1OVD - Header Asymmetric Unit

HEADER OXIDOREDUCTASE 26-MAR-03 1OVD

TITLE THE K136E MUTANT OF LACTOCOCCUS LACTIS DIHYDROOROTATE DEHYDROGENASE A TITLE 2 IN COMPLEX WITH OROTATE

COMPND MOL_ID: 1; COMPND 2 MOLECULE: DIHYDROOROTATE DEHYDROGENASE A; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: DIHYDROOROTATE OXIDASE A, DHODEHASE A, DHODASE A, DHOD A; COMPND 5 EC: 1.3.3.1; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES

SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LACTOCOCCUS LACTIS; SOURCE 3 ORGANISM_TAXID: 1358; SOURCE 4 GENE: PYRDA; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: SO6645; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PUHE23

KEYWDS HOMODIMER, ALPHA-BETA BARREL, FLAVOPROTEIN, OROTATE COMPLEX, MUTANT KEYWDS 2 ENZYME, OXIDOREDUCTASE

EXPDTA X-RAY DIFFRACTION

AUTHOR S.NORAGER,S.ARENT,O.BJORNBERG,M.OTTOSEN,L.LO LEGGIO,K.F.JENSEN, AUTHOR 2 S.LARSEN

REVDAT 3 13-JUL-11 1OVD 1 VERSN REVDAT 2 24-FEB-09 1OVD 1 VERSN REVDAT 1 19-AUG-03 1OVD 0

JRNL AUTH S.NORAGER,S.ARENT,O.BJORNBERG,M.OTTESEN,L.LO LEGGIO, JRNL AUTH 2 K.F.JENSEN,S.LARSEN JRNL TITL LACTOCOCCUS LACTIS DIHYDROOROTATE DEHYDROGENASE A MUTANTS JRNL TITL 2 REVEAL IMPORTANT FACETS OF THE ENZYMATIC FUNCTION. JRNL REF J.BIOL.CHEM. V. 278 28812 2003 JRNL REFN ISSN 0021-9258 JRNL PMID 12732650 JRNL DOI 10.1074/JBC.M303767200

REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH O.BJORNBERG,P.ROWLAND,S.LARSEN,K.F.JENSEN REMARK 1 TITL ACTIVE SITE OF DIHYDROOROTATE DEHYDROGENASE A FROM REMARK 1 TITL 2 LACTOCOCCUS LACTIS INVESTIGATED BY CHEMICAL MODIFICATION AND REMARK 1 TITL 3 MUTAGENESIS REMARK 1 REF BIOCHEMISTRY V. 36 16197 1997 REMARK 1 REFN ISSN 0006-2960 REMARK 1 DOI 10.1021/BI971628Y REMARK 1 REFERENCE 2 REMARK 1 AUTH P.ROWLAND,O.BJORNBERG,F.S.NIELSEN,K.F.JENSEN,S.LARSEN REMARK 1 TITL THE CRYSTALS STRUCTURE OF LACTOCOCCUS LACTIS DIHYDROOROTATE REMARK 1 TITL 2 DEHYDROGENASE A COMPLEXED WITH THE ENZYME REACTION PRODUCT REMARK 1 TITL 3 THROWS LIGHT ON ITS ENZYMATIC FUNCTION REMARK 1 REF PROTEIN SCI. V. 7 1269 1998 REMARK 1 REFN ISSN 0961-8368 REMARK 1 REFERENCE 3 REMARK 1 AUTH P.ROWLAND,F.S.NIELSEN,K.F.JENSEN,S.LARSEN REMARK 1 TITL THE CRYSTALS STRUCTURE OF THE FLAVIN CONTAINING ENZYME REMARK 1 TITL 2 DIHYDROOROTATE DEHYDROGENASE A FROM LACTOCOCCUS LACTIS REMARK 1 REF STRUCTURE V. 5 239 1997 REMARK 1 REFN ISSN 0969-2126 REMARK 1 DOI 10.1016/S0969-2126(97)00182-2 REMARK 1 REFERENCE 4 REMARK 1 AUTH F.S.NIELSEN,P.ROWLAND,S.LARSEN,K.F.JENSEN REMARK 1 TITL PURIFICATION AND CHARACTERISATION OF DIHYDROOROTATE REMARK 1 TITL 2 DEHYDROGENASE A FROM LACTOCOCCUS LACTIS, CRYSTALLISATION AND REMARK 1 TITL 3 PRELIMINARY X-RAY DIFFRACTION STUDIES OF THE ENZYME REMARK 1 REF PROTEIN SCI. V. 5 852 1996 REMARK 1 REFN ISSN 0961-8368

REMARK 2 REMARK 2 RESOLUTION. 2.25 ANGSTROMS.

REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 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) : 2.25 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 12.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 156760.050 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 33990 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) : 0.178 REMARK 3 FREE R VALUE : 0.202 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1553 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.005 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 10 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.25 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.39 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.90 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 1383 REMARK 3 BIN R VALUE (WORKING SET) : 0.2040 REMARK 3 BIN FREE R VALUE : 0.2410 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 10.00 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 264 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.015 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4818 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 116 REMARK 3 SOLVENT ATOMS : 487 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 6.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.50 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.45000 REMARK 3 B22 (A**2) : 2.45000 REMARK 3 B33 (A**2) : -4.89000 REMARK 3 B12 (A**2) : 2.98000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.22 REMARK 3 ESD FROM SIGMAA (A) : 0.16 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.25 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.20 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.007 REMARK 3 BOND ANGLES (DEGREES) : NULL REMARK 3 DIHEDRAL ANGLES (DEGREES) : 22.10 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.85 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : ISOTROPIC REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 2.270 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 3.340 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 3.710 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 5.060 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT REMARK 3 KSOL : 0.35 REMARK 3 BSOL : 42.77 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 3 : ION.PARAM REMARK 3 PARAMETER FILE 4 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : WATER.TOP REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL

REMARK 4 REMARK 4 1OVD COMPLIES WITH FORMAT V. 3.15, 01-DEC-08

REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 27-MAR-03. REMARK 100 THE RCSB ID CODE IS RCSB018702.

REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-SEP-01 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 : MAX II REMARK 200 BEAMLINE : I711 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.098 REMARK 200 MONOCHROMATOR : SI(III) SINGLE CRYSTAL REMARK 200 OPTICS : BENT MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD 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 : 33990 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.250 REMARK 200 RESOLUTION RANGE LOW (A) : 12.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 4.300 REMARK 200 R MERGE (I) : 0.08900 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 15.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.25 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.29 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.28200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 4.930 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: LACTOCOCCUS LACTIS DHODA PDB ID 1DOR REMARK 200 REMARK 200 REMARK: NULL

REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.61 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.41 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 6K, SODIUM ACETATE, TRIS-HCL, PH REMARK 280 8.5, VAPOR 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 54.14500 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 300 REMARK: THE ASYMMETRIC UNIT CONTAINS THE BIOLOGICAL HOMODIMER

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: 8530 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21710 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -48.0 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 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 CYS A 23 25.51 -151.72 REMARK 500 SER A 129 29.64 -146.85 REMARK 500 PHE A 156 -28.98 -144.51 REMARK 500 GLU A 252 -33.74 -135.11 REMARK 500 CYS B 23 24.94 -150.73 REMARK 500 SER B 129 29.59 -147.10 REMARK 500 PHE B 156 -28.28 -143.62 REMARK 500 GLU B 252 -33.69 -135.47 REMARK 500 PHE B 304 -6.37 -140.82 REMARK 500 REMARK 500 REMARK: NULL

REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A1141 DISTANCE = 5.33 ANGSTROMS REMARK 525 HOH B1089 DISTANCE = 5.08 ANGSTROMS REMARK 525 HOH B1096 DISTANCE = 5.69 ANGSTROMS

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 MG A 850 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 907 O REMARK 620 2 HOH A 988 O 163.1 REMARK 620 3 HOH A1074 O 85.4 87.3 REMARK 620 4 LYS A 33 O 79.3 106.7 164.5 REMARK 620 5 SER A 35 O 85.6 78.0 77.8 98.5 REMARK 620 6 HOH A1152 O 88.6 107.7 100.2 82.0 174.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 851 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B1066 O REMARK 620 2 SER B 35 O 79.3 REMARK 620 3 HOH B 985 O 163.9 85.2 REMARK 620 4 HOH B1071 O 90.1 90.0 85.5 REMARK 620 5 LYS B 33 O 107.3 98.3 79.0 161.7 REMARK 620 N 1 2 3 4

REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 850 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 851 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FMN A 800 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FMN B 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ORO A 900 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ORO B 901 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 491 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 492 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 493 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 494 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 495

REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1DOR RELATED DB: PDB REMARK 900 NATIVE LACTOCOCCUS LACTIS DIHYDROOROTATE DEHYDROGENASE A REMARK 900 RELATED ID: 2DOR RELATED DB: PDB REMARK 900 NATIVE LACTOCOCCUS LACTIS DIHYDROOROTATE DEHYDROGENASE A REMARK 900 COMPLEXED WITH OROTATE REMARK 900 RELATED ID: 1JQV RELATED DB: PDB REMARK 900 K213E MUTANT OF LACTOCOCCUS LACTIS DIHYDROOROTATE REMARK 900 DEHYDROGENASE A REMARK 900 RELATED ID: 1JQX RELATED DB: PDB REMARK 900 R57A MUTANT OF LACTOCOCCUS LACTIS DIHYDROOROTATE REMARK 900 DEHYDROGENASE A REMARK 900 RELATED ID: 1JRC RELATED DB: PDB REMARK 900 N67A MUTANT OF LACTOCOCCUS LACTIS DIHYDROOROTATE REMARK 900 DEHYDROGENASE A REMARK 900 RELATED ID: 1JRB RELATED DB: PDB REMARK 900 P56A MUTANT OF LACTOCOCCUS LACTIS DIHYDROOROTATE REMARK 900 DEHYDROGENASE A REMARK 900 RELATED ID: 1JUB RELATED DB: PDB REMARK 900 K136E MUTANT OF LACTOCOCCUS LACTIS DIHYDROOROTATE REMARK 900 DEHYDROGENASE A REMARK 900 RELATED ID: 1JUE RELATED DB: PDB REMARK 900 1.8 A RESOLUTION STRUCTURE OF NATIVE LACTOCOCCUS LACTIS REMARK 900 DIHYDROOROTATE DEHYDROGENASE A

DBREF 1OVD A 1 311 UNP P54321 PYRDA_LACLC 1 311 DBREF 1OVD B 1 311 UNP P54321 PYRDA_LACLC 1 311

SEQADV 1OVD GLU A 136 UNP P54321 LYS 136 ENGINEERED SEQADV 1OVD GLU B 136 UNP P54321 LYS 136 ENGINEERED

SEQRES 1 A 311 MET LEU ASN THR THR PHE ALA ASN ALA LYS PHE ALA ASN SEQRES 2 A 311 PRO PHE MET ASN ALA SER GLY VAL HIS CYS MET THR ILE SEQRES 3 A 311 GLU ASP LEU GLU GLU LEU LYS ALA SER GLN ALA GLY ALA SEQRES 4 A 311 TYR ILE THR LYS SER SER THR LEU GLU LYS ARG GLU GLY SEQRES 5 A 311 ASN PRO LEU PRO ARG TYR VAL ASP LEU GLU LEU GLY SER SEQRES 6 A 311 ILE ASN SER MET GLY LEU PRO ASN LEU GLY PHE ASP TYR SEQRES 7 A 311 TYR LEU ASP TYR VAL LEU LYS ASN GLN LYS GLU ASN ALA SEQRES 8 A 311 GLN GLU GLY PRO ILE PHE PHE SER ILE ALA GLY MET SER SEQRES 9 A 311 ALA ALA GLU ASN ILE ALA MET LEU LYS LYS ILE GLN GLU SEQRES 10 A 311 SER ASP PHE SER GLY ILE THR GLU LEU ASN LEU SER CYS SEQRES 11 A 311 PRO ASN VAL PRO GLY GLU PRO GLN LEU ALA TYR ASP PHE SEQRES 12 A 311 GLU ALA THR GLU LYS LEU LEU LYS GLU VAL PHE THR PHE SEQRES 13 A 311 PHE THR LYS PRO LEU GLY VAL LYS LEU PRO PRO TYR PHE SEQRES 14 A 311 ASP LEU VAL HIS PHE ASP ILE MET ALA GLU ILE LEU ASN SEQRES 15 A 311 GLN PHE PRO LEU THR TYR VAL ASN SER VAL ASN SER ILE SEQRES 16 A 311 GLY ASN GLY LEU PHE ILE ASP PRO GLU ALA GLU SER VAL SEQRES 17 A 311 VAL ILE LYS PRO LYS ASP GLY PHE GLY GLY ILE GLY GLY SEQRES 18 A 311 ALA TYR ILE LYS PRO THR ALA LEU ALA ASN VAL ARG ALA SEQRES 19 A 311 PHE TYR THR ARG LEU LYS PRO GLU ILE GLN ILE ILE GLY SEQRES 20 A 311 THR GLY GLY ILE GLU THR GLY GLN ASP ALA PHE GLU HIS SEQRES 21 A 311 LEU LEU CYS GLY ALA THR MET LEU GLN ILE GLY THR ALA SEQRES 22 A 311 LEU HIS LYS GLU GLY PRO ALA ILE PHE ASP ARG ILE ILE SEQRES 23 A 311 LYS GLU LEU GLU GLU ILE MET ASN GLN LYS GLY TYR GLN SEQRES 24 A 311 SER ILE ALA ASP PHE HIS GLY LYS LEU LYS SER LEU SEQRES 1 B 311 MET LEU ASN THR THR PHE ALA ASN ALA LYS PHE ALA ASN SEQRES 2 B 311 PRO PHE MET ASN ALA SER GLY VAL HIS CYS MET THR ILE SEQRES 3 B 311 GLU ASP LEU GLU GLU LEU LYS ALA SER GLN ALA GLY ALA SEQRES 4 B 311 TYR ILE THR LYS SER SER THR LEU GLU LYS ARG GLU GLY SEQRES 5 B 311 ASN PRO LEU PRO ARG TYR VAL ASP LEU GLU LEU GLY SER SEQRES 6 B 311 ILE ASN SER MET GLY LEU PRO ASN LEU GLY PHE ASP TYR SEQRES 7 B 311 TYR LEU ASP TYR VAL LEU LYS ASN GLN LYS GLU ASN ALA SEQRES 8 B 311 GLN GLU GLY PRO ILE PHE PHE SER ILE ALA GLY MET SER SEQRES 9 B 311 ALA ALA GLU ASN ILE ALA MET LEU LYS LYS ILE GLN GLU SEQRES 10 B 311 SER ASP PHE SER GLY ILE THR GLU LEU ASN LEU SER CYS SEQRES 11 B 311 PRO ASN VAL PRO GLY GLU PRO GLN LEU ALA TYR ASP PHE SEQRES 12 B 311 GLU ALA THR GLU LYS LEU LEU LYS GLU VAL PHE THR PHE SEQRES 13 B 311 PHE THR LYS PRO LEU GLY VAL LYS LEU PRO PRO TYR PHE SEQRES 14 B 311 ASP LEU VAL HIS PHE ASP ILE MET ALA GLU ILE LEU ASN SEQRES 15 B 311 GLN PHE PRO LEU THR TYR VAL ASN SER VAL ASN SER ILE SEQRES 16 B 311 GLY ASN GLY LEU PHE ILE ASP PRO GLU ALA GLU SER VAL SEQRES 17 B 311 VAL ILE LYS PRO LYS ASP GLY PHE GLY GLY ILE GLY GLY SEQRES 18 B 311 ALA TYR ILE LYS PRO THR ALA LEU ALA ASN VAL ARG ALA SEQRES 19 B 311 PHE TYR THR ARG LEU LYS PRO GLU ILE GLN ILE ILE GLY SEQRES 20 B 311 THR GLY GLY ILE GLU THR GLY GLN ASP ALA PHE GLU HIS SEQRES 21 B 311 LEU LEU CYS GLY ALA THR MET LEU GLN ILE GLY THR ALA SEQRES 22 B 311 LEU HIS LYS GLU GLY PRO ALA ILE PHE ASP ARG ILE ILE SEQRES 23 B 311 LYS GLU LEU GLU GLU ILE MET ASN GLN LYS GLY TYR GLN SEQRES 24 B 311 SER ILE ALA ASP PHE HIS GLY LYS LEU LYS SER LEU

HET MG A 850 1 HET MG B 851 1 HET FMN A 800 31 HET FMN B 801 31 HET ORO A 900 11 HET ORO B 901 11 HET GOL B 491 6 HET GOL A 492 6 HET GOL A 493 6 HET GOL B 494 6 HET GOL A 495 12

HETNAM MG MAGNESIUM ION HETNAM FMN FLAVIN MONONUCLEOTIDE HETNAM ORO OROTIC ACID HETNAM GOL GLYCEROL

HETSYN FMN RIBOFLAVIN MONOPHOSPHATE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL

FORMUL 3 MG 2(MG 2+) FORMUL 5 FMN 2(C17 H21 N4 O9 P) FORMUL 7 ORO 2(C5 H4 N2 O4) FORMUL 9 GOL 5(C3 H8 O3) FORMUL 14 HOH *487(H2 O)

HELIX 1 1 THR A 25 SER A 35 1 11 HELIX 2 2 GLY A 75 ASN A 90 1 16 HELIX 3 3 SER A 104 SER A 118 1 15 HELIX 4 4 GLN A 138 TYR A 141 5 4 HELIX 5 5 ASP A 142 PHE A 154 1 13 HELIX 6 6 ASP A 170 GLN A 183 1 14 HELIX 7 7 LYS A 211 ASP A 214 5 4 HELIX 8 8 GLY A 221 TYR A 223 5 3 HELIX 9 9 ILE A 224 THR A 237 1 14 HELIX 10 10 THR A 253 GLY A 264 1 12 HELIX 11 11 GLY A 271 GLY A 278 1 8 HELIX 12 12 ALA A 280 GLY A 297 1 18 HELIX 13 13 SER A 300 PHE A 304 5 5 HELIX 14 14 THR B 25 SER B 35 1 11 HELIX 15 15 GLY B 75 ASN B 90 1 16 HELIX 16 16 SER B 104 SER B 118 1 15 HELIX 17 17 GLN B 138 TYR B 141 5 4 HELIX 18 18 ASP B 142 PHE B 154 1 13 HELIX 19 19 ASP B 170 GLN B 183 1 14 HELIX 20 20 LYS B 211 ASP B 214 5 4 HELIX 21 21 GLY B 221 TYR B 223 5 3 HELIX 22 22 ILE B 224 THR B 237 1 14 HELIX 23 23 THR B 253 GLY B 264 1 12 HELIX 24 24 GLY B 271 GLY B 278 1 8 HELIX 25 25 ALA B 280 GLY B 297 1 18 HELIX 26 26 SER B 300 PHE B 304 5 5

SHEET 1 A 2 THR A 4 PHE A 6 0 SHEET 2 A 2 ALA A 9 PHE A 11 -1 O PHE A 11 N THR A 4 SHEET 1 B 7 PHE A 15 ASN A 17 0 SHEET 2 B 7 MET A 267 ILE A 270 1 O ILE A 270 N MET A 16 SHEET 3 B 7 GLN A 244 THR A 248 1 N GLY A 247 O MET A 267 SHEET 4 B 7 TYR A 188 SER A 191 1 N SER A 191 O THR A 248 SHEET 5 B 7 LEU A 161 LEU A 165 1 N VAL A 163 O ASN A 190 SHEET 6 B 7 ILE A 123 ASN A 127 1 N LEU A 126 O GLY A 162 SHEET 7 B 7 PHE A 97 ILE A 100 1 N PHE A 98 O ILE A 123 SHEET 1 C 4 TYR A 58 LEU A 61 0 SHEET 2 C 4 GLY A 64 ASN A 67 -1 O GLY A 64 N LEU A 61 SHEET 3 C 4 PHE A 216 GLY A 220 -1 O GLY A 218 N ASN A 67 SHEET 4 C 4 ILE A 195 LEU A 199 -1 N GLY A 198 O GLY A 217 SHEET 1 D 2 ILE A 201 ASP A 202 0 SHEET 2 D 2 SER A 207 VAL A 208 -1 O SER A 207 N ASP A 202 SHEET 1 E 2 THR B 4 PHE B 6 0 SHEET 2 E 2 ALA B 9 PHE B 11 -1 O PHE B 11 N THR B 4 SHEET 1 F 7 PHE B 15 ASN B 17 0 SHEET 2 F 7 MET B 267 ILE B 270 1 O ILE B 270 N MET B 16 SHEET 3 F 7 GLN B 244 THR B 248 1 N GLY B 247 O MET B 267 SHEET 4 F 7 TYR B 188 SER B 191 1 N SER B 191 O THR B 248 SHEET 5 F 7 LEU B 161 LEU B 165 1 N VAL B 163 O ASN B 190 SHEET 6 F 7 ILE B 123 ASN B 127 1 N LEU B 126 O GLY B 162 SHEET 7 F 7 PHE B 97 ILE B 100 1 N PHE B 98 O ILE B 123 SHEET 1 G 4 TYR B 58 LEU B 61 0 SHEET 2 G 4 GLY B 64 ASN B 67 -1 O GLY B 64 N LEU B 61 SHEET 3 G 4 PHE B 216 GLY B 220 -1 O GLY B 218 N ASN B 67 SHEET 4 G 4 ILE B 195 LEU B 199 -1 N GLY B 198 O GLY B 217 SHEET 1 H 2 ILE B 201 ASP B 202 0 SHEET 2 H 2 SER B 207 VAL B 208 -1 O SER B 207 N ASP B 202

LINK MG MG A 850 O HOH A 907 1555 1555 2.60 LINK MG MG A 850 O HOH A 988 1555 1555 2.41 LINK MG MG A 850 O HOH A1074 1555 1555 2.91 LINK MG MG A 850 O LYS A 33 1555 1555 2.20 LINK MG MG A 850 O SER A 35 1555 1555 2.46 LINK MG MG A 850 O HOH A1152 1555 1555 2.51 LINK MG MG B 851 O HOH B1066 1555 1555 2.40 LINK MG MG B 851 O SER B 35 1555 1555 2.46 LINK MG MG B 851 O HOH B 985 1555 1555 2.62 LINK MG MG B 851 O HOH B1071 1555 1555 2.56 LINK MG MG B 851 O LYS B 33 1555 1555 2.25

CISPEP 1 LEU A 55 PRO A 56 0 -0.60 CISPEP 2 SER A 191 VAL A 192 0 0.99 CISPEP 3 LEU B 55 PRO B 56 0 -0.65 CISPEP 4 SER B 191 VAL B 192 0 0.71

SITE 1 AC1 6 LYS A 33 SER A 35 HOH A 907 HOH A 988 SITE 2 AC1 6 HOH A1074 HOH A1152 SITE 1 AC2 5 LYS B 33 SER B 35 HOH B 985 HOH B1066 SITE 2 AC2 5 HOH B1071 SITE 1 AC3 22 ALA A 18 SER A 19 GLY A 20 LYS A 43 SITE 2 AC3 22 SER A 44 TYR A 58 ASN A 67 ASN A 127 SITE 3 AC3 22 LYS A 164 VAL A 192 ASN A 193 GLY A 221 SITE 4 AC3 22 ILE A 224 THR A 248 GLY A 249 GLY A 250 SITE 5 AC3 22 GLY A 271 THR A 272 ORO A 900 HOH A 912 SITE 6 AC3 22 HOH A 993 HOH A 995 SITE 1 AC4 22 ALA B 18 SER B 19 GLY B 20 LYS B 43 SITE 2 AC4 22 SER B 44 TYR B 58 ASN B 67 ASN B 127 SITE 3 AC4 22 LYS B 164 VAL B 192 ASN B 193 GLY B 221 SITE 4 AC4 22 ILE B 224 THR B 248 GLY B 249 GLY B 250 SITE 5 AC4 22 GLY B 271 THR B 272 ORO B 901 HOH B 902 SITE 6 AC4 22 HOH B 904 HOH B 990 SITE 1 AC5 12 LYS A 43 ASN A 67 MET A 69 GLY A 70 SITE 2 AC5 12 LEU A 71 ASN A 127 CYS A 130 PRO A 131 SITE 3 AC5 12 ASN A 132 ASN A 193 SER A 194 FMN A 800 SITE 1 AC6 12 LYS B 43 ASN B 67 MET B 69 GLY B 70 SITE 2 AC6 12 LEU B 71 ASN B 127 CYS B 130 PRO B 131 SITE 3 AC6 12 ASN B 132 ASN B 193 SER B 194 FMN B 801 SITE 1 AC7 7 LYS A 213 ASP A 214 PHE A 216 LEU B 171 SITE 2 AC7 7 ALA B 234 ARG B 238 HOH B 959 SITE 1 AC8 3 ALA A 9 LYS A 10 GLY A 94 SITE 1 AC9 6 ALA A 234 ARG A 238 HOH A1050 LYS B 213 SITE 2 AC9 6 ASP B 214 PHE B 216 SITE 1 BC1 5 ALA B 9 LYS B 10 GLU B 93 GLY B 94 SITE 2 BC1 5 HOH B1114 SITE 1 BC2 11 TYR A 141 TYR A 168 PHE A 169 ASP A 170 SITE 2 BC2 11 HIS A 173 HOH A 901 HOH A 902 TYR B 141 SITE 3 BC2 11 TYR B 168 PHE B 169 HIS B 173

CRYST1 52.870 108.290 65.940 90.00 103.85 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 0.018914 0.000000 0.004663 0.00000

SCALE2 0.000000 0.009234 0.000000 0.00000

SCALE3 0.000000 0.000000 0.015619 0.00000