HEADER OXIDOREDUCTASE 10-APR-07 2PH3 TITLE CRYSTAL STRUCTURE OF 3-OXOACYL-[ACYL CARRIER PROTEIN] REDUCTASE TITLE 2 TTHA0415 FROM THERMUS THERMOPHILUS COMPND MOL_ID: 1; COMPND 2 MOLECULE: 3-OXOACYL-[ACYL CARRIER PROTEIN] REDUCTASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 1.1.1.100; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMUS THERMOPHILUS HB8; SOURCE 3 ORGANISM_TAXID: 300852; SOURCE 4 STRAIN: HB8, DSM 579; SOURCE 5 ATCC: 27634; SOURCE 6 GENE: TTHA0415; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PET-11B KEYWDS TTHA0415, THERMUS THERMOPHILUS, STRUCTURAL GENOMICS, SOUTHEAST KEYWDS 2 COLLABORATORY FOR STRUCTURAL GENOMICS, SECSG, RIKEN STRUCTURAL KEYWDS 3 GENOMICS/PROTEOMICS INITIATIVE, RSGI, PSI, PROTEIN STRUCTURE KEYWDS 4 INITIATIVE, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR J.T.SWINDELL II,L.CHEN,J.ZHU,A.EBIHARA,A.SHINKAI,S.KURAMITSU, AUTHOR 2 S.YOKOYAMA,Z.-Q.FU,J.CHRZAS,J.P.ROSE,B.C.WANG,SOUTHEAST AUTHOR 3 COLLABORATORY FOR STRUCTURAL GENOMICS (SECSG),RIKEN STRUCTURAL AUTHOR 4 GENOMICS/PROTEOMICS INITIATIVE (RSGI) REVDAT 7 30-AUG-23 2PH3 1 REMARK REVDAT 6 24-JAN-18 2PH3 1 AUTHOR JRNL REVDAT 5 18-OCT-17 2PH3 1 REMARK REVDAT 4 13-JUL-11 2PH3 1 VERSN REVDAT 3 24-FEB-09 2PH3 1 VERSN REVDAT 2 08-APR-08 2PH3 1 REMARK REVDAT 1 08-MAY-07 2PH3 0 JRNL AUTH J.T.SWINDELL II,L.CHEN,J.ZHU,A.EBIHARA,A.SHINKAI, JRNL AUTH 2 S.KURAMITSU,S.YOKOYAMA,Z.-Q.FU,J.CHRZAS,J.P.ROSE,B.C.WANG JRNL TITL CRYSTAL STRUCTURE OF 3-OXOACYL-[ACYL CARRIER PROTEIN] JRNL TITL 2 REDUCTASE TTHA0415 FROM THERMUS THERMOPHILUS JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.91 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 WITH PHASES REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.91 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.67 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 35198 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) : 0.191 REMARK 3 R VALUE (WORKING SET) : 0.189 REMARK 3 FREE R VALUE : 0.229 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1763 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) : 1.91 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.96 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2452 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2000 REMARK 3 BIN FREE R VALUE SET COUNT : 129 REMARK 3 BIN FREE R VALUE : 0.2800 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3621 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 188 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 17.96 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.01000 REMARK 3 B22 (A**2) : 0.01000 REMARK 3 B33 (A**2) : -0.02000 REMARK 3 B12 (A**2) : 0.01000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.172 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.152 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.102 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.374 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.941 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.911 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3667 ; 0.017 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4954 ; 1.516 ; 1.971 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 478 ; 5.650 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 157 ;32.993 ;23.248 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 635 ;14.816 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 38 ;17.750 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 584 ; 0.110 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2731 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1827 ; 0.233 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2579 ; 0.302 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 242 ; 0.281 ; 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): 98 ; 0.243 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 20 ; 0.298 ; 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): 2457 ; 1.434 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3770 ; 1.545 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1339 ; 2.714 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1184 ; 4.247 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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 2PH3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-APR-07. REMARK 100 THE DEPOSITION ID IS D_1000042369. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 31-JAN-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-BM REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97240 REMARK 200 MONOCHROMATOR : SI 111 CRYSTAL REMARK 200 OPTICS : ROSENBAUM REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 35274 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.910 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 20.80 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06500 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 22.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.91 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.98 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 18.90 REMARK 200 R MERGE FOR SHELL (I) : 0.14400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: SGXPRO REMARK 200 STARTING MODEL: PDB ENTRY 2HQ1 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.46 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.21 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.0 MICROLITER DROPS CONTAINING EQUAL REMARK 280 VOLUMES OF PROTEIN CONCENTRATE (9.5 MG/ML) AND SOLUTION REMARK 280 CONTAINING 0.1 M TRIS-HCL PH 8.5, 2.4 M DI-AMMONIUM PHOSPHATE, REMARK 280 VAPOR DIFFUSION, TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 62 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z REMARK 290 5555 Y,-X+Y,Z+2/3 REMARK 290 6555 X-Y,X,Z+1/3 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 91.70800 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 45.85400 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 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 91.70800 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 45.85400 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: THE BIOLOGICAL ASSEMBLY IS A TETRAMER 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,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 12870 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 34230 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -72.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 114.78750 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 66.27259 REMARK 350 BIOMT3 2 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 B 1 REMARK 465 GLY B 148 REMARK 465 GLN B 149 REMARK 465 ALA B 181 REMARK 465 PRO B 182 REMARK 465 GLY B 183 REMARK 465 PHE B 184 REMARK 465 HIS B 245 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 GLN A 172 CG REMARK 470 MET B 189 CG REMARK 470 ARG B 192 CZ NH1 NH2 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 CE MET B 189 NE ARG B 192 1.41 REMARK 500 O MET B 127 NH1 ARG B 130 2.12 REMARK 500 N MET A 1 O HOH A 266 2.12 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 NH1 ARG B 173 OE2 GLU B 191 3775 1.79 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 54 CA VAL A 54 CB -0.160 REMARK 500 ARG A 130 CD ARG A 130 NE -0.233 REMARK 500 ARG A 130 CZ ARG A 130 NH1 -0.213 REMARK 500 ARG A 130 CZ ARG A 130 NH2 -0.243 REMARK 500 TYR A 170 CB TYR A 170 CG -0.283 REMARK 500 ARG A 209 C PHE A 210 N 0.161 REMARK 500 ILE B 137 C THR B 138 N -0.171 REMARK 500 MET B 189 CA MET B 189 CB -0.340 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 A 2 CB - CA - C ANGL. DEV. = -15.9 DEGREES REMARK 500 ARG A 2 NE - CZ - NH1 ANGL. DEV. = 6.9 DEGREES REMARK 500 ARG A 2 NE - CZ - NH2 ANGL. DEV. = -4.8 DEGREES REMARK 500 ARG A 2 N - CA - C ANGL. DEV. = 43.3 DEGREES REMARK 500 LYS A 3 C - N - CA ANGL. DEV. = 18.8 DEGREES REMARK 500 LYS A 3 CB - CA - C ANGL. DEV. = 33.6 DEGREES REMARK 500 LYS A 3 N - CA - CB ANGL. DEV. = -25.4 DEGREES REMARK 500 LYS A 3 CA - CB - CG ANGL. DEV. = 16.8 DEGREES REMARK 500 VAL A 54 CG1 - CB - CG2 ANGL. DEV. = -11.5 DEGREES REMARK 500 VAL A 54 CA - CB - CG2 ANGL. DEV. = -10.2 DEGREES REMARK 500 LEU A 108 CA - CB - CG ANGL. DEV. = -17.8 DEGREES REMARK 500 ARG A 117 NE - CZ - NH2 ANGL. DEV. = -4.7 DEGREES REMARK 500 ARG A 130 CD - NE - CZ ANGL. DEV. = 9.8 DEGREES REMARK 500 ARG A 130 NE - CZ - NH1 ANGL. DEV. = 33.1 DEGREES REMARK 500 ARG A 130 NE - CZ - NH2 ANGL. DEV. = -28.9 DEGREES REMARK 500 TYR A 170 CB - CA - C ANGL. DEV. = 19.5 DEGREES REMARK 500 TYR A 170 CA - CB - CG ANGL. DEV. = 21.6 DEGREES REMARK 500 ARG A 209 NE - CZ - NH1 ANGL. DEV. = 4.3 DEGREES REMARK 500 ARG A 209 NE - CZ - NH2 ANGL. DEV. = -5.0 DEGREES REMARK 500 THR B 138 CA - C - N ANGL. DEV. = 18.2 DEGREES REMARK 500 THR B 138 O - C - N ANGL. DEV. = -19.5 DEGREES REMARK 500 TYR B 170 CB - CG - CD2 ANGL. DEV. = 4.3 DEGREES REMARK 500 TYR B 170 CB - CG - CD1 ANGL. DEV. = -5.6 DEGREES REMARK 500 MET B 189 CB - CA - C ANGL. DEV. = 14.4 DEGREES REMARK 500 ARG B 209 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 ARG B 209 NE - CZ - NH2 ANGL. DEV. = -4.4 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 LEU A 112 -59.13 -128.52 REMARK 500 THR A 138 -149.23 -92.08 REMARK 500 GLN A 149 58.83 -157.25 REMARK 500 ASP A 239 11.65 -150.13 REMARK 500 LEU B 112 -56.48 -128.39 REMARK 500 THR B 138 -144.78 -93.59 REMARK 500 THR B 187 97.89 -68.55 REMARK 500 GLU B 188 -144.18 -130.59 REMARK 500 MET B 189 -18.73 -41.96 REMARK 500 THR B 190 -19.49 -46.05 REMARK 500 ASP B 239 9.33 -151.03 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ARG A 2 LYS A 3 148.39 REMARK 500 LYS A 3 ALA A 4 148.18 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 A 130 0.09 SIDE CHAIN REMARK 500 TYR A 170 0.08 SIDE CHAIN REMARK 500 TYR B 170 0.07 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 ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 ARG A 2 10.32 REMARK 500 PHE A 116 10.25 REMARK 500 ARG A 209 13.39 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: TTH-TT0139 RELATED DB: TARGETDB REMARK 900 RELATED ID: 2HQ1 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF ORF1438, A PUTATIVE GLUCOSE/RIBITOL REMARK 900 DEHYDROGENASE FROM CLOSTRIDIUM THERMOCELLUM DBREF 2PH3 A 1 245 UNP Q5SL78 Q5SL78_THET8 1 245 DBREF 2PH3 B 1 245 UNP Q5SL78 Q5SL78_THET8 1 245 SEQRES 1 A 245 MET ARG LYS ALA LEU ILE THR GLY ALA SER ARG GLY ILE SEQRES 2 A 245 GLY ARG ALA ILE ALA LEU ARG LEU ALA GLU ASP GLY PHE SEQRES 3 A 245 ALA LEU ALA ILE HIS TYR GLY GLN ASN ARG GLU LYS ALA SEQRES 4 A 245 GLU GLU VAL ALA GLU GLU ALA ARG ARG ARG GLY SER PRO SEQRES 5 A 245 LEU VAL ALA VAL LEU GLY ALA ASN LEU LEU GLU ALA GLU SEQRES 6 A 245 ALA ALA THR ALA LEU VAL HIS GLN ALA ALA GLU VAL LEU SEQRES 7 A 245 GLY GLY LEU ASP THR LEU VAL ASN ASN ALA GLY ILE THR SEQRES 8 A 245 ARG ASP THR LEU LEU VAL ARG MET LYS ASP GLU ASP TRP SEQRES 9 A 245 GLU ALA VAL LEU GLU ALA ASN LEU SER ALA VAL PHE ARG SEQRES 10 A 245 THR THR ARG GLU ALA VAL LYS LEU MET MET LYS ALA ARG SEQRES 11 A 245 PHE GLY ARG ILE VAL ASN ILE THR SER VAL VAL GLY ILE SEQRES 12 A 245 LEU GLY ASN PRO GLY GLN ALA ASN TYR VAL ALA SER LYS SEQRES 13 A 245 ALA GLY LEU ILE GLY PHE THR ARG ALA VAL ALA LYS GLU SEQRES 14 A 245 TYR ALA GLN ARG GLY ILE THR VAL ASN ALA VAL ALA PRO SEQRES 15 A 245 GLY PHE ILE GLU THR GLU MET THR GLU ARG LEU PRO GLN SEQRES 16 A 245 GLU VAL LYS GLU ALA TYR LEU LYS GLN ILE PRO ALA GLY SEQRES 17 A 245 ARG PHE GLY ARG PRO GLU GLU VAL ALA GLU ALA VAL ALA SEQRES 18 A 245 PHE LEU VAL SER GLU LYS ALA GLY TYR ILE THR GLY GLN SEQRES 19 A 245 THR LEU CYS VAL ASP GLY GLY LEU THR PRO HIS SEQRES 1 B 245 MET ARG LYS ALA LEU ILE THR GLY ALA SER ARG GLY ILE SEQRES 2 B 245 GLY ARG ALA ILE ALA LEU ARG LEU ALA GLU ASP GLY PHE SEQRES 3 B 245 ALA LEU ALA ILE HIS TYR GLY GLN ASN ARG GLU LYS ALA SEQRES 4 B 245 GLU GLU VAL ALA GLU GLU ALA ARG ARG ARG GLY SER PRO SEQRES 5 B 245 LEU VAL ALA VAL LEU GLY ALA ASN LEU LEU GLU ALA GLU SEQRES 6 B 245 ALA ALA THR ALA LEU VAL HIS GLN ALA ALA GLU VAL LEU SEQRES 7 B 245 GLY GLY LEU ASP THR LEU VAL ASN ASN ALA GLY ILE THR SEQRES 8 B 245 ARG ASP THR LEU LEU VAL ARG MET LYS ASP GLU ASP TRP SEQRES 9 B 245 GLU ALA VAL LEU GLU ALA ASN LEU SER ALA VAL PHE ARG SEQRES 10 B 245 THR THR ARG GLU ALA VAL LYS LEU MET MET LYS ALA ARG SEQRES 11 B 245 PHE GLY ARG ILE VAL ASN ILE THR SER VAL VAL GLY ILE SEQRES 12 B 245 LEU GLY ASN PRO GLY GLN ALA ASN TYR VAL ALA SER LYS SEQRES 13 B 245 ALA GLY LEU ILE GLY PHE THR ARG ALA VAL ALA LYS GLU SEQRES 14 B 245 TYR ALA GLN ARG GLY ILE THR VAL ASN ALA VAL ALA PRO SEQRES 15 B 245 GLY PHE ILE GLU THR GLU MET THR GLU ARG LEU PRO GLN SEQRES 16 B 245 GLU VAL LYS GLU ALA TYR LEU LYS GLN ILE PRO ALA GLY SEQRES 17 B 245 ARG PHE GLY ARG PRO GLU GLU VAL ALA GLU ALA VAL ALA SEQRES 18 B 245 PHE LEU VAL SER GLU LYS ALA GLY TYR ILE THR GLY GLN SEQRES 19 B 245 THR LEU CYS VAL ASP GLY GLY LEU THR PRO HIS FORMUL 3 HOH *188(H2 O) HELIX 1 1 ARG A 11 GLU A 23 1 13 HELIX 2 2 ASN A 35 ARG A 49 1 15 HELIX 3 3 GLU A 63 GLY A 79 1 17 HELIX 4 4 LEU A 95 MET A 99 5 5 HELIX 5 5 LYS A 100 LEU A 112 1 13 HELIX 6 6 LEU A 112 ARG A 130 1 19 HELIX 7 7 VAL A 140 GLY A 145 1 6 HELIX 8 8 GLN A 149 ALA A 171 1 23 HELIX 9 9 THR A 187 ARG A 192 1 6 HELIX 10 10 PRO A 194 GLN A 204 1 11 HELIX 11 11 ARG A 212 VAL A 224 1 13 HELIX 12 12 SER A 225 GLY A 229 5 5 HELIX 13 13 ARG B 11 ASP B 24 1 14 HELIX 14 14 ASN B 35 GLY B 50 1 16 HELIX 15 15 GLU B 63 GLY B 79 1 17 HELIX 16 16 LEU B 95 MET B 99 5 5 HELIX 17 17 LYS B 100 LEU B 112 1 13 HELIX 18 18 LEU B 112 ARG B 130 1 19 HELIX 19 19 VAL B 140 GLY B 145 1 6 HELIX 20 20 ALA B 150 ALA B 171 1 22 HELIX 21 21 GLU B 188 LEU B 193 5 6 HELIX 22 22 PRO B 194 LYS B 203 1 10 HELIX 23 23 ARG B 212 SER B 225 1 14 HELIX 24 24 GLU B 226 GLY B 229 5 4 SHEET 1 A 7 VAL A 54 GLY A 58 0 SHEET 2 A 7 ALA A 27 TYR A 32 1 N ILE A 30 O ALA A 55 SHEET 3 A 7 LYS A 3 ILE A 6 1 N ALA A 4 O ALA A 29 SHEET 4 A 7 THR A 83 ASN A 86 1 O VAL A 85 N LEU A 5 SHEET 5 A 7 GLY A 132 ILE A 137 1 O ILE A 137 N ASN A 86 SHEET 6 A 7 ILE A 175 PRO A 182 1 O ASN A 178 N ASN A 136 SHEET 7 A 7 THR A 235 VAL A 238 1 O LEU A 236 N ALA A 179 SHEET 1 B 6 VAL B 54 GLY B 58 0 SHEET 2 B 6 ALA B 27 TYR B 32 1 N ILE B 30 O ALA B 55 SHEET 3 B 6 LYS B 3 ILE B 6 1 N ALA B 4 O ALA B 29 SHEET 4 B 6 THR B 83 ASN B 86 1 O VAL B 85 N LEU B 5 SHEET 5 B 6 GLY B 132 ILE B 137 1 O ILE B 137 N ASN B 86 SHEET 6 B 6 ILE B 175 VAL B 180 1 O ASN B 178 N ASN B 136 CRYST1 76.525 76.525 137.562 90.00 90.00 120.00 P 62 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 0.013068 0.007545 0.000000 0.00000 SCALE2 0.000000 0.015089 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007269 0.00000