HEADER TRANSFERASE 23-MAY-17 5VXD TITLE CRYSTAL STRUCTURE OF XANTHOMONAS CAMPESTRIS OLEA E117A COMPND MOL_ID: 1; COMPND 2 MOLECULE: 3-OXOACYL-[ACP] SYNTHASE III; COMPND 3 CHAIN: A, B; COMPND 4 EC: 2.3.1.41; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: XANTHOMONAS CAMPESTRIS PV. CAMPESTRIS (STRAIN SOURCE 3 ATCC 33913 / DSM 3586 / NCPPB 528 / LMG 568 / P 25); SOURCE 4 ORGANISM_TAXID: 190485; SOURCE 5 STRAIN: ATCC 33913 / DSM 3586 / NCPPB 528 / LMG 568 / P 25; SOURCE 6 ATCC: 33913; SOURCE 7 GENE: FABH, XCC0212; SOURCE 8 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 10 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 11 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 12 EXPRESSION_SYSTEM_PLASMID: PET28B+ KEYWDS THIOLASE, TRANSFERASE, CONDENSATION EXPDTA X-RAY DIFFRACTION AUTHOR M.R.JENSEN,C.M.WILMOT REVDAT 4 04-OCT-23 5VXD 1 REMARK REVDAT 3 01-JAN-20 5VXD 1 REMARK REVDAT 2 22-NOV-17 5VXD 1 JRNL REVDAT 1 25-OCT-17 5VXD 0 JRNL AUTH M.R.JENSEN,B.R.GOBLIRSCH,J.K.CHRISTENSON,M.A.ESLER, JRNL AUTH 2 F.A.MOHAMED,L.P.WACKETT,C.M.WILMOT JRNL TITL OLEA GLU117 IS KEY TO CONDENSATION OF TWO FATTY-ACYL JRNL TITL 2 COENZYME A SUBSTRATES IN LONG-CHAIN OLEFIN BIOSYNTHESIS. JRNL REF BIOCHEM. J. V. 474 3871 2017 JRNL REFN ESSN 1470-8728 JRNL PMID 29025976 JRNL DOI 10.1042/BCJ20170642 REMARK 2 REMARK 2 RESOLUTION. 1.97 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0158 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.97 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 49981 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) : 0.171 REMARK 3 R VALUE (WORKING SET) : 0.169 REMARK 3 FREE R VALUE : 0.214 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2646 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) : 1.97 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.02 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3461 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.36 REMARK 3 BIN R VALUE (WORKING SET) : 0.2340 REMARK 3 BIN FREE R VALUE SET COUNT : 198 REMARK 3 BIN FREE R VALUE : 0.2640 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5197 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 12 REMARK 3 SOLVENT ATOMS : 178 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 26.80 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 33.92 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.02000 REMARK 3 B22 (A**2) : 0.60000 REMARK 3 B33 (A**2) : -0.59000 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): 0.148 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.141 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.105 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.774 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.965 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.944 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5336 ; 0.027 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 5123 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7233 ; 2.410 ; 1.964 REMARK 3 BOND ANGLES OTHERS (DEGREES): 11842 ; 1.225 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 695 ; 7.083 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 220 ;36.645 ;24.091 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 930 ;16.968 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 39 ;18.041 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 852 ; 0.151 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5979 ; 0.012 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1040 ; 0.002 ; 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 14 A 358 REMARK 3 ORIGIN FOR THE GROUP (A): -10.6815 7.1534 -2.2047 REMARK 3 T TENSOR REMARK 3 T11: 0.0369 T22: 0.0065 REMARK 3 T33: 0.0279 T12: 0.0013 REMARK 3 T13: 0.0100 T23: 0.0003 REMARK 3 L TENSOR REMARK 3 L11: 0.3033 L22: 0.1767 REMARK 3 L33: 0.1261 L12: -0.0866 REMARK 3 L13: 0.0771 L23: 0.0661 REMARK 3 S TENSOR REMARK 3 S11: -0.0312 S12: -0.0104 S13: -0.0118 REMARK 3 S21: 0.0388 S22: 0.0277 S23: 0.0359 REMARK 3 S31: 0.0444 S32: 0.0097 S33: 0.0035 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 19 B 358 REMARK 3 ORIGIN FOR THE GROUP (A): -13.5692 23.8681 -27.4817 REMARK 3 T TENSOR REMARK 3 T11: 0.0720 T22: 0.0130 REMARK 3 T33: 0.0143 T12: -0.0107 REMARK 3 T13: 0.0066 T23: -0.0115 REMARK 3 L TENSOR REMARK 3 L11: 0.0726 L22: 0.2367 REMARK 3 L33: 0.3655 L12: 0.0606 REMARK 3 L13: -0.1530 L23: -0.1636 REMARK 3 S TENSOR REMARK 3 S11: -0.0152 S12: 0.0015 S13: 0.0098 REMARK 3 S21: -0.0918 S22: 0.0120 S23: -0.0158 REMARK 3 S31: 0.0512 S32: -0.0259 S33: 0.0031 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 5VXD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 24-MAY-17. REMARK 100 THE DEPOSITION ID IS D_1000228020. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-OCT-14 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 : APS REMARK 200 BEAMLINE : 23-ID-B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.03317 REMARK 200 MONOCHROMATOR : SI 111 CHANNEL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 300 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 V705 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 V705, HKL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 52682 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.960 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 (%) : 99.9 REMARK 200 DATA REDUNDANCY : 4.000 REMARK 200 R MERGE (I) : 0.10100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.97 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.99 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 4.00 REMARK 200 R MERGE FOR SHELL (I) : 0.71400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: REFMAC 5.8.0158 REMARK 200 STARTING MODEL: 4KU3 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.89 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.45 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 16% PEG 8000, 105 MM POTASSIUM REMARK 280 PHOSPHATE DIBASIC, 100 MM SODIUM CITRATE PH 4.2, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 292K 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 41.19650 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 51.78100 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 42.99400 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 51.78100 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 41.19650 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 42.99400 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 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5230 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25380 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -11.0 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 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 2 REMARK 465 SER A 3 REMARK 465 SER A 4 REMARK 465 HIS A 5 REMARK 465 HIS A 6 REMARK 465 HIS A 7 REMARK 465 HIS A 8 REMARK 465 HIS A 9 REMARK 465 HIS A 10 REMARK 465 SER A 11 REMARK 465 SER A 12 REMARK 465 GLY A 13 REMARK 465 MET B 1 REMARK 465 GLY B 2 REMARK 465 SER B 3 REMARK 465 SER B 4 REMARK 465 HIS B 5 REMARK 465 HIS B 6 REMARK 465 HIS B 7 REMARK 465 HIS B 8 REMARK 465 HIS B 9 REMARK 465 HIS B 10 REMARK 465 SER B 11 REMARK 465 SER B 12 REMARK 465 GLY B 13 REMARK 465 LEU B 14 REMARK 465 VAL B 15 REMARK 465 PRO B 16 REMARK 465 ARG B 17 REMARK 465 GLY B 18 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 GLU A 178 CB GLU A 178 CG 0.185 REMARK 500 GLU A 178 CG GLU A 178 CD 0.171 REMARK 500 GLU A 178 CD GLU A 178 OE1 0.070 REMARK 500 GLU A 178 CD GLU A 178 OE2 0.074 REMARK 500 ARG A 333 CZ ARG A 333 NH2 0.106 REMARK 500 SER A 347 CB SER A 347 OG -0.131 REMARK 500 GLU B 44 CD GLU B 44 OE1 0.088 REMARK 500 GLU B 216 CD GLU B 216 OE1 0.069 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 55 NE - CZ - NH1 ANGL. DEV. = 4.6 DEGREES REMARK 500 ARG A 113 NE - CZ - NH1 ANGL. DEV. = -3.2 DEGREES REMARK 500 ASP A 132 CB - CG - OD1 ANGL. DEV. = 6.5 DEGREES REMARK 500 ARG A 155 NE - CZ - NH2 ANGL. DEV. = -3.8 DEGREES REMARK 500 ASP A 163 CB - CG - OD1 ANGL. DEV. = 6.1 DEGREES REMARK 500 GLU A 178 OE1 - CD - OE2 ANGL. DEV. = -8.2 DEGREES REMARK 500 ARG A 230 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 ARG A 240 NE - CZ - NH1 ANGL. DEV. = 4.4 DEGREES REMARK 500 ASP A 302 CB - CG - OD1 ANGL. DEV. = 7.8 DEGREES REMARK 500 ASP A 302 CB - CG - OD2 ANGL. DEV. = -9.2 DEGREES REMARK 500 ARG B 72 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 ARG B 90 NE - CZ - NH1 ANGL. DEV. = 4.8 DEGREES REMARK 500 ARG B 113 NE - CZ - NH1 ANGL. DEV. = 3.9 DEGREES REMARK 500 ARG B 113 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 ASP B 151 CB - CG - OD2 ANGL. DEV. = -6.4 DEGREES REMARK 500 ARG B 159 NE - CZ - NH1 ANGL. DEV. = 4.5 DEGREES REMARK 500 ARG B 159 NE - CZ - NH2 ANGL. DEV. = -4.3 DEGREES REMARK 500 ARG B 214 NE - CZ - NH1 ANGL. DEV. = 4.5 DEGREES REMARK 500 ARG B 223 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES REMARK 500 ARG B 223 NE - CZ - NH2 ANGL. DEV. = -4.0 DEGREES REMARK 500 ARG B 230 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 ASP B 249 CB - CG - OD1 ANGL. DEV. = 7.0 DEGREES REMARK 500 LEU B 253 CA - CB - CG ANGL. DEV. = 21.5 DEGREES REMARK 500 ARG B 333 NE - CZ - NH1 ANGL. DEV. = -3.4 DEGREES REMARK 500 MET B 353 CG - SD - CE ANGL. DEV. = -9.9 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 SER A 19 -9.62 -58.96 REMARK 500 HIS A 20 19.26 58.39 REMARK 500 ASN A 141 44.62 -155.45 REMARK 500 ALA A 142 -131.61 47.81 REMARK 500 ALA A 142 -133.43 47.81 REMARK 500 SER A 288 148.99 178.48 REMARK 500 ARG B 55 6.03 -57.66 REMARK 500 LEU B 56 26.95 -143.30 REMARK 500 ASP B 76 155.63 -47.16 REMARK 500 ASN B 141 46.35 -167.26 REMARK 500 ALA B 142 -136.95 47.13 REMARK 500 ALA B 142 -135.56 47.13 REMARK 500 GLU B 277 -33.14 92.37 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 GOL A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 401 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5VXI RELATED DB: PDB REMARK 900 RELATED ID: 5VXF RELATED DB: PDB REMARK 900 RELATED ID: 5VXH RELATED DB: PDB REMARK 900 RELATED ID: 5VXE RELATED DB: PDB REMARK 900 RELATED ID: 5VXG RELATED DB: PDB DBREF 5VXD A 21 358 UNP Q8PDX2 Q8PDX2_XANCP 1 338 DBREF 5VXD B 21 358 UNP Q8PDX2 Q8PDX2_XANCP 1 338 SEQADV 5VXD MET A 1 UNP Q8PDX2 INITIATING METHIONINE SEQADV 5VXD GLY A 2 UNP Q8PDX2 EXPRESSION TAG SEQADV 5VXD SER A 3 UNP Q8PDX2 EXPRESSION TAG SEQADV 5VXD SER A 4 UNP Q8PDX2 EXPRESSION TAG SEQADV 5VXD HIS A 5 UNP Q8PDX2 EXPRESSION TAG SEQADV 5VXD HIS A 6 UNP Q8PDX2 EXPRESSION TAG SEQADV 5VXD HIS A 7 UNP Q8PDX2 EXPRESSION TAG SEQADV 5VXD HIS A 8 UNP Q8PDX2 EXPRESSION TAG SEQADV 5VXD HIS A 9 UNP Q8PDX2 EXPRESSION TAG SEQADV 5VXD HIS A 10 UNP Q8PDX2 EXPRESSION TAG SEQADV 5VXD SER A 11 UNP Q8PDX2 EXPRESSION TAG SEQADV 5VXD SER A 12 UNP Q8PDX2 EXPRESSION TAG SEQADV 5VXD GLY A 13 UNP Q8PDX2 EXPRESSION TAG SEQADV 5VXD LEU A 14 UNP Q8PDX2 EXPRESSION TAG SEQADV 5VXD VAL A 15 UNP Q8PDX2 EXPRESSION TAG SEQADV 5VXD PRO A 16 UNP Q8PDX2 EXPRESSION TAG SEQADV 5VXD ARG A 17 UNP Q8PDX2 EXPRESSION TAG SEQADV 5VXD GLY A 18 UNP Q8PDX2 EXPRESSION TAG SEQADV 5VXD SER A 19 UNP Q8PDX2 EXPRESSION TAG SEQADV 5VXD HIS A 20 UNP Q8PDX2 EXPRESSION TAG SEQADV 5VXD ALA A 117 UNP Q8PDX2 GLU 97 ENGINEERED MUTATION SEQADV 5VXD MET B 1 UNP Q8PDX2 INITIATING METHIONINE SEQADV 5VXD GLY B 2 UNP Q8PDX2 EXPRESSION TAG SEQADV 5VXD SER B 3 UNP Q8PDX2 EXPRESSION TAG SEQADV 5VXD SER B 4 UNP Q8PDX2 EXPRESSION TAG SEQADV 5VXD HIS B 5 UNP Q8PDX2 EXPRESSION TAG SEQADV 5VXD HIS B 6 UNP Q8PDX2 EXPRESSION TAG SEQADV 5VXD HIS B 7 UNP Q8PDX2 EXPRESSION TAG SEQADV 5VXD HIS B 8 UNP Q8PDX2 EXPRESSION TAG SEQADV 5VXD HIS B 9 UNP Q8PDX2 EXPRESSION TAG SEQADV 5VXD HIS B 10 UNP Q8PDX2 EXPRESSION TAG SEQADV 5VXD SER B 11 UNP Q8PDX2 EXPRESSION TAG SEQADV 5VXD SER B 12 UNP Q8PDX2 EXPRESSION TAG SEQADV 5VXD GLY B 13 UNP Q8PDX2 EXPRESSION TAG SEQADV 5VXD LEU B 14 UNP Q8PDX2 EXPRESSION TAG SEQADV 5VXD VAL B 15 UNP Q8PDX2 EXPRESSION TAG SEQADV 5VXD PRO B 16 UNP Q8PDX2 EXPRESSION TAG SEQADV 5VXD ARG B 17 UNP Q8PDX2 EXPRESSION TAG SEQADV 5VXD GLY B 18 UNP Q8PDX2 EXPRESSION TAG SEQADV 5VXD SER B 19 UNP Q8PDX2 EXPRESSION TAG SEQADV 5VXD HIS B 20 UNP Q8PDX2 EXPRESSION TAG SEQADV 5VXD ALA B 117 UNP Q8PDX2 GLU 97 ENGINEERED MUTATION SEQRES 1 A 358 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 358 LEU VAL PRO ARG GLY SER HIS MET LEU PHE GLN ASN VAL SEQRES 3 A 358 SER ILE ALA GLY LEU ALA HIS ILE ASP ALA PRO HIS THR SEQRES 4 A 358 LEU THR SER LYS GLU ILE ASN GLU ARG LEU GLN PRO THR SEQRES 5 A 358 TYR ASP ARG LEU GLY ILE LYS THR ASP VAL LEU GLY ASP SEQRES 6 A 358 VAL ALA GLY ILE HIS ALA ARG ARG LEU TRP ASP GLN ASP SEQRES 7 A 358 VAL GLN ALA SER ASP ALA ALA THR GLN ALA ALA ARG LYS SEQRES 8 A 358 ALA LEU ILE ASP ALA ASN ILE GLY ILE GLU LYS ILE GLY SEQRES 9 A 358 LEU LEU ILE ASN THR SER VAL SER ARG ASP TYR LEU ALA SEQRES 10 A 358 PRO SER THR ALA SER ILE VAL SER GLY ASN LEU GLY VAL SEQRES 11 A 358 SER ASP HIS CYS MET THR PHE ASP VAL ALA ASN ALA CYS SEQRES 12 A 358 LEU ALA PHE ILE ASN GLY MET ASP ILE ALA ALA ARG MET SEQRES 13 A 358 LEU GLU ARG GLY GLU ILE ASP TYR ALA LEU VAL VAL ASP SEQRES 14 A 358 GLY GLU THR ALA ASN LEU VAL TYR GLU LYS THR LEU GLU SEQRES 15 A 358 ARG MET THR SER PRO ASP VAL THR GLU GLU GLU PHE ARG SEQRES 16 A 358 ASN GLU LEU ALA ALA LEU THR LEU GLY CYS GLY ALA ALA SEQRES 17 A 358 ALA MET VAL MET ALA ARG SER GLU LEU VAL PRO ASP ALA SEQRES 18 A 358 PRO ARG TYR LYS GLY GLY VAL THR ARG SER ALA THR GLU SEQRES 19 A 358 TRP ASN LYS LEU CYS ARG GLY ASN LEU ASP ARG MET VAL SEQRES 20 A 358 THR ASP THR ARG LEU LEU LEU ILE GLU GLY ILE LYS LEU SEQRES 21 A 358 ALA GLN LYS THR PHE VAL ALA ALA LYS GLN VAL LEU GLY SEQRES 22 A 358 TRP ALA VAL GLU GLU LEU ASP GLN PHE VAL ILE HIS GLN SEQRES 23 A 358 VAL SER ARG PRO HIS THR ALA ALA PHE VAL LYS SER PHE SEQRES 24 A 358 GLY ILE ASP PRO ALA LYS VAL MET THR ILE PHE GLY GLU SEQRES 25 A 358 HIS GLY ASN ILE GLY PRO ALA SER VAL PRO ILE VAL LEU SEQRES 26 A 358 SER LYS LEU LYS GLU LEU GLY ARG LEU LYS LYS GLY ASP SEQRES 27 A 358 ARG ILE ALA LEU LEU GLY ILE GLY SER GLY LEU ASN CYS SEQRES 28 A 358 SER MET ALA GLU VAL VAL TRP SEQRES 1 B 358 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 B 358 LEU VAL PRO ARG GLY SER HIS MET LEU PHE GLN ASN VAL SEQRES 3 B 358 SER ILE ALA GLY LEU ALA HIS ILE ASP ALA PRO HIS THR SEQRES 4 B 358 LEU THR SER LYS GLU ILE ASN GLU ARG LEU GLN PRO THR SEQRES 5 B 358 TYR ASP ARG LEU GLY ILE LYS THR ASP VAL LEU GLY ASP SEQRES 6 B 358 VAL ALA GLY ILE HIS ALA ARG ARG LEU TRP ASP GLN ASP SEQRES 7 B 358 VAL GLN ALA SER ASP ALA ALA THR GLN ALA ALA ARG LYS SEQRES 8 B 358 ALA LEU ILE ASP ALA ASN ILE GLY ILE GLU LYS ILE GLY SEQRES 9 B 358 LEU LEU ILE ASN THR SER VAL SER ARG ASP TYR LEU ALA SEQRES 10 B 358 PRO SER THR ALA SER ILE VAL SER GLY ASN LEU GLY VAL SEQRES 11 B 358 SER ASP HIS CYS MET THR PHE ASP VAL ALA ASN ALA CYS SEQRES 12 B 358 LEU ALA PHE ILE ASN GLY MET ASP ILE ALA ALA ARG MET SEQRES 13 B 358 LEU GLU ARG GLY GLU ILE ASP TYR ALA LEU VAL VAL ASP SEQRES 14 B 358 GLY GLU THR ALA ASN LEU VAL TYR GLU LYS THR LEU GLU SEQRES 15 B 358 ARG MET THR SER PRO ASP VAL THR GLU GLU GLU PHE ARG SEQRES 16 B 358 ASN GLU LEU ALA ALA LEU THR LEU GLY CYS GLY ALA ALA SEQRES 17 B 358 ALA MET VAL MET ALA ARG SER GLU LEU VAL PRO ASP ALA SEQRES 18 B 358 PRO ARG TYR LYS GLY GLY VAL THR ARG SER ALA THR GLU SEQRES 19 B 358 TRP ASN LYS LEU CYS ARG GLY ASN LEU ASP ARG MET VAL SEQRES 20 B 358 THR ASP THR ARG LEU LEU LEU ILE GLU GLY ILE LYS LEU SEQRES 21 B 358 ALA GLN LYS THR PHE VAL ALA ALA LYS GLN VAL LEU GLY SEQRES 22 B 358 TRP ALA VAL GLU GLU LEU ASP GLN PHE VAL ILE HIS GLN SEQRES 23 B 358 VAL SER ARG PRO HIS THR ALA ALA PHE VAL LYS SER PHE SEQRES 24 B 358 GLY ILE ASP PRO ALA LYS VAL MET THR ILE PHE GLY GLU SEQRES 25 B 358 HIS GLY ASN ILE GLY PRO ALA SER VAL PRO ILE VAL LEU SEQRES 26 B 358 SER LYS LEU LYS GLU LEU GLY ARG LEU LYS LYS GLY ASP SEQRES 27 B 358 ARG ILE ALA LEU LEU GLY ILE GLY SER GLY LEU ASN CYS SEQRES 28 B 358 SER MET ALA GLU VAL VAL TRP HET GOL A 401 6 HET GOL B 401 6 HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 GOL 2(C3 H8 O3) FORMUL 5 HOH *178(H2 O) HELIX 1 AA1 SER A 42 GLY A 57 1 16 HELIX 2 AA2 GLN A 80 ALA A 96 1 17 HELIX 3 AA3 GLY A 99 ILE A 103 5 5 HELIX 4 AA4 SER A 119 GLY A 129 1 11 HELIX 5 AA5 ASN A 141 CYS A 143 5 3 HELIX 6 AA6 LEU A 144 GLY A 160 1 17 HELIX 7 AA7 ALA A 173 THR A 185 1 13 HELIX 8 AA8 THR A 190 LEU A 198 1 9 HELIX 9 AA9 ALA A 199 LEU A 203 5 5 HELIX 10 AB1 GLU A 216 VAL A 218 5 3 HELIX 11 AB2 THR A 233 ASN A 236 5 4 HELIX 12 AB3 ASP A 249 GLY A 273 1 25 HELIX 13 AB4 ALA A 275 LEU A 279 5 5 HELIX 14 AB5 SER A 288 GLY A 300 1 13 HELIX 15 AB6 ASP A 302 VAL A 306 5 5 HELIX 16 AB7 ILE A 309 GLY A 314 1 6 HELIX 17 AB8 ILE A 316 PRO A 318 5 3 HELIX 18 AB9 ALA A 319 LEU A 331 1 13 HELIX 19 AC1 SER B 42 ARG B 55 1 14 HELIX 20 AC2 GLN B 80 ALA B 96 1 17 HELIX 21 AC3 GLY B 99 ILE B 103 5 5 HELIX 22 AC4 SER B 119 GLY B 129 1 11 HELIX 23 AC5 ASN B 141 CYS B 143 5 3 HELIX 24 AC6 LEU B 144 ARG B 159 1 16 HELIX 25 AC7 ALA B 173 MET B 184 1 12 HELIX 26 AC8 GLU B 191 LEU B 198 1 8 HELIX 27 AC9 ALA B 199 LEU B 203 5 5 HELIX 28 AD1 GLU B 216 VAL B 218 5 3 HELIX 29 AD2 THR B 233 ASN B 236 5 4 HELIX 30 AD3 ASP B 249 GLY B 273 1 25 HELIX 31 AD4 SER B 288 GLY B 300 1 13 HELIX 32 AD5 ASP B 302 VAL B 306 5 5 HELIX 33 AD6 ILE B 309 GLY B 314 1 6 HELIX 34 AD7 ILE B 316 PRO B 318 5 3 HELIX 35 AD8 ALA B 319 LEU B 331 1 13 SHEET 1 AA110 VAL A 26 ASP A 35 0 SHEET 2 AA110 GLY A 206 ARG A 214 -1 O ALA A 213 N SER A 27 SHEET 3 AA110 TYR A 164 GLU A 171 -1 N ALA A 165 O MET A 212 SHEET 4 AA110 LEU A 105 ASN A 108 1 N ILE A 107 O VAL A 168 SHEET 5 AA110 MET A 135 ALA A 140 1 O MET A 135 N LEU A 106 SHEET 6 AA110 MET B 135 ALA B 140 -1 O ASP B 138 N ALA A 140 SHEET 7 AA110 LEU B 105 ASN B 108 1 N ASN B 108 O VAL B 139 SHEET 8 AA110 TYR B 164 GLU B 171 1 O LEU B 166 N LEU B 105 SHEET 9 AA110 GLY B 206 ARG B 214 -1 O MET B 210 N VAL B 167 SHEET 10 AA110 VAL B 26 ASP B 35 -1 N SER B 27 O ALA B 213 SHEET 1 AA2 2 HIS A 38 THR A 41 0 SHEET 2 AA2 2 ALA A 71 LEU A 74 -1 O ARG A 72 N LEU A 40 SHEET 1 AA3 4 ARG A 223 SER A 231 0 SHEET 2 AA3 4 ASN A 350 VAL A 357 -1 O VAL A 357 N ARG A 223 SHEET 3 AA3 4 ARG A 339 GLY A 346 -1 N LEU A 342 O ALA A 354 SHEET 4 AA3 4 GLN A 281 ILE A 284 1 N VAL A 283 O LEU A 343 SHEET 1 AA4 2 CYS A 239 ASN A 242 0 SHEET 2 AA4 2 ARG A 245 THR A 248 -1 O ARG A 245 N ASN A 242 SHEET 1 AA5 2 HIS B 38 THR B 41 0 SHEET 2 AA5 2 ALA B 71 LEU B 74 -1 O LEU B 74 N HIS B 38 SHEET 1 AA6 4 ARG B 223 SER B 231 0 SHEET 2 AA6 4 ASN B 350 VAL B 357 -1 O GLU B 355 N LYS B 225 SHEET 3 AA6 4 ARG B 339 GLY B 346 -1 N LEU B 342 O ALA B 354 SHEET 4 AA6 4 GLN B 281 ILE B 284 1 N VAL B 283 O ALA B 341 SHEET 1 AA7 2 CYS B 239 ASN B 242 0 SHEET 2 AA7 2 ARG B 245 THR B 248 -1 O ARG B 245 N ASN B 242 CISPEP 1 ALA A 117 PRO A 118 0 0.49 CISPEP 2 GLY A 348 LEU A 349 0 -13.59 CISPEP 3 ALA B 117 PRO B 118 0 -8.14 CISPEP 4 GLY B 348 LEU B 349 0 -10.80 SITE 1 AC1 7 MET A 21 PHE A 23 ASP A 151 GLY A 226 SITE 2 AC1 7 GLY A 227 ARG B 159 GLU B 161 SITE 1 AC2 7 MET A 135 ASN B 148 ASP B 151 VAL B 228 SITE 2 AC2 7 THR B 229 SER B 352 MET B 353 CRYST1 82.393 85.988 103.562 90.00 90.00 90.00 P 21 21 21 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 0.012137 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011630 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009656 0.00000