 ARG A 186 GLY A 203 THR A 204 SITE 4 AC1 18 SER A 205 HOH A 810 HOH A 815 HOH A 834 SITE 5 AC1 18 HOH A 853 HOH A 895 SITE 1 AC2 17 LEU B 12 CYS B 37 VAL B 60 ASP B 89 SITE 2 AC2 17 LYS B 151 THR B 154 ALA B 182 GLY B 183 SITE 3 AC2 17 GLY B 184 ARG B 186 GLY B 203 THR B 204 SITE 4 AC2 17 SER B 205 HOH B 815 HOH B 828 HOH B 838 SITE 5 AC2 17 HOH B 881 SITE 1 AC3 18 LEU C 12 CYS C 37 VAL C 60 LYS C 151 SITE 2 AC3 18 THR C 154 GLY C 155 ALA C 182 GLY C 183 SITE 3 AC3 18 GLY C 184 ARG C 186 GLY C 203 THR C 204 SITE 4 AC3 18 SER C 205 HOH C 812 HOH C 814 HOH C 837 SITE 5 AC3 18 HOH C 858 HOH C 898 SITE 1 AC4 17 LEU D 12 CYS D 37 VAL D 60 ASP D 89 SITE 2 AC4 17 LYS D 151 THR D 154 ALA D 182 GLY D 183 SITE 3 AC4 17 GLY D 184 ARG D 186 GLY D 203 THR D 204 SITE 4 AC4 17 SER D 205 HOH D 812 HOH D 824 HOH D 832 SITE 5 AC4 17 HOH D 840 CRYST1 63.820 96.887 137.925 90.00 90.00 90.00 P 21 21 21 16 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 0.015669 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010321 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007250 0.00000 MASTER 428 0 4 48 36 0 20 6 0 0 0 68 END