HEADER ISOMERASE 29-JUN-03 1PVW TITLE 3,4-DIHYDROXY-2-BUTANONE 4-PHOSPHATE SYNTHASE FROM M. TITLE 2 JANNASCHII COMPND MOL_ID: 1; COMPND 2 MOLECULE: 3,4-DIHYDROXY-2-BUTANONE 4-PHOSPHATE SYNTHASE; COMPND 3 CHAIN: A, B, C; COMPND 4 SYNONYM: DHBP SYNTHASE; COMPND 5 EC: 5.4.99.-; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: METHANOCALDOCOCCUS JANNASCHII; SOURCE 3 ORGANISM_TAXID: 2190; SOURCE 4 GENE: MJ0055; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: XL1; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PNCO-MJ KEYWDS RIBOFLAVIN BIOSYNTHESIS, ISOMERASE EXPDTA X-RAY DIFFRACTION AUTHOR S.STEINBACHER,S.SCHIFFMANN,G.RICHTER,R.HUBER,A.BACHER, AUTHOR 2 M.FISCHER REVDAT 2 24-FEB-09 1PVW 1 VERSN REVDAT 1 04-NOV-03 1PVW 0 JRNL AUTH S.STEINBACHER,S.SCHIFFMANN,G.RICHTER,R.HUBER, JRNL AUTH 2 A.BACHER,M.FISCHER JRNL TITL STRUCTURE OF 3,4-DIHYDROXY-2-BUTANONE 4-PHOSPHATE JRNL TITL 2 SYNTHASE FROM METHANOCOCCUS JANNASCHII IN COMPLEX JRNL TITL 3 WITH DIVALENT METAL IONS AND THE SUBSTRATE JRNL TITL 4 RIBULOSE 5-PHOSPHATE: IMPLICATIONS FOR THE JRNL TITL 5 CATALYTIC MECHANISM JRNL REF J.BIOL.CHEM. V. 278 42256 2003 JRNL REFN ISSN 0021-9258 JRNL PMID 12904291 JRNL DOI 10.1074/JBC.M307301200 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH M.FISCHER,W.ROMISCH,S.SCHIFFMANN,M.KELLY, REMARK 1 AUTH 2 H.OSCHKINAT,S.STEINBACHER,R.HUBER,W.EISENREICH, REMARK 1 AUTH 3 G.RICHTER,A.BACHER REMARK 1 TITL BIOSYNTHESIS OF RIBOFLAVIN IN ARCHAEA STUDIES ON REMARK 1 TITL 2 THE MECHANISM OF REMARK 1 TITL 3 3,4-DIHYDROXY-2-BUTANONE-4-PHOSPHATE SYNTHASE OF REMARK 1 TITL 4 METHANOCOCCUS JANNASCHII REMARK 1 REF J.BIOL.CHEM. V. 277 41410 2002 REMARK 1 REFN ISSN 0021-9258 REMARK 1 DOI 10.1074/JBC.M206863200 REMARK 2 REMARK 2 RESOLUTION. 2.45 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) : 2.45 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 97.8 REMARK 3 NUMBER OF REFLECTIONS : 24915 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) : 0.229 REMARK 3 FREE R VALUE : 0.289 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 1210 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5217 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 8 REMARK 3 SOLVENT ATOMS : 6 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : 1.24 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL 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 : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL 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 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1PVW COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 03-JUL-03. REMARK 100 THE RCSB ID CODE IS RCSB019616. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-JAN-01 REMARK 200 TEMPERATURE (KELVIN) : 287 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RU200 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.548 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : OSMIC REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24943 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.450 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.8 REMARK 200 DATA REDUNDANCY : 4.700 REMARK 200 R MERGE (I) : 0.06500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 21.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.45 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.54 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.3 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.29500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MIR REMARK 200 SOFTWARE USED: SHELXS REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.66 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.32 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG1000, PH 7.5, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 66.57600 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 66.57600 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 33.15750 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 77.10250 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 33.15750 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 77.10250 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 66.57600 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 33.15750 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 77.10250 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 66.57600 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 33.15750 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 77.10250 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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: DIMER; THE ASYMMERIC UNIT CONTAINS A DIMER, REPRESENTING REMARK 300 THE BIOLOGICAL ASSEMBLY AND A MONOMER FRO WHICH THE SECOND REMARK 300 MONOMER IS GENERATED BY A TWOFOLD AXIS 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: 5580 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17620 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -90.0 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: C 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 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 66.57600 REMARK 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 19520 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 50120 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -288.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 66.57600 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 LEU A 221 REMARK 465 ASP A 222 REMARK 465 LYS A 223 REMARK 465 TYR A 224 REMARK 465 LEU A 225 REMARK 465 LYS A 226 REMARK 465 ASP A 227 REMARK 465 MET B 1 REMARK 465 LEU B 221 REMARK 465 ASP B 222 REMARK 465 LYS B 223 REMARK 465 TYR B 224 REMARK 465 LEU B 225 REMARK 465 LYS B 226 REMARK 465 ASP B 227 REMARK 465 MET C 1 REMARK 465 LEU C 221 REMARK 465 ASP C 222 REMARK 465 LYS C 223 REMARK 465 TYR C 224 REMARK 465 LEU C 225 REMARK 465 LYS C 226 REMARK 465 ASP C 227 REMARK 475 REMARK 475 ZERO OCCUPANCY RESIDUES REMARK 475 THE FOLLOWING RESIDUES WERE MODELED WITH ZERO OCCUPANCY. REMARK 475 THE LOCATION AND PROPERTIES OF THESE RESIDUES MAY NOT REMARK 475 BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 475 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE) REMARK 475 M RES C SSEQI REMARK 475 HIS A 107 REMARK 475 THR A 110 REMARK 475 PHE A 111 REMARK 475 ARG A 143 REMARK 475 GLU B 24 REMARK 475 ARG B 25 REMARK 475 TYR B 89 REMARK 475 PRO B 90 REMARK 475 ASN B 91 REMARK 475 ASP B 92 REMARK 475 ILE B 93 REMARK 475 PRO B 94 REMARK 475 TYR B 95 REMARK 475 ASP B 96 REMARK 475 GLU B 97 REMARK 475 ILE C 93 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 ASN A 2 CG OD1 ND2 REMARK 480 LYS A 13 NZ REMARK 480 LYS A 83 CD CE NZ REMARK 480 ARG A 86 CD NE CZ NH1 NH2 REMARK 480 LYS A 109 CB CG CD CE NZ REMARK 480 HIS A 147 CG ND1 CD2 CE1 NE2 REMARK 480 ASN B 2 CG OD1 ND2 REMARK 480 GLU B 9 CG CD OE1 OE2 REMARK 480 LYS B 13 NZ REMARK 480 TYR B 20 CG CD1 CD2 CE1 CE2 CZ OH REMARK 480 SER B 22 CB OG REMARK 480 GLU B 26 CB CG CD OE1 OE2 REMARK 480 GLY B 27 CA REMARK 480 GLU B 28 CD OE1 OE2 REMARK 480 LYS B 65 CD CE NZ REMARK 480 LYS B 83 CD CE NZ REMARK 480 ARG B 86 CD NE CZ NH1 NH2 REMARK 480 ARG B 161 CB CG CD NE CZ NH1 NH2 REMARK 480 LYS B 196 CG CD CE NZ REMARK 480 ARG B 201 CG CD NE CZ NH1 NH2 REMARK 480 LYS C 13 NZ REMARK 480 GLU C 24 CB CG CD OE1 OE2 REMARK 480 GLU C 26 CB CG CD OE1 OE2 REMARK 480 GLU C 28 CG CD OE1 OE2 REMARK 480 LYS C 83 CD CE NZ REMARK 480 ARG C 86 CD NE CZ NH1 NH2 REMARK 480 GLU C 87 CG CD OE1 OE2 REMARK 480 PRO C 94 CB CG CD REMARK 480 TYR C 95 CB CG CD1 CD2 CE1 CE2 CZ REMARK 480 TYR C 95 OH REMARK 480 LYS C 98 CB CG CD CE NZ REMARK 480 LYS C 200 CB CG CD CE NZ 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 ARG A 25 -123.14 -101.99 REMARK 500 SER A 102 -157.83 -129.71 REMARK 500 PHE A 111 -80.94 -80.00 REMARK 500 ARG A 143 -160.94 -128.27 REMARK 500 SER A 144 138.28 174.88 REMARK 500 LEU A 157 -129.89 52.41 REMARK 500 GLN A 162 61.20 -112.46 REMARK 500 GLU B 24 40.33 -94.59 REMARK 500 ARG B 25 -84.45 -161.99 REMARK 500 ALA B 50 -66.50 -106.31 REMARK 500 PRO B 90 59.49 -67.17 REMARK 500 ASP B 92 56.54 -109.72 REMARK 500 TYR B 95 -91.89 -121.45 REMARK 500 ASP B 96 -108.81 -84.91 REMARK 500 SER B 102 -147.99 -124.51 REMARK 500 PHE B 111 -83.95 -96.50 REMARK 500 ARG B 134 49.34 -91.14 REMARK 500 LEU B 157 -134.58 46.51 REMARK 500 VAL B 158 -8.53 -57.07 REMARK 500 GLN B 162 61.57 -113.04 REMARK 500 PRO B 179 57.50 -63.18 REMARK 500 ASP C 21 -88.80 -64.68 REMARK 500 ARG C 25 -113.76 -104.17 REMARK 500 ALA C 50 -63.60 -106.60 REMARK 500 ILE C 93 106.26 -172.96 REMARK 500 PRO C 94 -75.04 -52.83 REMARK 500 ASP C 96 -159.88 -153.34 REMARK 500 GLU C 97 -58.86 -121.65 REMARK 500 SER C 102 -159.50 -130.32 REMARK 500 PHE C 111 -76.40 -88.44 REMARK 500 ARG C 134 56.76 -92.77 REMARK 500 LEU C 157 -123.26 39.50 REMARK 500 VAL C 158 3.04 -59.86 REMARK 500 GLN C 162 47.89 -107.68 REMARK 500 PRO C 179 60.31 -62.76 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 401 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 PO4 A 409 O1 REMARK 620 2 GLU A 26 OE1 93.1 REMARK 620 3 HIS A 164 ND1 110.4 102.3 REMARK 620 4 HOH A 403 O 165.4 83.9 84.2 REMARK 620 5 HOH A 404 O 86.3 106.6 145.7 80.8 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 402 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 408 O REMARK 620 2 HOH A 405 O 80.7 REMARK 620 3 HOH A 404 O 91.8 172.3 REMARK 620 4 HOH B 407 O 91.1 85.7 92.8 REMARK 620 5 GLU A 26 OE2 81.8 85.5 95.2 169.4 REMARK 620 6 HOH A 406 O 162.7 82.2 105.2 85.3 99.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 501 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 132 OE2 REMARK 620 2 GLU B 128 OE2 116.7 REMARK 620 3 HIS C 206 ND1 117.4 104.2 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 401 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 402 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 409 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 501 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1PVY RELATED DB: PDB REMARK 900 1PVY CONTAINS 3,4-DIHYDROXY-2-BUTANONE 4-PHOSPHATE REMARK 900 SYNTHASE(H147S) COMPLEXED WITH RIBULOSE 5-PHOSPHATE. DBREF 1PVW A 1 227 UNP Q60364 RIBB_METJA 1 227 DBREF 1PVW B 1 227 UNP Q60364 RIBB_METJA 1 227 DBREF 1PVW C 1 227 UNP Q60364 RIBB_METJA 1 227 SEQRES 1 A 227 MET ASN ASN VAL GLU LYS ALA ILE GLU ALA LEU LYS LYS SEQRES 2 A 227 GLY GLU ILE ILE LEU VAL TYR ASP SER ASP GLU ARG GLU SEQRES 3 A 227 GLY GLU THR ASP MET VAL VAL ALA SER GLN PHE ILE THR SEQRES 4 A 227 PRO GLU HIS ILE ARG ILE MET ARG LYS ASP ALA GLY GLY SEQRES 5 A 227 LEU ILE CYS THR ALA LEU HIS PRO ASP ILE CYS ASN LYS SEQRES 6 A 227 LEU GLY ILE PRO PHE MET VAL ASP ILE LEU GLU PHE ALA SEQRES 7 A 227 SER GLN LYS PHE LYS VAL LEU ARG GLU LEU TYR PRO ASN SEQRES 8 A 227 ASP ILE PRO TYR ASP GLU LYS SER SER PHE SER ILE THR SEQRES 9 A 227 ILE ASN HIS ARG LYS THR PHE THR GLY ILE THR ASP ASN SEQRES 10 A 227 ASP ARG ALA PHE THR ILE LYS LYS LEU ALA GLU LEU VAL SEQRES 11 A 227 LYS GLU GLY ARG PHE ASN ASP PHE GLY LYS GLU PHE ARG SEQRES 12 A 227 SER PRO GLY HIS VAL THR LEU LEU ARG ALA ALA GLU GLY SEQRES 13 A 227 LEU VAL LYS ASN ARG GLN GLY HIS THR GLU MET THR VAL SEQRES 14 A 227 ALA LEU ALA GLU LEU ALA ASN LEU VAL PRO ILE THR THR SEQRES 15 A 227 ILE CYS GLU MET MET GLY ASP ASP GLY ASN ALA MET SER SEQRES 16 A 227 LYS ASN GLU THR LYS ARG TYR ALA GLU LYS HIS ASN LEU SEQRES 17 A 227 ILE TYR LEU SER GLY GLU GLU ILE ILE ASN TYR TYR LEU SEQRES 18 A 227 ASP LYS TYR LEU LYS ASP SEQRES 1 B 227 MET ASN ASN VAL GLU LYS ALA ILE GLU ALA LEU LYS LYS SEQRES 2 B 227 GLY GLU ILE ILE LEU VAL TYR ASP SER ASP GLU ARG GLU SEQRES 3 B 227 GLY GLU THR ASP MET VAL VAL ALA SER GLN PHE ILE THR SEQRES 4 B 227 PRO GLU HIS ILE ARG ILE MET ARG LYS ASP ALA GLY GLY SEQRES 5 B 227 LEU ILE CYS THR ALA LEU HIS PRO ASP ILE CYS ASN LYS SEQRES 6 B 227 LEU GLY ILE PRO PHE MET VAL ASP ILE LEU GLU PHE ALA SEQRES 7 B 227 SER GLN LYS PHE LYS VAL LEU ARG GLU LEU TYR PRO ASN SEQRES 8 B 227 ASP ILE PRO TYR ASP GLU LYS SER SER PHE SER ILE THR SEQRES 9 B 227 ILE ASN HIS ARG LYS THR PHE THR GLY ILE THR ASP ASN SEQRES 10 B 227 ASP ARG ALA PHE THR ILE LYS LYS LEU ALA GLU LEU VAL SEQRES 11 B 227 LYS GLU GLY ARG PHE ASN ASP PHE GLY LYS GLU PHE ARG SEQRES 12 B 227 SER PRO GLY HIS VAL THR LEU LEU ARG ALA ALA GLU GLY SEQRES 13 B 227 LEU VAL LYS ASN ARG GLN GLY HIS THR GLU MET THR VAL SEQRES 14 B 227 ALA LEU ALA GLU LEU ALA ASN LEU VAL PRO ILE THR THR SEQRES 15 B 227 ILE CYS GLU MET MET GLY ASP ASP GLY ASN ALA MET SER SEQRES 16 B 227 LYS ASN GLU THR LYS ARG TYR ALA GLU LYS HIS ASN LEU SEQRES 17 B 227 ILE TYR LEU SER GLY GLU GLU ILE ILE ASN TYR TYR LEU SEQRES 18 B 227 ASP LYS TYR LEU LYS ASP SEQRES 1 C 227 MET ASN ASN VAL GLU LYS ALA ILE GLU ALA LEU LYS LYS SEQRES 2 C 227 GLY GLU ILE ILE LEU VAL TYR ASP SER ASP GLU ARG GLU SEQRES 3 C 227 GLY GLU THR ASP MET VAL VAL ALA SER GLN PHE ILE THR SEQRES 4 C 227 PRO GLU HIS ILE ARG ILE MET ARG LYS ASP ALA GLY GLY SEQRES 5 C 227 LEU ILE CYS THR ALA LEU HIS PRO ASP ILE CYS ASN LYS SEQRES 6 C 227 LEU GLY ILE PRO PHE MET VAL ASP ILE LEU GLU PHE ALA SEQRES 7 C 227 SER GLN LYS PHE LYS VAL LEU ARG GLU LEU TYR PRO ASN SEQRES 8 C 227 ASP ILE PRO TYR ASP GLU LYS SER SER PHE SER ILE THR SEQRES 9 C 227 ILE ASN HIS ARG LYS THR PHE THR GLY ILE THR ASP ASN SEQRES 10 C 227 ASP ARG ALA PHE THR ILE LYS LYS LEU ALA GLU LEU VAL SEQRES 11 C 227 LYS GLU GLY ARG PHE ASN ASP PHE GLY LYS GLU PHE ARG SEQRES 12 C 227 SER PRO GLY HIS VAL THR LEU LEU ARG ALA ALA GLU GLY SEQRES 13 C 227 LEU VAL LYS ASN ARG GLN GLY HIS THR GLU MET THR VAL SEQRES 14 C 227 ALA LEU ALA GLU LEU ALA ASN LEU VAL PRO ILE THR THR SEQRES 15 C 227 ILE CYS GLU MET MET GLY ASP ASP GLY ASN ALA MET SER SEQRES 16 C 227 LYS ASN GLU THR LYS ARG TYR ALA GLU LYS HIS ASN LEU SEQRES 17 C 227 ILE TYR LEU SER GLY GLU GLU ILE ILE ASN TYR TYR LEU SEQRES 18 C 227 ASP LYS TYR LEU LYS ASP HET ZN A 401 1 HET CA A 402 1 HET PO4 A 409 5 HET ZN B 501 1 HETNAM ZN ZINC ION HETNAM CA CALCIUM ION HETNAM PO4 PHOSPHATE ION FORMUL 4 ZN 2(ZN 2+) FORMUL 5 CA CA 2+ FORMUL 6 PO4 O4 P 3- FORMUL 8 HOH *6(H2 O) HELIX 1 1 ASN A 2 LYS A 13 1 12 HELIX 2 2 GLN A 36 ILE A 38 5 3 HELIX 3 3 THR A 39 ALA A 50 1 12 HELIX 4 4 HIS A 59 GLY A 67 1 9 HELIX 5 5 PHE A 70 SER A 79 1 10 HELIX 6 6 GLN A 80 LYS A 81 5 2 HELIX 7 7 PHE A 82 PHE A 82 5 1 HELIX 8 8 LYS A 83 LEU A 88 1 6 HELIX 9 9 THR A 115 GLU A 132 1 18 HELIX 10 10 ARG A 134 ASN A 136 5 3 HELIX 11 11 ASP A 137 GLU A 141 1 5 HELIX 12 12 GLY A 156 ASN A 160 5 5 HELIX 13 13 GLY A 163 ALA A 175 1 13 HELIX 14 14 SER A 195 LYS A 205 1 11 HELIX 15 15 GLY A 213 TYR A 220 1 8 HELIX 16 16 ASN B 2 LYS B 13 1 12 HELIX 17 17 GLN B 36 ILE B 38 5 3 HELIX 18 18 THR B 39 ALA B 50 1 12 HELIX 19 19 HIS B 59 GLY B 67 1 9 HELIX 20 20 PHE B 70 SER B 79 1 10 HELIX 21 21 GLN B 80 LYS B 81 5 2 HELIX 22 22 PHE B 82 TYR B 89 5 8 HELIX 23 23 THR B 115 GLU B 132 1 18 HELIX 24 24 ARG B 134 ASN B 136 5 3 HELIX 25 25 ASP B 137 GLU B 141 1 5 HELIX 26 26 GLY B 156 ASN B 160 5 5 HELIX 27 27 GLY B 163 ALA B 175 1 13 HELIX 28 28 SER B 195 HIS B 206 1 12 HELIX 29 29 GLY B 213 TYR B 220 1 8 HELIX 30 30 ASN C 2 LYS C 13 1 12 HELIX 31 31 GLN C 36 ILE C 38 5 3 HELIX 32 32 THR C 39 ALA C 50 1 12 HELIX 33 33 HIS C 59 GLY C 67 1 9 HELIX 34 34 PHE C 70 SER C 79 1 10 HELIX 35 35 GLN C 80 LYS C 81 5 2 HELIX 36 36 PHE C 82 PHE C 82 5 1 HELIX 37 37 LYS C 83 LEU C 88 1 6 HELIX 38 38 THR C 115 GLU C 132 1 18 HELIX 39 39 ARG C 134 ASN C 136 5 3 HELIX 40 40 ASP C 137 GLU C 141 1 5 HELIX 41 41 GLY C 156 ASN C 160 5 5 HELIX 42 42 GLY C 163 ALA C 175 1 13 HELIX 43 43 SER C 195 HIS C 206 1 12 HELIX 44 44 GLY C 213 TYR C 220 1 8 SHEET 1 A 7 PHE A 101 HIS A 107 0 SHEET 2 A 7 PHE A 142 ARG A 152 -1 O VAL A 148 N ILE A 105 SHEET 3 A 7 CYS A 55 LEU A 58 1 N THR A 56 O LEU A 151 SHEET 4 A 7 ILE A 180 GLU A 185 -1 O THR A 181 N ALA A 57 SHEET 5 A 7 THR A 29 ALA A 34 -1 N MET A 31 O CYS A 184 SHEET 6 A 7 ILE A 17 TYR A 20 -1 N ILE A 17 O VAL A 32 SHEET 7 A 7 ILE A 209 SER A 212 1 O ILE A 209 N LEU A 18 SHEET 1 B 7 PHE B 101 HIS B 107 0 SHEET 2 B 7 PHE B 142 ARG B 152 -1 O ARG B 143 N ASN B 106 SHEET 3 B 7 CYS B 55 LEU B 58 1 N THR B 56 O LEU B 151 SHEET 4 B 7 ILE B 180 GLU B 185 -1 O THR B 181 N ALA B 57 SHEET 5 B 7 THR B 29 ALA B 34 -1 N MET B 31 O CYS B 184 SHEET 6 B 7 ILE B 17 TYR B 20 -1 N ILE B 17 O VAL B 32 SHEET 7 B 7 TYR B 210 SER B 212 1 O LEU B 211 N LEU B 18 SHEET 1 C 7 PHE C 101 HIS C 107 0 SHEET 2 C 7 PHE C 142 ARG C 152 -1 O VAL C 148 N ILE C 105 SHEET 3 C 7 CYS C 55 LEU C 58 1 N LEU C 58 O LEU C 151 SHEET 4 C 7 ILE C 180 GLU C 185 -1 O ILE C 183 N CYS C 55 SHEET 5 C 7 THR C 29 ALA C 34 -1 N MET C 31 O CYS C 184 SHEET 6 C 7 ILE C 17 TYR C 20 -1 N VAL C 19 O ASP C 30 SHEET 7 C 7 TYR C 210 SER C 212 1 O LEU C 211 N LEU C 18 LINK ZN ZN A 401 O1 PO4 A 409 1555 1555 2.05 LINK ZN ZN A 401 OE1 GLU A 26 1555 1555 2.02 LINK ZN ZN A 401 ND1 HIS A 164 1555 1555 2.12 LINK ZN ZN A 401 O HOH A 403 1555 1555 2.16 LINK ZN ZN A 401 O HOH A 404 1555 1555 2.11 LINK CA CA A 402 O HOH A 408 1555 1555 2.10 LINK CA CA A 402 O HOH A 405 1555 1555 2.16 LINK CA CA A 402 O HOH A 404 1555 1555 2.08 LINK CA CA A 402 O HOH B 407 1555 1555 2.10 LINK CA CA A 402 OE2 GLU A 26 1555 1555 2.11 LINK CA CA A 402 O HOH A 406 1555 1555 2.15 LINK ZN ZN B 501 OE2 GLU B 132 1555 1555 2.22 LINK ZN ZN B 501 OE2 GLU B 128 1555 1555 2.65 LINK ZN ZN B 501 ND1 HIS C 206 1555 3555 1.87 CISPEP 1 SER A 144 PRO A 145 0 0.25 CISPEP 2 SER B 144 PRO B 145 0 -0.60 CISPEP 3 SER C 144 PRO C 145 0 1.56 SITE 1 AC1 6 GLU A 26 HIS A 164 CA A 402 HOH A 403 SITE 2 AC1 6 HOH A 404 PO4 A 409 SITE 1 AC2 8 GLU A 26 ZN A 401 HOH A 404 HOH A 405 SITE 2 AC2 8 HOH A 406 HOH A 408 PO4 A 409 HOH B 407 SITE 1 AC3 10 ARG A 25 GLU A 26 ARG A 161 GLY A 163 SITE 2 AC3 10 HIS A 164 THR A 165 ZN A 401 CA A 402 SITE 3 AC3 10 HOH A 404 HOH A 408 SITE 1 AC4 3 GLU B 128 GLU B 132 HIS C 206 CRYST1 66.315 154.205 133.152 90.00 90.00 90.00 C 2 2 21 24 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 0.015080 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006485 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007510 0.00000 MASTER 465 0 4 44 21 0 8 6 0 0 0 54 END