HEADER LYASE 19-AUG-11 3THQ TITLE CRYSTAL STRUCTURE OF METHANOTHERMOBACTER THERMAUTOTROPHICUS OROTIDINE TITLE 2 5'-MONOPHOSPHATE DECARBOXYLASE COMPLEXED WITH 6-AMINO-UMP COMPND MOL_ID: 1; COMPND 2 MOLECULE: OROTIDINE 5'-PHOSPHATE DECARBOXYLASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: OMP DECARBOXYLASE, OMPDCASE, OMPDECASE; COMPND 5 EC: 4.1.1.23; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: METHANOTHERMOBACTER THERMAUTOTROPHICUS; SOURCE 3 ORGANISM_COMMON: METHANOCOCCUS THERMOLITHOTROPHICUS; SOURCE 4 ORGANISM_TAXID: 187420; SOURCE 5 STRAIN: DELTAH; SOURCE 6 GENE: 1470090, MTH_129, PYRF; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET15B KEYWDS METHANOTHERMOBACTER THERMAUTOTROPHICUS, OROTIDINE 5'-MONOPHOSPHATE KEYWDS 2 DECARBOXYLASE, 6-AMINO-UMP, DECARBOXYLASE, LYASE EXPDTA X-RAY DIFFRACTION AUTHOR Y.LIU,L.P.KOTRA,E.F.PAI REVDAT 2 13-SEP-23 3THQ 1 REMARK SEQADV REVDAT 1 02-MAY-12 3THQ 0 JRNL AUTH Y.LIU,L.P.KOTRA,E.F.PAI JRNL TITL CRYSTAL STRUCTURE OF METHANOTHERMOBACTER THERMAUTOTROPHICUS JRNL TITL 2 OROTIDINE 5'-MONOPHOSPHATE DECARBOXYLASE COMPLEXED WITH JRNL TITL 3 6-AMINO-UMP JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 94.2 REMARK 3 NUMBER OF REFLECTIONS : 59877 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) : 0.170 REMARK 3 R VALUE (WORKING SET) : 0.169 REMARK 3 FREE R VALUE : 0.192 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3191 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) : 1.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.54 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3452 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 74.09 REMARK 3 BIN R VALUE (WORKING SET) : 0.2720 REMARK 3 BIN FREE R VALUE SET COUNT : 186 REMARK 3 BIN FREE R VALUE : 0.2840 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3258 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 59 REMARK 3 SOLVENT ATOMS : 214 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 13.53 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.75000 REMARK 3 B22 (A**2) : 0.34000 REMARK 3 B33 (A**2) : -0.05000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.54000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.075 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.045 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.208 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.963 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.955 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3677 ; 0.010 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5003 ; 1.551 ; 1.995 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 487 ; 5.534 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 164 ;35.486 ;23.049 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 649 ;12.916 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 41 ;19.137 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 550 ; 0.104 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2845 ; 0.009 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 2307 ; 0.864 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3739 ; 1.540 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1370 ; 2.582 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1264 ; 4.382 ; 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 3THQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 26-AUG-11. REMARK 100 THE DEPOSITION ID IS D_1000067491. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-JUL-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : CLSI REMARK 200 BEAMLINE : 08ID-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97934 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 60551 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 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 (%) : 94.3 REMARK 200 DATA REDUNDANCY : 3.700 REMARK 200 R MERGE (I) : 0.04900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.55 REMARK 200 COMPLETENESS FOR SHELL (%) : 76.1 REMARK 200 DATA REDUNDANCY IN SHELL : 2.80 REMARK 200 R MERGE FOR SHELL (I) : 0.30200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.890 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 1DV7 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 37.93 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.98 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: TRISODIUM CITRATE, PH 7.5, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 32.17150 REMARK 290 SMTRY3 2 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: 5120 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15480 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -37.0 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 ARG A 2 REMARK 465 SER A 3 REMARK 465 ARG A 4 REMARK 465 ARG A 5 REMARK 465 VAL A 6 REMARK 465 ASP A 7 REMARK 465 ASP A 224 REMARK 465 LEU A 225 REMARK 465 LEU A 226 REMARK 465 ILE A 227 REMARK 465 PRO A 228 REMARK 465 GLU A 229 REMARK 465 ASP A 230 REMARK 465 PRO A 231 REMARK 465 ALA A 232 REMARK 465 ALA A 233 REMARK 465 ASN A 234 REMARK 465 LYS A 235 REMARK 465 ALA A 236 REMARK 465 ARG A 237 REMARK 465 LYS A 238 REMARK 465 GLU A 239 REMARK 465 ALA A 240 REMARK 465 GLU A 241 REMARK 465 LEU A 242 REMARK 465 ALA A 243 REMARK 465 ALA A 244 REMARK 465 ALA A 245 REMARK 465 THR A 246 REMARK 465 ALA A 247 REMARK 465 MET B 1 REMARK 465 ARG B 2 REMARK 465 SER B 3 REMARK 465 ARG B 4 REMARK 465 ARG B 5 REMARK 465 VAL B 6 REMARK 465 ASP B 7 REMARK 465 VAL B 8 REMARK 465 LYS B 223 REMARK 465 ASP B 224 REMARK 465 LEU B 225 REMARK 465 LEU B 226 REMARK 465 ILE B 227 REMARK 465 PRO B 228 REMARK 465 GLU B 229 REMARK 465 ASP B 230 REMARK 465 PRO B 231 REMARK 465 ALA B 232 REMARK 465 ALA B 233 REMARK 465 ASN B 234 REMARK 465 LYS B 235 REMARK 465 ALA B 236 REMARK 465 ARG B 237 REMARK 465 LYS B 238 REMARK 465 GLU B 239 REMARK 465 ALA B 240 REMARK 465 GLU B 241 REMARK 465 LEU B 242 REMARK 465 ALA B 243 REMARK 465 ALA B 244 REMARK 465 ALA B 245 REMARK 465 THR B 246 REMARK 465 ALA B 247 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 144 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 ARG A 144 NE - CZ - NH2 ANGL. DEV. = -4.2 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 LYS A 72 50.76 39.89 REMARK 500 ALA A 74 42.72 -148.44 REMARK 500 THR A 124 -80.56 -94.68 REMARK 500 PHE A 134 -41.11 -133.12 REMARK 500 ASP B 39 12.41 -144.09 REMARK 500 LYS B 72 55.88 36.72 REMARK 500 ALA B 74 42.76 -150.91 REMARK 500 THR B 124 -81.48 -95.90 REMARK 500 PHE B 134 -39.54 -135.50 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 NUP A 1000 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NUP B 1000 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EPE B 3380 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3SEC RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF METHANOTHERMOBACTER THERMAUTOTROPHICUS REMARK 900 OROTIDINE 5'-MONOPHOSPHATE DECARBOXYLASE COMPLEXED WITH PYRAZOFURIN REMARK 900 MONOPHOSPHATE REMARK 900 RELATED ID: 3SGU RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF METHANOTHERMOBACTER THERMAUTOTROPHICUS REMARK 900 OROTIDINE 5'-MONOPHOSPHATE DECARBOXYLASE COVALENTLY MODIFIED BY 5- REMARK 900 FLUORO-6-IODO-UMP REMARK 900 RELATED ID: 3SSJ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF METHANOTHERMOBACTER THERMAUTOTROPHICUS REMARK 900 OROTIDINE 5'-MONOPHOSPHATE DECARBOXYLASE COMPLEXED WITH 5-FLUORO-6- REMARK 900 AMINO-UMP REMARK 900 RELATED ID: 3SW6 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF METHANOTHERMOBACTER THERMAUTOTROPHICUS REMARK 900 OROTIDINE 5'-MONOPHOSPHATE DECARBOXYLASE COVALENTLY MODIFIED BY 5- REMARK 900 FLUORO-6-AZIDO-UMP DBREF 3THQ A 1 228 UNP O26232 PYRF_METTH 1 228 DBREF 3THQ B 1 228 UNP O26232 PYRF_METTH 1 228 SEQADV 3THQ PRO A 101 UNP O26232 ARG 101 CONFLICT SEQADV 3THQ ILE A 227 UNP O26232 ASN 227 CONFLICT SEQADV 3THQ GLU A 229 UNP O26232 EXPRESSION TAG SEQADV 3THQ ASP A 230 UNP O26232 EXPRESSION TAG SEQADV 3THQ PRO A 231 UNP O26232 EXPRESSION TAG SEQADV 3THQ ALA A 232 UNP O26232 EXPRESSION TAG SEQADV 3THQ ALA A 233 UNP O26232 EXPRESSION TAG SEQADV 3THQ ASN A 234 UNP O26232 EXPRESSION TAG SEQADV 3THQ LYS A 235 UNP O26232 EXPRESSION TAG SEQADV 3THQ ALA A 236 UNP O26232 EXPRESSION TAG SEQADV 3THQ ARG A 237 UNP O26232 EXPRESSION TAG SEQADV 3THQ LYS A 238 UNP O26232 EXPRESSION TAG SEQADV 3THQ GLU A 239 UNP O26232 EXPRESSION TAG SEQADV 3THQ ALA A 240 UNP O26232 EXPRESSION TAG SEQADV 3THQ GLU A 241 UNP O26232 EXPRESSION TAG SEQADV 3THQ LEU A 242 UNP O26232 EXPRESSION TAG SEQADV 3THQ ALA A 243 UNP O26232 EXPRESSION TAG SEQADV 3THQ ALA A 244 UNP O26232 EXPRESSION TAG SEQADV 3THQ ALA A 245 UNP O26232 EXPRESSION TAG SEQADV 3THQ THR A 246 UNP O26232 EXPRESSION TAG SEQADV 3THQ ALA A 247 UNP O26232 EXPRESSION TAG SEQADV 3THQ PRO B 101 UNP O26232 ARG 101 CONFLICT SEQADV 3THQ ILE B 227 UNP O26232 ASN 227 CONFLICT SEQADV 3THQ GLU B 229 UNP O26232 EXPRESSION TAG SEQADV 3THQ ASP B 230 UNP O26232 EXPRESSION TAG SEQADV 3THQ PRO B 231 UNP O26232 EXPRESSION TAG SEQADV 3THQ ALA B 232 UNP O26232 EXPRESSION TAG SEQADV 3THQ ALA B 233 UNP O26232 EXPRESSION TAG SEQADV 3THQ ASN B 234 UNP O26232 EXPRESSION TAG SEQADV 3THQ LYS B 235 UNP O26232 EXPRESSION TAG SEQADV 3THQ ALA B 236 UNP O26232 EXPRESSION TAG SEQADV 3THQ ARG B 237 UNP O26232 EXPRESSION TAG SEQADV 3THQ LYS B 238 UNP O26232 EXPRESSION TAG SEQADV 3THQ GLU B 239 UNP O26232 EXPRESSION TAG SEQADV 3THQ ALA B 240 UNP O26232 EXPRESSION TAG SEQADV 3THQ GLU B 241 UNP O26232 EXPRESSION TAG SEQADV 3THQ LEU B 242 UNP O26232 EXPRESSION TAG SEQADV 3THQ ALA B 243 UNP O26232 EXPRESSION TAG SEQADV 3THQ ALA B 244 UNP O26232 EXPRESSION TAG SEQADV 3THQ ALA B 245 UNP O26232 EXPRESSION TAG SEQADV 3THQ THR B 246 UNP O26232 EXPRESSION TAG SEQADV 3THQ ALA B 247 UNP O26232 EXPRESSION TAG SEQRES 1 A 247 MET ARG SER ARG ARG VAL ASP VAL MET ASP VAL MET ASN SEQRES 2 A 247 ARG LEU ILE LEU ALA MET ASP LEU MET ASN ARG ASP ASP SEQRES 3 A 247 ALA LEU ARG VAL THR GLY GLU VAL ARG GLU TYR ILE ASP SEQRES 4 A 247 THR VAL LYS ILE GLY TYR PRO LEU VAL LEU SER GLU GLY SEQRES 5 A 247 MET ASP ILE ILE ALA GLU PHE ARG LYS ARG PHE GLY CYS SEQRES 6 A 247 ARG ILE ILE ALA ASP PHE LYS VAL ALA ASP ILE PRO GLU SEQRES 7 A 247 THR ASN GLU LYS ILE CYS ARG ALA THR PHE LYS ALA GLY SEQRES 8 A 247 ALA ASP ALA ILE ILE VAL HIS GLY PHE PRO GLY ALA ASP SEQRES 9 A 247 SER VAL ARG ALA CYS LEU ASN VAL ALA GLU GLU MET GLY SEQRES 10 A 247 ARG GLU VAL PHE LEU LEU THR GLU MET SER HIS PRO GLY SEQRES 11 A 247 ALA GLU MET PHE ILE GLN GLY ALA ALA ASP GLU ILE ALA SEQRES 12 A 247 ARG MET GLY VAL ASP LEU GLY VAL LYS ASN TYR VAL GLY SEQRES 13 A 247 PRO SER THR ARG PRO GLU ARG LEU SER ARG LEU ARG GLU SEQRES 14 A 247 ILE ILE GLY GLN ASP SER PHE LEU ILE SER PRO GLY VAL SEQRES 15 A 247 GLY ALA GLN GLY GLY ASP PRO GLY GLU THR LEU ARG PHE SEQRES 16 A 247 ALA ASP ALA ILE ILE VAL GLY ARG SER ILE TYR LEU ALA SEQRES 17 A 247 ASP ASN PRO ALA ALA ALA ALA ALA GLY ILE ILE GLU SER SEQRES 18 A 247 ILE LYS ASP LEU LEU ILE PRO GLU ASP PRO ALA ALA ASN SEQRES 19 A 247 LYS ALA ARG LYS GLU ALA GLU LEU ALA ALA ALA THR ALA SEQRES 1 B 247 MET ARG SER ARG ARG VAL ASP VAL MET ASP VAL MET ASN SEQRES 2 B 247 ARG LEU ILE LEU ALA MET ASP LEU MET ASN ARG ASP ASP SEQRES 3 B 247 ALA LEU ARG VAL THR GLY GLU VAL ARG GLU TYR ILE ASP SEQRES 4 B 247 THR VAL LYS ILE GLY TYR PRO LEU VAL LEU SER GLU GLY SEQRES 5 B 247 MET ASP ILE ILE ALA GLU PHE ARG LYS ARG PHE GLY CYS SEQRES 6 B 247 ARG ILE ILE ALA ASP PHE LYS VAL ALA ASP ILE PRO GLU SEQRES 7 B 247 THR ASN GLU LYS ILE CYS ARG ALA THR PHE LYS ALA GLY SEQRES 8 B 247 ALA ASP ALA ILE ILE VAL HIS GLY PHE PRO GLY ALA ASP SEQRES 9 B 247 SER VAL ARG ALA CYS LEU ASN VAL ALA GLU GLU MET GLY SEQRES 10 B 247 ARG GLU VAL PHE LEU LEU THR GLU MET SER HIS PRO GLY SEQRES 11 B 247 ALA GLU MET PHE ILE GLN GLY ALA ALA ASP GLU ILE ALA SEQRES 12 B 247 ARG MET GLY VAL ASP LEU GLY VAL LYS ASN TYR VAL GLY SEQRES 13 B 247 PRO SER THR ARG PRO GLU ARG LEU SER ARG LEU ARG GLU SEQRES 14 B 247 ILE ILE GLY GLN ASP SER PHE LEU ILE SER PRO GLY VAL SEQRES 15 B 247 GLY ALA GLN GLY GLY ASP PRO GLY GLU THR LEU ARG PHE SEQRES 16 B 247 ALA ASP ALA ILE ILE VAL GLY ARG SER ILE TYR LEU ALA SEQRES 17 B 247 ASP ASN PRO ALA ALA ALA ALA ALA GLY ILE ILE GLU SER SEQRES 18 B 247 ILE LYS ASP LEU LEU ILE PRO GLU ASP PRO ALA ALA ASN SEQRES 19 B 247 LYS ALA ARG LYS GLU ALA GLU LEU ALA ALA ALA THR ALA HET NUP A1000 22 HET NUP B1000 22 HET EPE B3380 15 HETNAM NUP 6-AMINOURIDINE 5'-MONOPHOSPHATE HETNAM EPE 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID HETSYN EPE HEPES FORMUL 3 NUP 2(C9 H14 N3 O9 P) FORMUL 5 EPE C8 H18 N2 O4 S FORMUL 6 HOH *214(H2 O) HELIX 1 1 VAL A 11 ASN A 13 5 3 HELIX 2 2 ASN A 23 ARG A 35 1 13 HELIX 3 3 TYR A 45 GLY A 52 1 8 HELIX 4 4 MET A 53 GLY A 64 1 12 HELIX 5 5 ILE A 76 ALA A 90 1 15 HELIX 6 6 GLY A 102 GLY A 117 1 16 HELIX 7 7 HIS A 128 MET A 133 5 6 HELIX 8 8 PHE A 134 GLY A 150 1 17 HELIX 9 9 ARG A 160 GLY A 172 1 13 HELIX 10 10 ASP A 188 LEU A 193 1 6 HELIX 11 11 GLY A 202 LEU A 207 1 6 HELIX 12 12 ASN A 210 ILE A 222 1 13 HELIX 13 13 VAL B 11 ASN B 13 5 3 HELIX 14 14 ASN B 23 ARG B 35 1 13 HELIX 15 15 GLU B 36 ILE B 38 5 3 HELIX 16 16 TYR B 45 GLY B 52 1 8 HELIX 17 17 MET B 53 GLY B 64 1 12 HELIX 18 18 ILE B 76 ALA B 90 1 15 HELIX 19 19 GLY B 102 GLY B 117 1 16 HELIX 20 20 HIS B 128 MET B 133 5 6 HELIX 21 21 PHE B 134 GLY B 150 1 17 HELIX 22 22 ARG B 160 GLY B 172 1 13 HELIX 23 23 ASP B 188 LEU B 193 1 6 HELIX 24 24 GLY B 202 LEU B 207 1 6 HELIX 25 25 ASN B 210 ILE B 222 1 13 SHEET 1 A 9 LEU A 15 MET A 19 0 SHEET 2 A 9 THR A 40 GLY A 44 1 O LYS A 42 N LEU A 17 SHEET 3 A 9 ARG A 66 VAL A 73 1 O ARG A 66 N VAL A 41 SHEET 4 A 9 ALA A 94 HIS A 98 1 O ALA A 94 N ALA A 69 SHEET 5 A 9 GLU A 119 LEU A 123 1 O LEU A 123 N VAL A 97 SHEET 6 A 9 ASN A 153 VAL A 155 1 O ASN A 153 N LEU A 122 SHEET 7 A 9 PHE A 176 SER A 179 1 O PHE A 176 N TYR A 154 SHEET 8 A 9 ALA A 198 VAL A 201 1 O ILE A 200 N SER A 179 SHEET 9 A 9 LEU A 15 MET A 19 1 N ILE A 16 O ILE A 199 SHEET 1 B 9 LEU B 15 MET B 19 0 SHEET 2 B 9 THR B 40 GLY B 44 1 O LYS B 42 N LEU B 17 SHEET 3 B 9 ARG B 66 VAL B 73 1 O ARG B 66 N VAL B 41 SHEET 4 B 9 ALA B 94 HIS B 98 1 O ALA B 94 N ALA B 69 SHEET 5 B 9 GLU B 119 LEU B 123 1 O LEU B 123 N VAL B 97 SHEET 6 B 9 ASN B 153 VAL B 155 1 O ASN B 153 N LEU B 122 SHEET 7 B 9 PHE B 176 SER B 179 1 O PHE B 176 N TYR B 154 SHEET 8 B 9 ALA B 198 VAL B 201 1 O ILE B 200 N SER B 179 SHEET 9 B 9 LEU B 15 MET B 19 1 N ILE B 16 O ILE B 199 SITE 1 AC1 19 ASP A 20 LYS A 42 ASP A 70 LYS A 72 SITE 2 AC1 19 MET A 126 SER A 127 PRO A 180 GLN A 185 SITE 3 AC1 19 GLY A 202 ARG A 203 HOH A 249 HOH A 251 SITE 4 AC1 19 HOH A 255 HOH A 258 HOH A 263 HOH A 269 SITE 5 AC1 19 ASP B 75 ILE B 76 THR B 79 SITE 1 AC2 19 ASP A 75 ILE A 76 THR A 79 ASP B 20 SITE 2 AC2 19 LYS B 42 ASP B 70 LYS B 72 MET B 126 SITE 3 AC2 19 SER B 127 PRO B 180 GLN B 185 GLY B 202 SITE 4 AC2 19 ARG B 203 HOH B 252 HOH B 256 HOH B 257 SITE 5 AC2 19 HOH B 259 HOH B 262 HOH B 284 SITE 1 AC3 6 PRO B 129 SER B 158 THR B 159 PRO B 161 SITE 2 AC3 6 GLN B 185 HOH B 283 CRYST1 59.621 64.343 61.255 90.00 115.32 90.00 P 1 21 1 4 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 0.016773 0.000000 0.007935 0.00000 SCALE2 0.000000 0.015542 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018060 0.00000