HEADER RACEMASE 11-AUG-04 1W61 TITLE PROLINE RACEMASE IN COMPLEX WITH 2 MOLECULES OF PYRROLE-2-CARBOXYLIC TITLE 2 ACID (HOLO FORM) COMPND MOL_ID: 1; COMPND 2 MOLECULE: B-CELL MITOGEN; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: PROLINE RACEMASE; COMPND 5 EC: 5.1.1.4; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: TRYPANOSOMA CRUZI; SOURCE 3 ORGANISM_TAXID: 5693; SOURCE 4 STRAIN: CL BRENER; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET28B KEYWDS RACEMASE, RACEMASE PYRIDOXAL PHOSPHATE-INDEPENDENT, STEREO INVERSION, KEYWDS 2 B-CELL MITOGEN, ACID/BASE CATALYSIS, HOMODIMER, ALPHA/BETA DOMAINS EXPDTA X-RAY DIFFRACTION AUTHOR A.BUSCHIAZZO,P.ALZARI REVDAT 4 01-MAY-24 1W61 1 REMARK REVDAT 3 13-JUL-11 1W61 1 VERSN REVDAT 2 24-FEB-09 1W61 1 VERSN REVDAT 1 03-FEB-06 1W61 0 JRNL AUTH A.BUSCHIAZZO,M.GOYTIA,F.SHAEFFER,W.DEGRAVE,W.SHEPARD, JRNL AUTH 2 C.GREGOIRE,N.CHAMOND,A.COSSON,A.BERNEMAN,N.COATNOAN, JRNL AUTH 3 P.ALZARI,P.MINOPRIO JRNL TITL CRYSTAL STRUCTURE,CATALYTIC MECHANISM AND MITOGENIC JRNL TITL 2 PROPERTIES OF TRYPANOSOMA CRUZI PROLINE RACEMASE JRNL REF PROC.NATL.ACAD.SCI.USA V. 103 1705 2006 JRNL REFN ISSN 0027-8424 JRNL PMID 16446443 JRNL DOI 10.1073/PNAS.0509010103 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0003 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 3 NUMBER OF REFLECTIONS : 46958 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.150 REMARK 3 R VALUE (WORKING SET) : 0.148 REMARK 3 FREE R VALUE : 0.193 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.040 REMARK 3 FREE R VALUE TEST SET COUNT : 2331 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.15 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2961 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.1410 REMARK 3 BIN FREE R VALUE SET COUNT : 152 REMARK 3 BIN FREE R VALUE : 0.2270 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5374 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 16 REMARK 3 SOLVENT ATOMS : 358 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 23.92 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.60 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.42500 REMARK 3 B22 (A**2) : -0.74400 REMARK 3 B33 (A**2) : 0.18300 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.72700 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.164 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.149 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.093 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.436 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.964 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.942 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5501 ; 0.019 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 5025 ; 0.006 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7472 ; 1.720 ; 1.951 REMARK 3 BOND ANGLES OTHERS (DEGREES): 11695 ; 0.886 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 708 ; 6.900 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 235 ;36.855 ;24.681 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 887 ;15.406 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 28 ;13.610 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 849 ; 0.108 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6202 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1069 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 955 ; 0.195 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 4902 ; 0.198 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2682 ; 0.175 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 3090 ; 0.091 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 345 ; 0.144 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 15 ; 0.346 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 63 ; 0.289 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 19 ; 0.227 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 4486 ; 1.778 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5703 ; 1.696 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2224 ; 3.014 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1769 ; 4.239 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 44 A 186 REMARK 3 RESIDUE RANGE : A 369 A 393 REMARK 3 ORIGIN FOR THE GROUP (A): 12.8120 0.6530 13.8120 REMARK 3 T TENSOR REMARK 3 T11: 0.0111 T22: -0.0448 REMARK 3 T33: -0.0537 T12: -0.0031 REMARK 3 T13: 0.0023 T23: -0.0013 REMARK 3 L TENSOR REMARK 3 L11: 0.4959 L22: 1.3509 REMARK 3 L33: 0.7505 L12: 0.1470 REMARK 3 L13: -0.3249 L23: -0.4066 REMARK 3 S TENSOR REMARK 3 S11: -0.0056 S12: 0.0021 S13: -0.0362 REMARK 3 S21: -0.2266 S22: -0.0123 S23: -0.0187 REMARK 3 S31: 0.1498 S32: -0.0386 S33: 0.0178 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 190 A 367 REMARK 3 ORIGIN FOR THE GROUP (A): 17.5370 -1.1960 36.4810 REMARK 3 T TENSOR REMARK 3 T11: 0.0147 T22: -0.0080 REMARK 3 T33: -0.0702 T12: -0.0048 REMARK 3 T13: -0.0408 T23: 0.0368 REMARK 3 L TENSOR REMARK 3 L11: 0.6915 L22: 1.6905 REMARK 3 L33: 0.7799 L12: -0.1605 REMARK 3 L13: 0.1626 L23: -0.6771 REMARK 3 S TENSOR REMARK 3 S11: -0.0802 S12: -0.1286 S13: -0.0168 REMARK 3 S21: 0.3087 S22: -0.0218 S23: -0.1823 REMARK 3 S31: -0.1216 S32: 0.0559 S33: 0.1019 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 44 B 186 REMARK 3 RESIDUE RANGE : B 369 B 393 REMARK 3 ORIGIN FOR THE GROUP (A): 11.7610 26.9840 5.2930 REMARK 3 T TENSOR REMARK 3 T11: 0.0066 T22: -0.0309 REMARK 3 T33: -0.0612 T12: -0.0086 REMARK 3 T13: 0.0020 T23: -0.0013 REMARK 3 L TENSOR REMARK 3 L11: 0.5475 L22: 0.8366 REMARK 3 L33: 0.6733 L12: 0.0540 REMARK 3 L13: 0.0776 L23: -0.3367 REMARK 3 S TENSOR REMARK 3 S11: -0.0303 S12: -0.0055 S13: 0.0240 REMARK 3 S21: -0.1039 S22: 0.0310 S23: -0.0137 REMARK 3 S31: 0.0037 S32: -0.0201 S33: -0.0007 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 190 B 367 REMARK 3 ORIGIN FOR THE GROUP (A): 28.6770 40.1050 14.4330 REMARK 3 T TENSOR REMARK 3 T11: -0.0462 T22: -0.0344 REMARK 3 T33: -0.0072 T12: -0.0400 REMARK 3 T13: 0.0421 T23: -0.0349 REMARK 3 L TENSOR REMARK 3 L11: 0.8029 L22: 1.0398 REMARK 3 L33: 0.8975 L12: 0.0454 REMARK 3 L13: -0.1775 L23: 0.2090 REMARK 3 S TENSOR REMARK 3 S11: 0.0510 S12: -0.0945 S13: 0.0955 REMARK 3 S21: -0.0264 S22: 0.0435 S23: -0.1807 REMARK 3 S31: -0.0774 S32: 0.1254 S33: -0.0944 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK BULK SOLVENT REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. REMARK 4 REMARK 4 1W61 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 11-AUG-04. REMARK 100 THE DEPOSITION ID IS D_1290020742. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 110.0 REMARK 200 PH : 5.60 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID29 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0072 REMARK 200 MONOCHROMATOR : SI(111) CRYSTAL REMARK 200 OPTICS : TOROIDAL MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 46967 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 69.200 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 200 DATA REDUNDANCY : 3.700 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.21 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.1 REMARK 200 DATA REDUNDANCY IN SHELL : 3.40 REMARK 200 R MERGE FOR SHELL (I) : 0.13000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 7.700 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: MODEL OF THE SAME PROTEIN OBTAINED BY SAD REMARK 200 REMARK 200 REMARK: THE INITIAL MODEL WAS OBTAINED USING ANOMALOUS DIFFRACTION REMARK 200 ON SE-MET SUBSTITUTED CRYSTALS. THE REFINEMENT OF THIS INITIAL REMARK 200 MODEL WAS NOT COMPLETED -RES 3 ANGSTROMS- BUT USED SUCCESFULLY REMARK 200 AS MOLECULAR REPLACEMENT PROBE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.80 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.50 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 15% PEG 4000,100MM NH4ACETATE 50MM REMARK 280 NA3CITRATE.2H2O,PH5.6, PH 5.60 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 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+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 65.57650 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 45.60450 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 65.57650 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 45.60450 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 1 REMARK 465 GLY A 2 REMARK 465 GLN A 3 REMARK 465 GLU A 4 REMARK 465 LYS A 5 REMARK 465 LEU A 6 REMARK 465 LEU A 7 REMARK 465 PHE A 8 REMARK 465 ASP A 9 REMARK 465 GLN A 10 REMARK 465 LYS A 11 REMARK 465 TYR A 12 REMARK 465 LYS A 13 REMARK 465 ILE A 14 REMARK 465 ILE A 15 REMARK 465 LYS A 16 REMARK 465 GLY A 17 REMARK 465 GLU A 18 REMARK 465 LYS A 19 REMARK 465 LYS A 20 REMARK 465 GLU A 21 REMARK 465 LYS A 22 REMARK 465 LYS A 23 REMARK 465 LYS A 24 REMARK 465 ASN A 25 REMARK 465 GLN A 26 REMARK 465 ARG A 27 REMARK 465 ALA A 28 REMARK 465 ASN A 29 REMARK 465 ARG A 30 REMARK 465 ARG A 31 REMARK 465 GLU A 32 REMARK 465 HIS A 33 REMARK 465 GLN A 34 REMARK 465 GLN A 35 REMARK 465 LYS A 36 REMARK 465 ARG A 37 REMARK 465 GLU A 38 REMARK 465 ILE A 39 REMARK 465 MET A 40 REMARK 465 ARG A 41 REMARK 465 ILE A 395 REMARK 465 TRP A 396 REMARK 465 SER A 397 REMARK 465 SER A 398 REMARK 465 SER A 399 REMARK 465 VAL A 400 REMARK 465 ASP A 401 REMARK 465 LYS A 402 REMARK 465 LEU A 403 REMARK 465 ALA A 404 REMARK 465 ALA A 405 REMARK 465 ALA A 406 REMARK 465 LEU A 407 REMARK 465 GLU A 408 REMARK 465 HIS A 409 REMARK 465 HIS A 410 REMARK 465 HIS A 411 REMARK 465 HIS A 412 REMARK 465 HIS A 413 REMARK 465 HIS A 414 REMARK 465 MET B 1 REMARK 465 GLY B 2 REMARK 465 GLN B 3 REMARK 465 GLU B 4 REMARK 465 LYS B 5 REMARK 465 LEU B 6 REMARK 465 LEU B 7 REMARK 465 PHE B 8 REMARK 465 ASP B 9 REMARK 465 GLN B 10 REMARK 465 LYS B 11 REMARK 465 TYR B 12 REMARK 465 LYS B 13 REMARK 465 ILE B 14 REMARK 465 ILE B 15 REMARK 465 LYS B 16 REMARK 465 GLY B 17 REMARK 465 GLU B 18 REMARK 465 LYS B 19 REMARK 465 LYS B 20 REMARK 465 GLU B 21 REMARK 465 LYS B 22 REMARK 465 LYS B 23 REMARK 465 LYS B 24 REMARK 465 ASN B 25 REMARK 465 GLN B 26 REMARK 465 ARG B 27 REMARK 465 ALA B 28 REMARK 465 ASN B 29 REMARK 465 ARG B 30 REMARK 465 ARG B 31 REMARK 465 GLU B 32 REMARK 465 HIS B 33 REMARK 465 GLN B 34 REMARK 465 GLN B 35 REMARK 465 LYS B 36 REMARK 465 ARG B 37 REMARK 465 GLU B 38 REMARK 465 ILE B 39 REMARK 465 MET B 40 REMARK 465 ARG B 41 REMARK 465 SER B 399 REMARK 465 VAL B 400 REMARK 465 ASP B 401 REMARK 465 LYS B 402 REMARK 465 LEU B 403 REMARK 465 ALA B 404 REMARK 465 ALA B 405 REMARK 465 ALA B 406 REMARK 465 LEU B 407 REMARK 465 GLU B 408 REMARK 465 HIS B 409 REMARK 465 HIS B 410 REMARK 465 HIS B 411 REMARK 465 HIS B 412 REMARK 465 HIS B 413 REMARK 465 HIS B 414 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 PHE A 42 CB CG CD1 CD2 CE1 CE2 CZ REMARK 470 LYS A 43 CB CG CD CE NZ REMARK 470 LYS A 152 CG CD CE NZ REMARK 470 GLU A 178 CG CD OE1 OE2 REMARK 470 PHE B 42 CB CG CD1 CD2 CE1 CE2 CZ REMARK 470 LYS B 43 CB CG CD CE NZ REMARK 470 LYS B 152 CG CD CE NZ REMARK 470 GLU B 178 CG CD OE1 OE2 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 O HOH A 2151 O HOH A 2152 2.04 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 ASP A 115 CB - CG - OD2 ANGL. DEV. = 7.6 DEGREES REMARK 500 ARG B 89 NE - CZ - NH1 ANGL. DEV. = 5.9 DEGREES REMARK 500 ARG B 89 NE - CZ - NH2 ANGL. DEV. = -5.4 DEGREES REMARK 500 ASP B 115 CB - CG - OD2 ANGL. DEV. = 5.7 DEGREES REMARK 500 ASP B 231 CB - CG - OD2 ANGL. DEV. = 6.1 DEGREES REMARK 500 ASP B 353 CB - CG - OD2 ANGL. DEV. = 5.5 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 LYS A 43 -76.43 -62.97 REMARK 500 SER A 175 -58.06 -17.12 REMARK 500 ASN A 266 22.96 -146.22 REMARK 500 ARG A 293 55.20 28.18 REMARK 500 CYS A 300 111.05 76.35 REMARK 500 HIS B 98 -178.53 -172.21 REMARK 500 PRO B 150 173.83 -57.68 REMARK 500 SER B 175 -82.71 8.87 REMARK 500 SER B 179 20.64 -140.96 REMARK 500 ASN B 266 28.83 -144.47 REMARK 500 ARG B 293 46.93 36.26 REMARK 500 CYS B 300 109.06 82.24 REMARK 500 REMARK 500 REMARK: NULL REMARK 700 REMARK 700 SHEET REMARK 700 THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN REMARK 700 ORDER TO REPRESENT THIS FEATURE IN THE SHEET RECORDS BELOW, REMARK 700 TWO SHEETS ARE DEFINED. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PYC A 700 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PYC B 700 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1W62 RELATED DB: PDB REMARK 900 PROLINE RACEMASE IN COMPLEX WITH ONE MOLECULE OF PYRROLE-2- REMARK 900 CARBOXYLIC ACID (HEMI FORM) REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE FIRST 31 AA IN Q9NCP4 CONSTITUTE A SIGNAL PEPTIDE AND REMARK 999 THEY WERE REMOVED IN THE CONSTRUCTION USED FOR REMARK 999 CRYSTALLIZATION. THE LAST 21 RESIDUES IN THE CRYSTALLIZED REMARK 999 PROTEIN ARE CODED BY THE EXPRESSION PLASMID (INCLUDES THE REMARK 999 6XHIS-TAG) DBREF 1W61 A 1 1 PDB 1W61 1W61 1 1 DBREF 1W61 A 2 393 UNP Q9NCP4 Q9NCP4 32 423 DBREF 1W61 A 394 414 PDB 1W61 1W61 394 414 DBREF 1W61 B 1 1 PDB 1W61 1W61 1 1 DBREF 1W61 B 2 393 UNP Q9NCP4 Q9NCP4 32 423 DBREF 1W61 B 394 414 PDB 1W61 1W61 394 414 SEQRES 1 A 414 MET GLY GLN GLU LYS LEU LEU PHE ASP GLN LYS TYR LYS SEQRES 2 A 414 ILE ILE LYS GLY GLU LYS LYS GLU LYS LYS LYS ASN GLN SEQRES 3 A 414 ARG ALA ASN ARG ARG GLU HIS GLN GLN LYS ARG GLU ILE SEQRES 4 A 414 MET ARG PHE LYS LYS SER PHE THR CYS ILE ASP MET HIS SEQRES 5 A 414 THR GLU GLY GLU ALA ALA ARG ILE VAL THR SER GLY LEU SEQRES 6 A 414 PRO HIS ILE PRO GLY SER ASN MET ALA GLU LYS LYS ALA SEQRES 7 A 414 TYR LEU GLN GLU ASN MET ASP TYR LEU ARG ARG GLY ILE SEQRES 8 A 414 MET LEU GLU PRO ARG GLY HIS ASP ASP MET PHE GLY ALA SEQRES 9 A 414 PHE LEU PHE ASP PRO ILE GLU GLU GLY ALA ASP LEU GLY SEQRES 10 A 414 ILE VAL PHE MET ASP THR GLY GLY TYR LEU ASN MET CYS SEQRES 11 A 414 GLY HIS ASN SER ILE ALA ALA VAL THR ALA ALA VAL GLU SEQRES 12 A 414 THR GLY ILE VAL SER VAL PRO ALA LYS ALA THR ASN VAL SEQRES 13 A 414 PRO VAL VAL LEU ASP THR PRO ALA GLY LEU VAL ARG GLY SEQRES 14 A 414 THR ALA HIS LEU GLN SER GLY THR GLU SER GLU VAL SER SEQRES 15 A 414 ASN ALA SER ILE ILE ASN VAL PRO SER PHE LEU TYR GLN SEQRES 16 A 414 GLN ASP VAL VAL VAL VAL LEU PRO LYS PRO TYR GLY GLU SEQRES 17 A 414 VAL ARG VAL ASP ILE ALA PHE GLY GLY ASN PHE PHE ALA SEQRES 18 A 414 ILE VAL PRO ALA GLU GLN LEU GLY ILE ASP ILE SER VAL SEQRES 19 A 414 GLN ASN LEU SER ARG LEU GLN GLU ALA GLY GLU LEU LEU SEQRES 20 A 414 ARG THR GLU ILE ASN ARG SER VAL LYS VAL GLN HIS PRO SEQRES 21 A 414 GLN LEU PRO HIS ILE ASN THR VAL ASP CYS VAL GLU ILE SEQRES 22 A 414 TYR GLY PRO PRO THR ASN PRO GLU ALA ASN TYR LYS ASN SEQRES 23 A 414 VAL VAL ILE PHE GLY ASN ARG GLN ALA ASP ARG SER PRO SEQRES 24 A 414 CYS GLY THR GLY THR SER ALA LYS MET ALA THR LEU TYR SEQRES 25 A 414 ALA LYS GLY GLN LEU ARG ILE GLY GLU THR PHE VAL TYR SEQRES 26 A 414 GLU SER ILE LEU GLY SER LEU PHE GLN GLY ARG VAL LEU SEQRES 27 A 414 GLY GLU GLU ARG ILE PRO GLY VAL LYS VAL PRO VAL THR SEQRES 28 A 414 LYS ASP ALA GLU GLU GLY MET LEU VAL VAL THR ALA GLU SEQRES 29 A 414 ILE THR GLY LYS ALA PHE ILE MET GLY PHE ASN THR MET SEQRES 30 A 414 LEU PHE ASP PRO THR ASP PRO PHE LYS ASN GLY PHE THR SEQRES 31 A 414 LEU LYS GLN TYR ILE TRP SER SER SER VAL ASP LYS LEU SEQRES 32 A 414 ALA ALA ALA LEU GLU HIS HIS HIS HIS HIS HIS SEQRES 1 B 414 MET GLY GLN GLU LYS LEU LEU PHE ASP GLN LYS TYR LYS SEQRES 2 B 414 ILE ILE LYS GLY GLU LYS LYS GLU LYS LYS LYS ASN GLN SEQRES 3 B 414 ARG ALA ASN ARG ARG GLU HIS GLN GLN LYS ARG GLU ILE SEQRES 4 B 414 MET ARG PHE LYS LYS SER PHE THR CYS ILE ASP MET HIS SEQRES 5 B 414 THR GLU GLY GLU ALA ALA ARG ILE VAL THR SER GLY LEU SEQRES 6 B 414 PRO HIS ILE PRO GLY SER ASN MET ALA GLU LYS LYS ALA SEQRES 7 B 414 TYR LEU GLN GLU ASN MET ASP TYR LEU ARG ARG GLY ILE SEQRES 8 B 414 MET LEU GLU PRO ARG GLY HIS ASP ASP MET PHE GLY ALA SEQRES 9 B 414 PHE LEU PHE ASP PRO ILE GLU GLU GLY ALA ASP LEU GLY SEQRES 10 B 414 ILE VAL PHE MET ASP THR GLY GLY TYR LEU ASN MET CYS SEQRES 11 B 414 GLY HIS ASN SER ILE ALA ALA VAL THR ALA ALA VAL GLU SEQRES 12 B 414 THR GLY ILE VAL SER VAL PRO ALA LYS ALA THR ASN VAL SEQRES 13 B 414 PRO VAL VAL LEU ASP THR PRO ALA GLY LEU VAL ARG GLY SEQRES 14 B 414 THR ALA HIS LEU GLN SER GLY THR GLU SER GLU VAL SER SEQRES 15 B 414 ASN ALA SER ILE ILE ASN VAL PRO SER PHE LEU TYR GLN SEQRES 16 B 414 GLN ASP VAL VAL VAL VAL LEU PRO LYS PRO TYR GLY GLU SEQRES 17 B 414 VAL ARG VAL ASP ILE ALA PHE GLY GLY ASN PHE PHE ALA SEQRES 18 B 414 ILE VAL PRO ALA GLU GLN LEU GLY ILE ASP ILE SER VAL SEQRES 19 B 414 GLN ASN LEU SER ARG LEU GLN GLU ALA GLY GLU LEU LEU SEQRES 20 B 414 ARG THR GLU ILE ASN ARG SER VAL LYS VAL GLN HIS PRO SEQRES 21 B 414 GLN LEU PRO HIS ILE ASN THR VAL ASP CYS VAL GLU ILE SEQRES 22 B 414 TYR GLY PRO PRO THR ASN PRO GLU ALA ASN TYR LYS ASN SEQRES 23 B 414 VAL VAL ILE PHE GLY ASN ARG GLN ALA ASP ARG SER PRO SEQRES 24 B 414 CYS GLY THR GLY THR SER ALA LYS MET ALA THR LEU TYR SEQRES 25 B 414 ALA LYS GLY GLN LEU ARG ILE GLY GLU THR PHE VAL TYR SEQRES 26 B 414 GLU SER ILE LEU GLY SER LEU PHE GLN GLY ARG VAL LEU SEQRES 27 B 414 GLY GLU GLU ARG ILE PRO GLY VAL LYS VAL PRO VAL THR SEQRES 28 B 414 LYS ASP ALA GLU GLU GLY MET LEU VAL VAL THR ALA GLU SEQRES 29 B 414 ILE THR GLY LYS ALA PHE ILE MET GLY PHE ASN THR MET SEQRES 30 B 414 LEU PHE ASP PRO THR ASP PRO PHE LYS ASN GLY PHE THR SEQRES 31 B 414 LEU LYS GLN TYR ILE TRP SER SER SER VAL ASP LYS LEU SEQRES 32 B 414 ALA ALA ALA LEU GLU HIS HIS HIS HIS HIS HIS HET PYC A 700 8 HET PYC B 700 8 HETNAM PYC PYRROLE-2-CARBOXYLATE FORMUL 3 PYC 2(C5 H4 N O2 1-) FORMUL 5 HOH *358(H2 O) HELIX 1 1 ASN A 72 MET A 84 1 13 HELIX 2 2 MET A 84 LEU A 93 1 10 HELIX 3 3 CYS A 130 THR A 144 1 15 HELIX 4 4 GLU A 226 GLY A 229 5 4 HELIX 5 5 ASN A 236 VAL A 255 1 20 HELIX 6 6 CYS A 300 LYS A 314 1 15 HELIX 7 7 ASN B 72 MET B 84 1 13 HELIX 8 8 MET B 84 LEU B 93 1 10 HELIX 9 9 CYS B 130 THR B 144 1 15 HELIX 10 10 GLU B 226 GLY B 229 5 4 HELIX 11 11 SER B 233 GLN B 235 5 3 HELIX 12 12 ASN B 236 VAL B 255 1 20 HELIX 13 13 CYS B 300 LYS B 314 1 15 SHEET 1 AA28 PHE A 192 VAL A 201 0 SHEET 2 AA28 GLU A 208 PHE A 215 -1 O VAL A 209 N VAL A 200 SHEET 3 AA28 PHE A 219 PRO A 224 -1 O PHE A 220 N ALA A 214 SHEET 4 AA28 VAL A 268 GLY A 275 1 N ASP A 269 O PHE A 219 SHEET 5 AA28 TYR A 284 PHE A 290 -1 O LYS A 285 N GLY A 275 SHEET 6 AA28 PHE A 323 SER A 327 1 O GLU A 326 N ASN A 286 SHEET 7 AA28 LEU A 332 PRO A 344 -1 O PHE A 333 N TYR A 325 SHEET 8 AA28 GLY A 357 GLY A 367 -1 O MET A 358 N ILE A 343 SHEET 9 AA28 VAL A 181 ILE A 187 -1 O ALA A 184 N GLY A 367 SHEET 10 AA28 GLY A 165 LEU A 173 -1 O ARG A 168 N ILE A 187 SHEET 11 AA28 ASN A 155 THR A 162 -1 O VAL A 156 N ALA A 171 SHEET 12 AA28 LEU A 116 ASP A 122 1 O LEU A 116 N ASP A 161 SHEET 13 AA28 PHE A 102 PHE A 107 -1 O GLY A 103 N MET A 121 SHEET 14 AA28 GLU A 56 SER A 63 1 O ARG A 59 N ALA A 104 SHEET 15 AA28 LYS A 44 THR A 53 -1 O THR A 47 N THR A 62 SHEET 16 AA28 ALA A 369 PHE A 379 -1 O PHE A 370 N HIS A 52 SHEET 17 AA28 ALA B 369 PHE B 379 -1 O MET B 372 N LEU A 378 SHEET 18 AA28 LYS B 44 THR B 53 -1 O LYS B 44 N PHE B 379 SHEET 19 AA28 GLU B 56 SER B 63 -1 O GLU B 56 N THR B 53 SHEET 20 AA28 PHE B 102 PHE B 107 1 O PHE B 102 N ARG B 59 SHEET 21 AA28 LEU B 116 ASP B 122 -1 O GLY B 117 N PHE B 107 SHEET 22 AA28 ASN B 155 THR B 162 1 O ASP B 161 N ILE B 118 SHEET 23 AA28 GLY B 165 LEU B 173 -1 O GLY B 165 N THR B 162 SHEET 24 AA28 VAL B 181 ILE B 187 -1 N SER B 182 O HIS B 172 SHEET 25 AA28 GLY B 357 GLY B 367 -1 O ILE B 365 N ILE B 186 SHEET 26 AA28 LEU B 332 PRO B 344 -1 O GLN B 334 N THR B 366 SHEET 27 AA28 PHE B 323 SER B 327 -1 O PHE B 323 N GLY B 335 SHEET 28 AA28 TYR B 284 PHE B 290 1 O TYR B 284 N GLU B 326 SHEET 1 AB 6 PHE A 192 VAL A 201 0 SHEET 2 AB 6 GLU A 208 PHE A 215 -1 O VAL A 209 N VAL A 200 SHEET 3 AB 6 PHE A 219 PRO A 224 -1 O PHE A 220 N ALA A 214 SHEET 4 AB 6 VAL A 268 GLY A 275 1 N ASP A 269 O PHE A 219 SHEET 5 AB 6 TYR A 284 PHE A 290 -1 O LYS A 285 N GLY A 275 SHEET 6 AB 6 GLN A 294 ALA A 295 -1 O GLN A 294 N PHE A 290 CISPEP 1 GLU A 94 PRO A 95 0 -0.88 CISPEP 2 LYS A 204 PRO A 205 0 -1.61 CISPEP 3 GLU B 94 PRO B 95 0 -2.27 CISPEP 4 LYS B 204 PRO B 205 0 8.23 SITE 1 AC1 9 LEU A 127 CYS A 130 GLY A 131 HIS A 132 SITE 2 AC1 9 PHE A 290 ASP A 296 CYS A 300 GLY A 301 SITE 3 AC1 9 THR A 302 SITE 1 AC2 9 LEU B 127 CYS B 130 GLY B 131 HIS B 132 SITE 2 AC2 9 PHE B 290 ASP B 296 CYS B 300 GLY B 301 SITE 3 AC2 9 THR B 302 CRYST1 131.153 91.209 85.983 90.00 126.52 90.00 C 1 2 1 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 0.007625 0.000000 0.005646 0.00000 SCALE2 0.000000 0.010964 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014472 0.00000 MTRIX1 1 -0.412400 0.285400 0.865100 5.05030 1 MTRIX2 1 0.315900 -0.845900 0.429700 17.64790 1 MTRIX3 1 0.854500 0.450500 0.258700 -9.65540 1