PDB Short entry for 4K9M HEADER LYASE 20-APR-13 4K9M TITLE CRYSTAL STRUCTURE OF THE HIS281ASN MUTANT OF BENZOYLFORMATE TITLE 2 DECARBOXYLASE FROM PSEUDOMONAS PUTIDA COMPND MOL_ID: 1; COMPND 2 MOLECULE: BENZOYLFORMATE DECARBOXYLASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: BFD, BFDC; COMPND 5 EC: 4.1.1.7; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS PUTIDA; SOURCE 3 ORGANISM_TAXID: 303; SOURCE 4 GENE: MDLC; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)PLYSS; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET24 KEYWDS THIAMINE DIPHOSPHATE, LYASE EXPDTA X-RAY DIFFRACTION AUTHOR H.R.BRODKIN,M.J.MCLEISH REVDAT 1 08-MAY-13 4K9M 0 JRNL AUTH H.R.BRODKIN,F.H.ANDREWS,A.C.MILNE,G.A.PETSKO,D.RINGE, JRNL AUTH 2 M.J.MCLEISH JRNL TITL CRYSTAL STRUCTURE OF THE HIS281ASN MUTANT OF BENZOYLFORMATE JRNL TITL 2 DECARBOXYLASE FROM PSEUDOMONAS PUTIDA JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.15 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.7.1_743) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VICENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE- REMARK 3 : KUNSTLEVE,LI-WEI HUNG,ROBERT IMMORMINO, REMARK 3 : TOM IOERGER,AIRLIE MCCOY,ERIK MCKEE,NIGEL REMARK 3 : MORIARTY,REETAL PAI,RANDY READ,JANE REMARK 3 : RICHARDSON,DAVID RICHARDSON,TOD ROMO,JIM REMARK 3 : SACCHETTINI,NICHOLAS SAUTER,JACOB SMITH, REMARK 3 : LAURENT STORONI,TOM TERWILLIGER,PETER REMARK 3 : ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.15 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 22.96 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 80.3 REMARK 3 NUMBER OF REFLECTIONS : 150662 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.141 REMARK 3 R VALUE (WORKING SET) : 0.141 REMARK 3 FREE R VALUE : 0.151 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 1.330 REMARK 3 FREE R VALUE TEST SET COUNT : 2000 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 22.9673 - 2.7712 0.99 13629 184 0.1411 0.1300 REMARK 3 2 2.7712 - 2.2001 1.00 13351 179 0.1356 0.1470 REMARK 3 3 2.2001 - 1.9222 1.00 13267 178 0.1314 0.1506 REMARK 3 4 1.9222 - 1.7465 1.00 13213 178 0.1326 0.1619 REMARK 3 5 1.7465 - 1.6214 0.99 13123 177 0.1289 0.1409 REMARK 3 6 1.6214 - 1.5258 0.99 13054 175 0.1260 0.1372 REMARK 3 7 1.5258 - 1.4494 0.99 12966 174 0.1279 0.1393 REMARK 3 8 1.4494 - 1.3863 0.98 12940 174 0.1417 0.1723 REMARK 3 9 1.3863 - 1.3329 0.96 12669 171 0.1570 0.1840 REMARK 3 10 1.3329 - 1.2870 0.80 10510 141 0.1766 0.1760 REMARK 3 11 1.2870 - 1.2467 0.62 8132 110 0.1997 0.2281 REMARK 3 12 1.2467 - 1.2111 0.47 6187 83 0.2254 0.2169 REMARK 3 13 1.2111 - 1.1792 0.29 3835 52 0.2558 0.3292 REMARK 3 14 1.1792 - 1.1504 0.14 1786 24 0.2818 0.3424 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 0.20 REMARK 3 SHRINKAGE RADIUS : 0.00 REMARK 3 K_SOL : 0.48 REMARK 3 B_SOL : 111.30 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.180 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 15.580 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) : -3.99420 REMARK 3 B22 (A**2) : 1.90350 REMARK 3 B33 (A**2) : 2.09070 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 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.007 4129 REMARK 3 ANGLE : 1.128 5669 REMARK 3 CHIRALITY : 0.091 642 REMARK 3 PLANARITY : 0.008 749 REMARK 3 DIHEDRAL : 12.935 1513 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4K9M COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 23-APR-13. REMARK 100 THE RCSB ID CODE IS RCSB079064. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-MAR-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 23-ID-D REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.95 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL CRYO-COOLED REMARK 200 SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 150662 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.150 REMARK 200 RESOLUTION RANGE LOW (A) : 23.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 80.4 REMARK 200 DATA REDUNDANCY : 12.900 REMARK 200 R MERGE (I) : NULL 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) : 1.15 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.19 REMARK 200 COMPLETENESS FOR SHELL (%) : 16.9 REMARK 200 DATA REDUNDANCY IN SHELL : 3.60 REMARK 200 R MERGE FOR SHELL (I) : 0.58500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: PDB ENTRY 1BFD REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.50 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.34 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 22% PEG400, 150 MM CALCIUM CHLORIDE, REMARK 280 100 MM TRIS, PH 8.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 298.0K 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 40.59600 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 47.79800 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 68.51850 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 40.59600 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 47.79800 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 68.51850 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 40.59600 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 47.79800 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 68.51850 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 40.59600 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 47.79800 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 68.51850 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 REMARK 350 TOTAL BURIED SURFACE AREA: 27570 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 59870 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -315.0 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 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 95.59600 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -1.000000 0.000000 0.000000 0.00000 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 95.59600 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 MG MG A 604 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 710 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 718 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 887 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 895 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1112 LIES ON A SPECIAL POSITION. 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 SER A 525 REMARK 465 HIS A 526 REMARK 465 HIS A 527 REMARK 465 HIS A 528 REMARK 465 HIS A 529 REMARK 465 HIS A 530 REMARK 465 HIS A 531 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 GLN A 188 OE1 NE2 REMARK 480 GLU A 419 CD OE1 OE2 REMARK 480 LYS A 504 NZ REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 CG GLU A 509 O HOH A 1284 1.70 REMARK 500 O HOH A 1308 O HOH A 1320 1.87 REMARK 500 O HOH A 1243 O HOH A 1314 1.99 REMARK 500 CD GLU A 509 O HOH A 1284 2.00 REMARK 500 OG1 THR A 377 O HOH A 1294 2.00 REMARK 500 O HOH A 1134 O HOH A 1163 2.08 REMARK 500 O HOH A 1243 O HOH A 1324 2.09 REMARK 500 O HOH A 1044 O HOH A 1200 2.10 REMARK 500 O HOH A 824 O HOH A 1001 2.11 REMARK 500 O HOH A 1120 O HOH A 1196 2.13 REMARK 500 O HOH A 1001 O HOH A 1216 2.17 REMARK 500 O HOH A 842 O HOH A 1296 2.18 REMARK 500 CG2 THR A 377 O HOH A 1294 2.18 REMARK 500 O HOH A 915 O HOH A 994 2.18 REMARK 500 O HOH A 1041 O HOH A 1106 2.19 REMARK 500 O HOH A 899 O HOH A 941 2.19 REMARK 500 O HOH A 1024 O HOH A 1239 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 1218 O HOH A 1321 7454 2.16 REMARK 500 O HOH A 1046 O HOH A 1075 3555 2.18 REMARK 500 REMARK 500 REMARK: NULL 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 THR A 338 N - CA - CB ANGL. DEV. = 12.2 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 SER A 71 -147.43 46.47 REMARK 500 LEU A 110 3.57 80.89 REMARK 500 ASN A 202 65.51 -152.62 REMARK 500 ASN A 281 -75.59 -138.82 REMARK 500 ASP A 284 64.89 -157.19 REMARK 500 PRO A 447 47.18 -83.74 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 ARG A 40 11.95 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE REMARK 500 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,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 MET A 79 22.6 L L OUTSIDE RANGE REMARK 500 THR A 338 19.9 L L OUTSIDE RANGE 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 A1302 DISTANCE = 6.35 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 CA A 602 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 TPP A 601 O2A REMARK 620 2 TPP A 601 O1B 79.7 REMARK 620 3 THR A 457 O 95.6 87.2 REMARK 620 4 ASN A 455 OD1 175.2 105.0 83.7 REMARK 620 5 ASP A 428 OD1 87.9 160.8 108.8 87.8 REMARK 620 6 HOH A 749 O 95.3 86.6 166.3 86.1 79.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 604 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LEU A 118 O REMARK 620 2 ARG A 120 O 90.5 REMARK 620 3 ASN A 117 O 75.4 92.5 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 603 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LEU A 174 O REMARK 620 2 SER A 140 OG 120.3 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TPP A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 603 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 604 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 605 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4K9K RELATED DB: PDB REMARK 900 THE HIS281TYR MUTANT OF BENZOYLFORMATE DECARBOXYLASE FROM REMARK 900 PSEUDOMONAS PUTIDA REMARK 900 RELATED ID: 4K9L RELATED DB: PDB REMARK 900 THE HIS281THR MUTANT OF BENZOYLFORMATE DECARBOXYLASE FROM REMARK 900 PSEUDOMONAS PUTIDA REMARK 900 RELATED ID: 4K9N RELATED DB: PDB REMARK 900 THE ALA460ILE MUTANT OF BENZOYLFORMATE DECARBOXYLASE FROM REMARK 900 PSEUDOMONAS PUTIDA REMARK 900 RELATED ID: 4K9O RELATED DB: PDB REMARK 900 THE PHE397ALA MUTANT OF BENZOYLFORMATE DECARBOXYLASE FROM REMARK 900 PSEUDOMONAS PUTIDA REMARK 900 RELATED ID: 4K9P RELATED DB: PDB REMARK 900 THE HIS281TYR/ALA460ILE DOUBLE MUTANT OF BENZOYLFORMATE REMARK 900 DECARBOXYLASE FROM PSEUDOMONAS PUTIDA DBREF 4K9M A 2 525 UNP P20906 MDLC_PSEPU 2 525 SEQADV 4K9M ASN A 281 UNP P20906 HIS 281 ENGINEERED MUTATION SEQADV 4K9M HIS A 526 UNP P20906 EXPRESSION TAG SEQADV 4K9M HIS A 527 UNP P20906 EXPRESSION TAG SEQADV 4K9M HIS A 528 UNP P20906 EXPRESSION TAG SEQADV 4K9M HIS A 529 UNP P20906 EXPRESSION TAG SEQADV 4K9M HIS A 530 UNP P20906 EXPRESSION TAG SEQADV 4K9M HIS A 531 UNP P20906 EXPRESSION TAG SEQRES 1 A 530 ALA SER VAL HIS GLY THR THR TYR GLU LEU LEU ARG ARG SEQRES 2 A 530 GLN GLY ILE ASP THR VAL PHE GLY ASN PRO GLY SER ASN SEQRES 3 A 530 GLU LEU PRO PHE LEU LYS ASP PHE PRO GLU ASP PHE ARG SEQRES 4 A 530 TYR ILE LEU ALA LEU GLN GLU ALA CYS VAL VAL GLY ILE SEQRES 5 A 530 ALA ASP GLY TYR ALA GLN ALA SER ARG LYS PRO ALA PHE SEQRES 6 A 530 ILE ASN LEU HIS SER ALA ALA GLY THR GLY ASN ALA MET SEQRES 7 A 530 GLY ALA LEU SER ASN ALA TRP ASN SER HIS SER PRO LEU SEQRES 8 A 530 ILE VAL THR ALA GLY GLN GLN THR ARG ALA MET ILE GLY SEQRES 9 A 530 VAL GLU ALA LEU LEU THR ASN VAL ASP ALA ALA ASN LEU SEQRES 10 A 530 PRO ARG PRO LEU VAL LYS TRP SER TYR GLU PRO ALA SER SEQRES 11 A 530 ALA ALA GLU VAL PRO HIS ALA MET SER ARG ALA ILE HIS SEQRES 12 A 530 MET ALA SER MET ALA PRO GLN GLY PRO VAL TYR LEU SER SEQRES 13 A 530 VAL PRO TYR ASP ASP TRP ASP LYS ASP ALA ASP PRO GLN SEQRES 14 A 530 SER HIS HIS LEU PHE ASP ARG HIS VAL SER SER SER VAL SEQRES 15 A 530 ARG LEU ASN ASP GLN ASP LEU ASP ILE LEU VAL LYS ALA SEQRES 16 A 530 LEU ASN SER ALA SER ASN PRO ALA ILE VAL LEU GLY PRO SEQRES 17 A 530 ASP VAL ASP ALA ALA ASN ALA ASN ALA ASP CYS VAL MET SEQRES 18 A 530 LEU ALA GLU ARG LEU LYS ALA PRO VAL TRP VAL ALA PRO SEQRES 19 A 530 SER ALA PRO ARG CYS PRO PHE PRO THR ARG HIS PRO CYS SEQRES 20 A 530 PHE ARG GLY LEU MET PRO ALA GLY ILE ALA ALA ILE SER SEQRES 21 A 530 GLN LEU LEU GLU GLY HIS ASP VAL VAL LEU VAL ILE GLY SEQRES 22 A 530 ALA PRO VAL PHE ARG TYR ASN GLN TYR ASP PRO GLY GLN SEQRES 23 A 530 TYR LEU LYS PRO GLY THR ARG LEU ILE SER VAL THR CYS SEQRES 24 A 530 ASP PRO LEU GLU ALA ALA ARG ALA PRO MET GLY ASP ALA SEQRES 25 A 530 ILE VAL ALA ASP ILE GLY ALA MET ALA SER ALA LEU ALA SEQRES 26 A 530 ASN LEU VAL GLU GLU SER SER ARG GLN LEU PRO THR ALA SEQRES 27 A 530 ALA PRO GLU PRO ALA LYS VAL ASP GLN ASP ALA GLY ARG SEQRES 28 A 530 LEU HIS PRO GLU THR VAL PHE ASP THR LEU ASN ASP MET SEQRES 29 A 530 ALA PRO GLU ASN ALA ILE TYR LEU ASN GLU SER THR SER SEQRES 30 A 530 THR THR ALA GLN MET TRP GLN ARG LEU ASN MET ARG ASN SEQRES 31 A 530 PRO GLY SER TYR TYR PHE CYS ALA ALA GLY GLY LEU GLY SEQRES 32 A 530 PHE ALA LEU PRO ALA ALA ILE GLY VAL GLN LEU ALA GLU SEQRES 33 A 530 PRO GLU ARG GLN VAL ILE ALA VAL ILE GLY ASP GLY SER SEQRES 34 A 530 ALA ASN TYR SER ILE SER ALA LEU TRP THR ALA ALA GLN SEQRES 35 A 530 TYR ASN ILE PRO THR ILE PHE VAL ILE MET ASN ASN GLY SEQRES 36 A 530 THR TYR GLY ALA LEU ARG TRP PHE ALA GLY VAL LEU GLU SEQRES 37 A 530 ALA GLU ASN VAL PRO GLY LEU ASP VAL PRO GLY ILE ASP SEQRES 38 A 530 PHE ARG ALA LEU ALA LYS GLY TYR GLY VAL GLN ALA LEU SEQRES 39 A 530 LYS ALA ASP ASN LEU GLU GLN LEU LYS GLY SER LEU GLN SEQRES 40 A 530 GLU ALA LEU SER ALA LYS GLY PRO VAL LEU ILE GLU VAL SEQRES 41 A 530 SER THR VAL SER HIS HIS HIS HIS HIS HIS HET TPP A 601 26 HET CA A 602 1 HET MG A 603 1 HET MG A 604 1 HET MG A 605 1 HETNAM TPP THIAMINE DIPHOSPHATE HETNAM CA CALCIUM ION HETNAM MG MAGNESIUM ION FORMUL 2 TPP C12 H19 N4 O7 P2 S 1+ FORMUL 3 CA CA 2+ FORMUL 4 MG 3(MG 2+) FORMUL 7 HOH *627(H2 O) HELIX 1 1 SER A 3 GLN A 15 1 13 HELIX 2 2 GLY A 25 ASN A 27 5 3 HELIX 3 3 GLU A 28 LYS A 33 1 6 HELIX 4 4 GLN A 46 ARG A 62 1 17 HELIX 5 5 SER A 71 ALA A 78 1 8 HELIX 6 6 ALA A 78 SER A 88 1 11 HELIX 7 7 THR A 100 GLY A 105 1 6 HELIX 8 8 ASP A 114 LEU A 118 5 5 HELIX 9 9 SER A 131 ALA A 133 5 3 HELIX 10 10 GLU A 134 MET A 148 1 15 HELIX 11 11 ASP A 161 TRP A 163 5 3 HELIX 12 12 ASP A 168 PHE A 175 5 8 HELIX 13 13 ASN A 186 ALA A 200 1 15 HELIX 14 14 GLY A 208 ASN A 215 1 8 HELIX 15 15 ALA A 216 LYS A 228 1 13 HELIX 16 16 GLY A 256 GLU A 265 1 10 HELIX 17 17 ASP A 301 ALA A 308 1 8 HELIX 18 18 ASP A 317 VAL A 329 1 13 HELIX 19 19 HIS A 354 ALA A 366 1 13 HELIX 20 20 SER A 376 SER A 378 5 3 HELIX 21 21 THR A 379 LEU A 387 1 9 HELIX 22 22 PHE A 405 GLU A 417 1 13 HELIX 23 23 GLY A 429 TYR A 433 5 5 HELIX 24 24 SER A 434 SER A 436 5 3 HELIX 25 25 ALA A 437 ASN A 445 1 9 HELIX 26 26 TYR A 458 LEU A 468 1 11 HELIX 27 27 ASP A 482 GLY A 491 1 10 HELIX 28 28 ASN A 499 ALA A 513 1 15 SHEET 1 A 6 ARG A 40 LEU A 43 0 SHEET 2 A 6 THR A 19 GLY A 22 1 N VAL A 20 O ILE A 42 SHEET 3 A 6 ALA A 65 HIS A 70 1 O PHE A 66 N PHE A 21 SHEET 4 A 6 LEU A 92 GLN A 98 1 O THR A 95 N LEU A 69 SHEET 5 A 6 VAL A 154 PRO A 159 1 O LEU A 156 N VAL A 94 SHEET 6 A 6 SER A 126 TYR A 127 1 N TYR A 127 O SER A 157 SHEET 1 B 6 PHE A 249 LEU A 252 0 SHEET 2 B 6 VAL A 231 VAL A 233 1 N VAL A 231 O ARG A 250 SHEET 3 B 6 ALA A 204 LEU A 207 1 N ILE A 205 O TRP A 232 SHEET 4 B 6 VAL A 269 ILE A 273 1 O ILE A 273 N VAL A 206 SHEET 5 B 6 ARG A 294 THR A 299 1 O VAL A 298 N VAL A 272 SHEET 6 B 6 ASP A 312 VAL A 315 1 O ILE A 314 N THR A 299 SHEET 1 C 6 TYR A 395 PHE A 397 0 SHEET 2 C 6 ILE A 371 GLU A 375 1 N ASN A 374 O TYR A 396 SHEET 3 C 6 VAL A 422 GLY A 427 1 O VAL A 425 N LEU A 373 SHEET 4 C 6 ILE A 449 ASN A 454 1 O VAL A 451 N ALA A 424 SHEET 5 C 6 VAL A 517 SER A 522 1 O VAL A 521 N ILE A 452 SHEET 6 C 6 GLN A 493 ALA A 497 1 N ALA A 497 O GLU A 520 LINK O2A TPP A 601 CA CA A 602 1555 1555 2.11 LINK O1B TPP A 601 CA CA A 602 1555 1555 2.21 LINK O THR A 457 CA CA A 602 1555 1555 2.24 LINK OD1 ASN A 455 CA CA A 602 1555 1555 2.27 LINK OD1 ASP A 428 CA CA A 602 1555 1555 2.29 LINK CA CA A 602 O HOH A 749 1555 1555 2.30 LINK O LEU A 118 MG MG A 604 1555 1555 2.50 LINK O ARG A 120 MG MG A 604 1555 1555 2.52 LINK O ASN A 117 MG MG A 604 1555 1555 2.68 LINK O LEU A 174 MG MG A 603 1555 1555 2.72 LINK OG SER A 140 MG MG A 603 1555 1555 2.74 CISPEP 1 ARG A 120 PRO A 121 0 10.32 CISPEP 2 ALA A 149 PRO A 150 0 -5.85 CISPEP 3 VAL A 277 PHE A 278 0 -18.62 SITE 1 AC1 25 ASN A 23 PRO A 24 GLY A 25 GLU A 47 SITE 2 AC1 25 HIS A 70 ASN A 77 THR A 377 SER A 378 SITE 3 AC1 25 GLY A 401 LEU A 403 GLY A 427 ASP A 428 SITE 4 AC1 25 GLY A 429 SER A 430 TYR A 433 ASN A 455 SITE 5 AC1 25 THR A 457 TYR A 458 GLY A 459 ALA A 460 SITE 6 AC1 25 LEU A 461 CA A 602 HOH A 749 HOH A 752 SITE 7 AC1 25 HOH A1062 SITE 1 AC2 5 ASP A 428 ASN A 455 THR A 457 TPP A 601 SITE 2 AC2 5 HOH A 749 SITE 1 AC3 5 GLN A 15 SER A 140 HIS A 144 LEU A 174 SITE 2 AC3 5 ARG A 177 SITE 1 AC4 3 ASN A 117 LEU A 118 ARG A 120 SITE 1 AC5 3 ARG A 184 ASP A 187 HOH A 908 CRYST1 81.192 95.596 137.037 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 0.012316 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010461 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007297 0.00000