HEADER OXIDOREDUCTASE 24-AUG-01 1JUE TITLE 1.8 A RESOLUTION STRUCTURE OF NATIVE LACTOCOCCUS LACTIS DIHYDROOROTATE TITLE 2 DEHYDROGENASE A COMPND MOL_ID: 1; COMPND 2 MOLECULE: DIHYDROOROTATE DEHYDROGENASE A; COMPND 3 CHAIN: A, B; COMPND 4 EC: 1.3.3.1; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LACTOCOCCUS LACTIS; SOURCE 3 ORGANISM_TAXID: 1358; SOURCE 4 GENE: PYRD; 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, 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 4 25-OCT-23 1JUE 1 REMARK LINK REVDAT 3 13-JUL-11 1JUE 1 VERSN REVDAT 2 24-FEB-09 1JUE 1 VERSN REVDAT 1 09-SEP-03 1JUE 0 JRNL AUTH S.NORAGER,S.ARENT,O.BJORNBERG,M.OTTOSEN,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 CRYSTAL 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 CRYSTAL 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. 1.80 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 18.00 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) (%) : 96.2 REMARK 3 NUMBER OF REFLECTIONS : 64378 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) : 0.180 REMARK 3 FREE R VALUE : 0.198 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.025 REMARK 3 FREE R VALUE TEST SET COUNT : 6529 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.002 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) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.91 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 90.70 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 11912 REMARK 3 BIN R VALUE (WORKING SET) : 0.2450 REMARK 3 BIN FREE R VALUE : 0.2640 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 10.30 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 1035 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.008 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 : 102 REMARK 3 SOLVENT ATOMS : 607 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 19.70 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.20 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) : 0.19 REMARK 3 ESD FROM SIGMAA (A) : 0.15 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) : 0.21 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.16 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.006 REMARK 3 BOND ANGLES (DEGREES) : 1.300 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 22.20 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.840 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) : 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 : FLAT MODEL REMARK 3 KSOL : 0.37 REMARK 3 BSOL : 54.83 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 1JUE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 30-AUG-01. REMARK 100 THE DEPOSITION ID IS D_1000014196. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-SEP-00 REMARK 200 TEMPERATURE (KELVIN) : 120.0 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.933 REMARK 200 MONOCHROMATOR : TRIANGULAR 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 : 66536 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 2.800 REMARK 200 R MERGE (I) : 0.04300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 22.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.84 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.9 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.24800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.400 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 (%): 54.25 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.69 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 6K, NA-ACETATE, TRIS-HCL, PH 8.5, REMARK 280 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 54.07250 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: 7790 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21740 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -57.0 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: 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 MET A 1 N - CA - CB ANGL. DEV. = -14.3 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 CYS A 23 28.02 -151.78 REMARK 500 SER A 129 15.75 -145.54 REMARK 500 ALA A 140 1.20 -67.67 REMARK 500 PHE A 156 -28.03 -144.31 REMARK 500 GLU A 252 -35.29 -132.37 REMARK 500 PHE A 304 -3.26 -141.93 REMARK 500 CYS B 23 28.12 -151.90 REMARK 500 SER B 129 15.73 -145.12 REMARK 500 ALA B 140 0.50 -67.11 REMARK 500 PHE B 156 -28.00 -144.37 REMARK 500 GLU B 252 -35.02 -132.58 REMARK 500 PHE B 304 -3.16 -141.56 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 MG A 850 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LYS A 33 O REMARK 620 2 SER A 35 O 98.8 REMARK 620 3 HOH A1023 O 82.0 89.8 REMARK 620 4 HOH A1038 O 164.0 89.1 84.1 REMARK 620 5 HOH A1115 O 82.4 174.9 95.2 91.0 REMARK 620 6 HOH A1129 O 97.9 85.8 175.6 96.5 89.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 850 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LYS B 33 O REMARK 620 2 SER B 35 O 96.1 REMARK 620 3 HOH B1923 O 78.4 86.7 REMARK 620 4 HOH B1968 O 162.5 89.2 85.3 REMARK 620 5 HOH B2084 O 98.6 82.6 168.5 98.6 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 850 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 1800 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACY A 900 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACY B 1900 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1003 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1004 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 1005 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1DOR RELATED DB: PDB REMARK 900 1DOR CONTAINS NATIVE LACTOCOCCUS LACTIS DIHYDROOROTATE REMARK 900 DEHYDROGENASE A REMARK 900 RELATED ID: 2DOR RELATED DB: PDB REMARK 900 2DOR CONTAINS NATIVE LACTOCOCCUS LACTIS DIHYDROOROTATE REMARK 900 DEHYDROGENASE A COMPLEXED WITH OROTATE REMARK 900 RELATED ID: 1JQV RELATED DB: PDB REMARK 900 1JQV CONTAINS K213E MUTANT OF LACTOCOCCUS LACTIS DIHYDROOROTATE REMARK 900 DEHYDROGENASE A REMARK 900 RELATED ID: 1JQX RELATED DB: PDB REMARK 900 1JQX CONTAINS R57A MUTANT OF LACTOCOCCUS LACTIS DIHYDROOROTATE REMARK 900 DEHYDROGENASE A REMARK 900 RELATED ID: 1JRB RELATED DB: PDB REMARK 900 1JRB CONTAINS P56A MUTANT OF LACTOCOCCUS LACTIS DIHYDROOROTATE REMARK 900 DEHYDROGENASE A REMARK 900 RELATED ID: 1JRC RELATED DB: PDB REMARK 900 1JRC CONTAINS N67A MUTANT OF LACTOCOCCUS LACTIS DIHYDROOROTATE REMARK 900 DEHYDROGENASE A REMARK 900 RELATED ID: 1JUB RELATED DB: PDB REMARK 900 1JUB CONTAINS K136E MUTANT OF LACTOCOCCUS LACTIS DIHYDROOROTATE REMARK 900 DEHYDROGENASE A DBREF 1JUE A 1 311 UNP P54321 PYRDA_LACLC 1 311 DBREF 1JUE B 1 311 UNP P54321 PYRDA_LACLC 1 311 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 LYS 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 LYS 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 FMN A 800 31 HET ACY A 900 4 HET GOL A1003 6 HET GOL A1004 6 HET MG B 850 1 HET FMN B1800 31 HET ACY B1900 4 HET GOL B1001 6 HET GOL B1002 6 HET GOL B1005 6 HETNAM MG MAGNESIUM ION HETNAM FMN FLAVIN MONONUCLEOTIDE HETNAM ACY ACETIC ACID HETNAM GOL GLYCEROL HETSYN FMN RIBOFLAVIN MONOPHOSPHATE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 MG 2(MG 2+) FORMUL 4 FMN 2(C17 H21 N4 O9 P) FORMUL 5 ACY 2(C2 H4 O2) FORMUL 6 GOL 5(C3 H8 O3) FORMUL 14 HOH *607(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 GLU B 89 1 15 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 LEU B 268 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 GLU B 125 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 O LYS A 33 MG MG A 850 1555 1555 2.28 LINK O SER A 35 MG MG A 850 1555 1555 2.36 LINK MG MG A 850 O HOH A1023 1555 1555 2.47 LINK MG MG A 850 O HOH A1038 1555 1555 2.48 LINK MG MG A 850 O HOH A1115 1555 1555 2.53 LINK MG MG A 850 O HOH A1129 1555 1555 2.43 LINK O LYS B 33 MG MG B 850 1555 1555 2.35 LINK O SER B 35 MG MG B 850 1555 1555 2.38 LINK MG MG B 850 O HOH B1923 1555 1555 2.51 LINK MG MG B 850 O HOH B1968 1555 1555 2.46 LINK MG MG B 850 O HOH B2084 1555 1555 2.41 CISPEP 1 LEU A 55 PRO A 56 0 -0.64 CISPEP 2 SER A 191 VAL A 192 0 1.64 CISPEP 3 LEU B 55 PRO B 56 0 -0.55 CISPEP 4 SER B 191 VAL B 192 0 1.49 SITE 1 AC1 6 LYS A 33 SER A 35 HOH A1023 HOH A1038 SITE 2 AC1 6 HOH A1115 HOH A1129 SITE 1 AC2 5 LYS B 33 SER B 35 HOH B1923 HOH B1968 SITE 2 AC2 5 HOH B2084 SITE 1 AC3 24 ALA A 18 SER A 19 GLY A 20 LYS A 43 SITE 2 AC3 24 SER A 44 TYR A 58 ASN A 67 MET A 69 SITE 3 AC3 24 ASN A 127 LYS A 164 VAL A 192 ASN A 193 SITE 4 AC3 24 GLY A 221 ILE A 224 THR A 248 GLY A 249 SITE 5 AC3 24 GLY A 250 GLY A 271 THR A 272 ACY A 900 SITE 6 AC3 24 HOH A1006 HOH A1010 HOH A1015 HOH A1021 SITE 1 AC4 24 ALA B 18 SER B 19 GLY B 20 LYS B 43 SITE 2 AC4 24 SER B 44 TYR B 58 ASN B 67 MET B 69 SITE 3 AC4 24 ASN B 127 LYS B 164 VAL B 192 ASN B 193 SITE 4 AC4 24 GLY B 221 ILE B 224 THR B 248 GLY B 249 SITE 5 AC4 24 GLY B 250 GLY B 271 THR B 272 ACY B1900 SITE 6 AC4 24 HOH B1902 HOH B1905 HOH B1906 HOH B1926 SITE 1 AC5 7 LYS A 43 MET A 69 GLY A 70 LEU A 71 SITE 2 AC5 7 CYS A 130 ASN A 132 FMN A 800 SITE 1 AC6 7 LYS B 43 MET B 69 GLY B 70 LEU B 71 SITE 2 AC6 7 CYS B 130 ASN B 132 FMN B1800 SITE 1 AC7 6 LYS A 213 PHE A 216 LEU B 171 ALA B 234 SITE 2 AC7 6 ARG B 238 HOH B1972 SITE 1 AC8 7 LEU A 171 ALA A 234 ARG A 238 LYS B 213 SITE 2 AC8 7 ASP B 214 PHE B 216 HOH B1974 SITE 1 AC9 6 TYR A 168 PHE A 169 HIS A 173 HOH A1161 SITE 2 AC9 6 HOH A1251 HIS B 173 SITE 1 BC1 3 ALA A 9 LYS A 10 GLY A 94 SITE 1 BC2 4 ALA B 9 LYS B 10 GLU B 93 GLY B 94 CRYST1 53.146 108.145 66.019 90.00 103.82 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 0.018820 0.000000 0.004630 0.00000 SCALE2 0.000000 0.009250 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015600 0.00000