HEADER OXIDOREDUCTASE 22-NOV-03 1V5F TITLE CRYSTAL STRUCTURE OF PYRUVATE OXIDASE COMPLEXED WITH FAD AND TPP, FROM TITLE 2 AEROCOCCUS VIRIDANS COMPND MOL_ID: 1; COMPND 2 MOLECULE: PYRUVATE OXIDASE; COMPND 3 CHAIN: A; COMPND 4 EC: 1.2.3.3 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: AEROCOCCUS VIRIDANS; SOURCE 3 ORGANISM_TAXID: 1377 KEYWDS OXIDOREDUCTASE, FLAVOPROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR M.T.HOSSAIN,K.SUZUKI,T.YAMAMOTO,S.IMAMURA,T.SEKIGUCHI,A.TAKENAKA REVDAT 7 25-OCT-23 1V5F 1 REMARK LINK REVDAT 6 13-JUL-11 1V5F 1 VERSN REVDAT 5 09-JUN-09 1V5F 1 REVDAT REVDAT 4 24-FEB-09 1V5F 1 VERSN REVDAT 3 02-DEC-08 1V5F 1 JRNL REVDAT 2 23-OCT-07 1V5F 1 JRNL REVDAT 1 28-JUN-05 1V5F 0 JRNL AUTH E.C.JUAN,M.M.HOQUE,M.T.HOSSAIN,T.YAMAMOTO,S.IMAMURA, JRNL AUTH 2 K.SUZUKI,T.SEKIGUCHI,A.TAKENAKA JRNL TITL THE STRUCTURES OF PYRUVATE OXIDASE FROM AEROCOCCUS VIRIDANS JRNL TITL 2 WITH COFACTORS AND WITH A REACTION INTERMEDIATE REVEAL THE JRNL TITL 3 FLEXIBILITY OF THE ACTIVE-SITE TUNNEL FOR CATALYSIS. JRNL REF ACTA CRYSTALLOGR.,SECT.F V. 63 900 2007 JRNL REFN ESSN 1744-3091 JRNL PMID 18007037 JRNL DOI 10.1107/S1744309107041012 REMARK 2 REMARK 2 RESOLUTION. 1.80 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 10.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 3.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 43636 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) : 0.161 REMARK 3 FREE R VALUE : 0.194 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 4405 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) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.86 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 41.20 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.1730 REMARK 3 BIN FREE R VALUE : 0.1870 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : 252 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.012 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4590 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 100 REMARK 3 SOLVENT ATOMS : 563 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) : 5.07000 REMARK 3 B22 (A**2) : 1.78000 REMARK 3 B33 (A**2) : -6.85000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.15 REMARK 3 ESD FROM SIGMAA (A) : NULL 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) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.005 REMARK 3 BOND ANGLES (DEGREES) : NULL REMARK 3 DIHEDRAL ANGLES (DEGREES) : 22.40 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.780 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 1V5F COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 27-NOV-03. REMARK 100 THE DEPOSITION ID IS D_1000006228. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-APR-03 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL44XU REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.90 REMARK 200 MONOCHROMATOR : ROTATED-INCLINED SI(111) DOUBLE REMARK 200 CRYSTAL MONOCHROMATOR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : BRUKER DIP-6040 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 56020 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 43.800 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.6 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.05400 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL 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) : 1.86 REMARK 200 COMPLETENESS FOR SHELL (%) : 91.8 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.33400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL 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: PDB ENTRY 1POX REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.43 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.45 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: AMMONIUM SULPHATE, THIAMINE REMARK 280 PYROPHOSPHATE, MAGNESIUM CLORIDE, PH 7, VAPOR DIFFUSION, HANGING REMARK 280 DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 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+1/2 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 0.00000 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 0.00000 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 39.06500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 53.02500 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 77.70000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 39.06500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 53.02500 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 77.70000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 39.06500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 53.02500 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 77.70000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 39.06500 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 53.02500 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 77.70000 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 35330 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 71050 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -450.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 78.13000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -1.000000 0.000000 0.000000 78.13000 REMARK 350 BIOMT2 3 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT1 4 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A2163 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2164 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2165 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2166 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2167 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2168 LIES ON A SPECIAL POSITION. 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 GLU A 471 REMARK 475 TYR A 472 REMARK 475 ALA A 473 REMARK 475 PHE A 474 REMARK 475 ILE A 475 REMARK 475 LYS A 476 REMARK 475 ASN A 477 REMARK 475 LYS A 478 REMARK 475 TYR A 479 REMARK 475 GLU A 480 REMARK 475 ASP A 481 REMARK 475 THR A 482 REMARK 475 ASN A 483 REMARK 475 LYS A 484 REMARK 475 ASN A 485 REMARK 475 LEU A 486 REMARK 475 PHE A 487 REMARK 475 GLY A 488 REMARK 475 VAL A 489 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 GLU A 42 46.85 38.94 REMARK 500 TYR A 258 -161.50 72.54 REMARK 500 PHE A 282 110.87 -39.23 REMARK 500 THR A 410 -158.09 -151.64 REMARK 500 THR A 448 -1.46 -140.88 REMARK 500 MET A 460 76.70 -119.93 REMARK 500 THR A 470 -96.87 55.03 REMARK 500 GLU A 480 -39.45 -143.11 REMARK 500 THR A 482 -42.68 -141.46 REMARK 500 LYS A 484 -10.30 -143.73 REMARK 500 LEU A 486 -128.40 -68.98 REMARK 500 PHE A 487 -121.79 -135.61 REMARK 500 VAL A 489 44.83 -142.19 REMARK 500 THR A 492 -105.89 -58.27 REMARK 500 ASP A 493 88.07 174.19 REMARK 500 LEU A 552 -35.04 -133.76 REMARK 500 TYR A 590 -26.20 -142.42 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 A1603 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 442 OD1 REMARK 620 2 ASN A 469 OD1 108.4 REMARK 620 3 TPP A1602 O1A 76.3 169.8 REMARK 620 4 TPP A1602 O3B 159.6 90.9 85.8 REMARK 620 5 HOH A1609 O 97.4 85.0 85.4 90.7 REMARK 620 6 HOH A1685 O 90.8 93.7 95.2 81.2 171.7 REMARK 620 N 1 2 3 4 5 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 1603 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1604 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1605 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1606 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1607 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FAD A 1601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TPP A 1602 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1POX RELATED DB: PDB REMARK 900 THE SAME PROTEIN FROM LACTOBACILLUS PLANTARUM REMARK 900 RELATED ID: 1V5E RELATED DB: PDB REMARK 900 PYRUVATE OXIDASE CONTAINING FAD REMARK 900 RELATED ID: 1V5G RELATED DB: PDB REMARK 900 PYRUVATE OXIDASE CONTAINING FAD AND TPP, AND SUBSTRATE PYRUVATE REMARK 999 REMARK 999 SEQUENCE REMARK 999 A SEQUENCE DATABASE REFERENCE FOR THIS PROTEIN DOES REMARK 999 NOT CURRENTLY EXIST. DBREF 1V5F A 4 592 PDB 1V5F 1V5F 4 592 SEQRES 1 A 589 ASN LYS ILE ASN ILE GLY LEU ALA VAL MET LYS ILE LEU SEQRES 2 A 589 GLU SER TRP GLY ALA ASP THR ILE TYR GLY ILE PRO SER SEQRES 3 A 589 GLY THR LEU SER SER LEU MET ASP ALA MET GLY GLU GLU SEQRES 4 A 589 GLU ASN ASN VAL LYS PHE LEU GLN VAL LYS HIS GLU GLU SEQRES 5 A 589 VAL GLY ALA MET ALA ALA VAL MET GLN SER LYS PHE GLY SEQRES 6 A 589 GLY ASN LEU GLY VAL THR VAL GLY SER GLY GLY PRO GLY SEQRES 7 A 589 ALA SER HIS LEU ILE ASN GLY LEU TYR ASP ALA ALA MET SEQRES 8 A 589 ASP ASN ILE PRO VAL VAL ALA ILE LEU GLY SER ARG PRO SEQRES 9 A 589 GLN ARG GLU LEU ASN MET ASP ALA PHE GLN GLU LEU ASN SEQRES 10 A 589 GLN ASN PRO MET TYR ASP HIS ILE ALA VAL TYR ASN ARG SEQRES 11 A 589 ARG VAL ALA TYR ALA GLU GLN LEU PRO LYS LEU VAL ASP SEQRES 12 A 589 GLU ALA ALA ARG MET ALA ILE ALA LYS ARG GLY VAL ALA SEQRES 13 A 589 VAL LEU GLU VAL PRO GLY ASP PHE ALA LYS VAL GLU ILE SEQRES 14 A 589 ASP ASN ASP GLN TRP TYR SER SER ALA ASN SER LEU ARG SEQRES 15 A 589 LYS TYR ALA PRO ILE ALA PRO ALA ALA GLN ASP ILE ASP SEQRES 16 A 589 ALA ALA VAL GLU LEU LEU ASN ASN SER LYS ARG PRO VAL SEQRES 17 A 589 ILE TYR ALA GLY ILE GLY THR MET GLY HIS GLY PRO ALA SEQRES 18 A 589 VAL GLN GLU LEU ALA ARG LYS ILE LYS ALA PRO VAL ILE SEQRES 19 A 589 THR THR GLY LYS ASN PHE GLU THR PHE GLU TRP ASP PHE SEQRES 20 A 589 GLU ALA LEU THR GLY SER THR TYR ARG VAL GLY TRP LYS SEQRES 21 A 589 PRO ALA ASN GLU THR ILE LEU GLU ALA ASP THR VAL LEU SEQRES 22 A 589 PHE ALA GLY SER ASN PHE PRO PHE SER GLU VAL GLU GLY SEQRES 23 A 589 THR PHE ARG ASN VAL ASP ASN PHE ILE GLN ILE ASP ILE SEQRES 24 A 589 ASP PRO ALA MET LEU GLY LYS ARG HIS HIS ALA ASP VAL SEQRES 25 A 589 ALA ILE LEU GLY ASP ALA ALA LEU ALA ILE ASP GLU ILE SEQRES 26 A 589 LEU ASN LYS VAL ASP ALA VAL GLU GLU SER ALA TRP TRP SEQRES 27 A 589 THR ALA ASN LEU LYS ASN ILE ALA ASN TRP ARG GLU TYR SEQRES 28 A 589 ILE ASN MET LEU GLU THR LYS GLU GLU GLY ASP LEU GLN SEQRES 29 A 589 PHE TYR GLN VAL TYR ASN ALA ILE ASN ASN HIS ALA ASP SEQRES 30 A 589 GLU ASP ALA ILE TYR SER ILE ASP VAL GLY ASN SER THR SEQRES 31 A 589 GLN THR SER ILE ARG HIS LEU HIS MET THR PRO LYS ASN SEQRES 32 A 589 MET TRP ARG THR SER PRO LEU PHE ALA THR MET GLY ILE SEQRES 33 A 589 ALA ILE PRO GLY GLY LEU GLY ALA LYS ASN THR TYR PRO SEQRES 34 A 589 ASP ARG GLN VAL TRP ASN ILE ILE GLY ASP GLY ALA PHE SEQRES 35 A 589 SER MET THR TYR PRO ASP VAL VAL THR ASN VAL ARG TYR SEQRES 36 A 589 ASN MET PRO VAL ILE ASN VAL VAL PHE SER ASN THR GLU SEQRES 37 A 589 TYR ALA PHE ILE LYS ASN LYS TYR GLU ASP THR ASN LYS SEQRES 38 A 589 ASN LEU PHE GLY VAL ASP PHE THR ASP VAL ASP TYR ALA SEQRES 39 A 589 LYS ILE ALA GLU ALA GLN GLY ALA LYS GLY PHE THR VAL SEQRES 40 A 589 SER ARG ILE GLU ASP MET ASP ARG VAL MET ALA GLU ALA SEQRES 41 A 589 VAL ALA ALA ASN LYS ALA GLY HIS THR VAL VAL ILE ASP SEQRES 42 A 589 CYS LYS ILE THR GLN ASP ARG PRO ILE PRO VAL GLU THR SEQRES 43 A 589 LEU LYS LEU ASP SER LYS LEU TYR SER GLU ASP GLU ILE SEQRES 44 A 589 LYS ALA TYR LYS GLU ARG TYR GLU ALA ALA ASN LEU VAL SEQRES 45 A 589 PRO PHE ARG GLU TYR LEU GLU ALA GLU GLY LEU GLU SER SEQRES 46 A 589 LYS TYR ILE LYS HET MG A1603 1 HET SO4 A1604 5 HET SO4 A1605 5 HET SO4 A1606 5 HET SO4 A1607 5 HET FAD A1601 53 HET TPP A1602 26 HETNAM MG MAGNESIUM ION HETNAM SO4 SULFATE ION HETNAM FAD FLAVIN-ADENINE DINUCLEOTIDE HETNAM TPP THIAMINE DIPHOSPHATE FORMUL 2 MG MG 2+ FORMUL 3 SO4 4(O4 S 2-) FORMUL 7 FAD C27 H33 N9 O15 P2 FORMUL 8 TPP C12 H19 N4 O7 P2 S 1+ FORMUL 9 HOH *563(H2 O) HELIX 1 1 ILE A 8 TRP A 19 1 12 HELIX 2 2 SER A 29 THR A 31 5 3 HELIX 3 3 LEU A 32 ASP A 37 1 6 HELIX 4 4 ALA A 38 MET A 39 5 2 HELIX 5 5 GLY A 40 ASN A 44 5 5 HELIX 6 6 HIS A 53 PHE A 67 1 15 HELIX 7 7 GLY A 79 HIS A 84 1 6 HELIX 8 8 LEU A 85 ASN A 96 1 12 HELIX 9 9 PRO A 107 LEU A 111 5 5 HELIX 10 10 GLN A 121 HIS A 127 1 7 HELIX 11 11 TYR A 137 GLU A 139 5 3 HELIX 12 12 GLN A 140 LYS A 155 1 16 HELIX 13 13 ASP A 166 LYS A 169 5 4 HELIX 14 14 ASP A 175 TRP A 177 5 3 HELIX 15 15 SER A 180 LEU A 184 5 5 HELIX 16 16 ALA A 193 SER A 207 1 15 HELIX 17 17 ILE A 216 MET A 219 5 4 HELIX 18 18 HIS A 221 LYS A 233 1 13 HELIX 19 19 ASN A 242 PHE A 246 5 5 HELIX 20 20 TRP A 262 LEU A 270 1 9 HELIX 21 21 ASP A 303 LEU A 307 5 5 HELIX 22 22 ASP A 320 VAL A 332 1 13 HELIX 23 23 SER A 338 THR A 360 1 23 HELIX 24 24 GLN A 367 ALA A 379 1 13 HELIX 25 25 GLY A 390 THR A 395 1 6 HELIX 26 26 SER A 396 HIS A 399 5 4 HELIX 27 27 ILE A 419 TYR A 431 1 13 HELIX 28 28 ASP A 442 TYR A 449 1 8 HELIX 29 29 ASP A 451 TYR A 458 1 8 HELIX 30 30 PHE A 474 LYS A 478 5 5 HELIX 31 31 ASP A 495 GLN A 503 1 9 HELIX 32 32 ARG A 512 ALA A 529 1 18 HELIX 33 33 SER A 558 GLU A 570 1 13 HELIX 34 34 PRO A 576 GLU A 584 1 9 SHEET 1 A 2 LYS A 5 ASN A 7 0 SHEET 2 A 2 GLU A 171 ASP A 173 -1 O ILE A 172 N ILE A 6 SHEET 1 B 6 LYS A 47 GLN A 50 0 SHEET 2 B 6 THR A 23 GLY A 26 1 N ILE A 24 O LEU A 49 SHEET 3 B 6 GLY A 72 GLY A 76 1 O VAL A 73 N TYR A 25 SHEET 4 B 6 VAL A 99 SER A 105 1 O GLY A 104 N GLY A 76 SHEET 5 B 6 VAL A 158 PRO A 164 1 O VAL A 163 N LEU A 103 SHEET 6 B 6 TYR A 131 ARG A 134 1 N TYR A 131 O VAL A 160 SHEET 1 C 5 VAL A 236 THR A 238 0 SHEET 2 C 5 PRO A 210 ALA A 214 1 N ILE A 212 O ILE A 237 SHEET 3 C 5 THR A 274 ALA A 278 1 O LEU A 276 N VAL A 211 SHEET 4 C 5 ASN A 296 ASP A 301 1 O ILE A 298 N VAL A 275 SHEET 5 C 5 VAL A 315 LEU A 318 1 O ILE A 317 N GLN A 299 SHEET 1 D 6 MET A 407 ARG A 409 0 SHEET 2 D 6 ILE A 384 ILE A 387 1 N TYR A 385 O MET A 407 SHEET 3 D 6 VAL A 436 GLY A 441 1 O TRP A 437 N SER A 386 SHEET 4 D 6 ILE A 463 SER A 468 1 O VAL A 465 N ASN A 438 SHEET 5 D 6 VAL A 533 LYS A 538 1 O ILE A 535 N ASN A 464 SHEET 6 D 6 LYS A 506 VAL A 510 1 N PHE A 508 O ASP A 536 LINK OD1 ASP A 442 MG MG A1603 1555 1555 2.20 LINK OD1 ASN A 469 MG MG A1603 1555 1555 2.21 LINK O1A TPP A1602 MG MG A1603 1555 1555 2.27 LINK O3B TPP A1602 MG MG A1603 1555 1555 2.28 LINK MG MG A1603 O HOH A1609 1555 1555 2.32 LINK MG MG A1603 O HOH A1685 1555 1555 2.34 SITE 1 AC1 5 ASP A 442 ASN A 469 TPP A1602 HOH A1609 SITE 2 AC1 5 HOH A1685 SITE 1 AC2 10 SER A 29 GLY A 30 THR A 31 SER A 77 SITE 2 AC2 10 GLN A 117 TPP A1602 HOH A1707 HOH A1845 SITE 3 AC2 10 HOH A1907 HOH A2054 SITE 1 AC3 7 LEU A 119 ASN A 120 HIS A 127 ARG A 133 SITE 2 AC3 7 HOH A1717 HOH A1792 HOH A1838 SITE 1 AC4 3 GLU A 336 GLU A 337 HOH A1847 SITE 1 AC5 6 ARG A 209 LEU A 586 GLU A 587 HOH A1837 SITE 2 AC5 6 HOH A1883 HOH A1958 SITE 1 AC6 32 PHE A 116 GLY A 215 ILE A 216 GLY A 217 SITE 2 AC6 32 THR A 239 GLY A 240 LYS A 241 THR A 257 SITE 3 AC6 32 TYR A 258 ARG A 259 VAL A 260 GLY A 279 SITE 4 AC6 32 SER A 280 ASN A 281 PHE A 282 PHE A 284 SITE 5 AC6 32 ASP A 301 ILE A 302 ASP A 303 MET A 306 SITE 6 AC6 32 GLY A 319 ASP A 320 ALA A 321 SER A 411 SITE 7 AC6 32 PRO A 412 ALA A 415 HOH A1645 HOH A1706 SITE 8 AC6 32 HOH A1712 HOH A1787 HOH A1809 HOH A1836 SITE 1 AC7 19 GLU A 54 SER A 77 PRO A 80 HIS A 84 SITE 2 AC7 19 ASN A 391 SER A 392 ALA A 415 MET A 417 SITE 3 AC7 19 GLY A 441 ASP A 442 GLY A 443 ALA A 444 SITE 4 AC7 19 ASN A 469 MG A1603 SO4 A1604 HOH A1639 SITE 5 AC7 19 HOH A1685 HOH A1721 HOH A1723 CRYST1 78.130 106.050 155.400 90.00 90.00 90.00 I 2 2 2 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.012799 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009430 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006435 0.00000