HEADER LIGASE 07-JUL-05 2A84 TITLE CRYSTAL STRUCTURE OF A PANTOTHENATE SYNTHETASE COMPLEXED WITH ATP COMPND MOL_ID: 1; COMPND 2 MOLECULE: PANTOATE--BETA-ALANINE LIGASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PANTOTHENATE SYNTHETASE, PANTOATE ACTIVATING ENZYME; COMPND 5 EC: 6.3.2.1; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM TUBERCULOSIS; SOURCE 3 ORGANISM_TAXID: 1773; SOURCE 4 GENE: PANC; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); 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: PET30A KEYWDS PROTEIN-SUBSTRATE COMPLEX, STRUCTURAL GENOMICS, PSI, PROTEIN KEYWDS 2 STRUCTURE INITIATIVE, TB STRUCTURAL GENOMICS CONSORTIUM, TBSGC, KEYWDS 3 LIGASE EXPDTA X-RAY DIFFRACTION AUTHOR S.WANG,D.EISENBERG,TB STRUCTURAL GENOMICS CONSORTIUM (TBSGC) REVDAT 5 20-OCT-21 2A84 1 REMARK SEQADV LINK REVDAT 4 11-OCT-17 2A84 1 REMARK REVDAT 3 13-JUL-11 2A84 1 VERSN REVDAT 2 24-FEB-09 2A84 1 VERSN REVDAT 1 21-FEB-06 2A84 0 JRNL AUTH S.WANG,D.EISENBERG JRNL TITL CRYSTAL STRUCTURE OF THE PANTOTHENATE SYNTHETASE FROM JRNL TITL 2 MYCOBACTERIUM TUBERCULOSIS, SNAPSHOTS OF THE ENZYME IN JRNL TITL 3 ACTION. JRNL REF BIOCHEMISTRY V. 45 1554 2006 JRNL REFN ISSN 0006-2960 JRNL PMID 16460002 JRNL DOI 10.1021/BI051873E REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH S.WANG,D.EISENBERG REMARK 1 TITL CRYSTAL STRUCTURES OF A PANTOTHENATE SYNTHETASE AND ITS REMARK 1 TITL 2 COMPLEXES WITH SUBSTRATES AND A REACTION INTERMEDIATE REMARK 1 REF PROTEIN SCI. V. 12 1097 2003 REMARK 1 REFN ISSN 0961-8368 REMARK 1 PMID 12717031 REMARK 1 DOI 10.1110/PS.0241803 REMARK 2 REMARK 2 RESOLUTION. 1.55 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 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) : 1.55 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 87.8 REMARK 3 NUMBER OF REFLECTIONS : 45261 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) : 0.152 REMARK 3 R VALUE (WORKING SET) : 0.150 REMARK 3 FREE R VALUE : 0.169 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 8.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3683 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) : 1.55 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.59 REMARK 3 REFLECTION IN BIN (WORKING SET) : 951 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 27.95 REMARK 3 BIN R VALUE (WORKING SET) : 0.4190 REMARK 3 BIN FREE R VALUE SET COUNT : 100 REMARK 3 BIN FREE R VALUE : 0.4890 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2040 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 51 REMARK 3 SOLVENT ATOMS : 293 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 24.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.43 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.36000 REMARK 3 B22 (A**2) : -0.10000 REMARK 3 B33 (A**2) : 0.03000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.25000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.069 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.068 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.034 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.687 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.972 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.967 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2148 ; 0.016 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2085 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2933 ; 1.599 ; 1.991 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4790 ; 0.827 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 275 ; 5.197 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 85 ;39.284 ;22.471 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 324 ;11.968 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 23 ;13.897 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 351 ; 0.098 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2377 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 425 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 456 ; 0.216 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2158 ; 0.189 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1091 ; 0.178 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1327 ; 0.083 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 210 ; 0.127 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 2 ; 0.026 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 8 ; 0.161 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 68 ; 0.246 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 19 ; 0.115 ; 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): 1757 ; 2.653 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 561 ; 0.618 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2217 ; 2.988 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 844 ; 4.491 ; 4.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 716 ; 6.314 ; 6.000 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 : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 3 A 186 REMARK 3 ORIGIN FOR THE GROUP (A): -10.5720 5.4340 30.7250 REMARK 3 T TENSOR REMARK 3 T11: -0.1753 T22: -0.1127 REMARK 3 T33: -0.1225 T12: 0.0015 REMARK 3 T13: -0.0036 T23: 0.0031 REMARK 3 L TENSOR REMARK 3 L11: 1.2305 L22: 0.3502 REMARK 3 L33: 1.0105 L12: 0.1260 REMARK 3 L13: -0.3500 L23: 0.0188 REMARK 3 S TENSOR REMARK 3 S11: 0.0016 S12: -0.0921 S13: 0.0927 REMARK 3 S21: 0.0087 S22: -0.0167 S23: -0.0398 REMARK 3 S31: -0.0555 S32: 0.1029 S33: 0.0151 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 187 A 289 REMARK 3 ORIGIN FOR THE GROUP (A): -2.6100 -9.1210 11.0420 REMARK 3 T TENSOR REMARK 3 T11: -0.1566 T22: -0.0610 REMARK 3 T33: -0.1252 T12: 0.0128 REMARK 3 T13: 0.0099 T23: 0.0072 REMARK 3 L TENSOR REMARK 3 L11: 0.8857 L22: 0.6528 REMARK 3 L33: 1.7812 L12: 0.1045 REMARK 3 L13: -0.4949 L23: 0.1197 REMARK 3 S TENSOR REMARK 3 S11: -0.0511 S12: 0.1281 S13: -0.0659 REMARK 3 S21: -0.0033 S22: 0.0165 S23: 0.0149 REMARK 3 S31: 0.1842 S32: -0.0097 S33: 0.0346 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK 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 2A84 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-JUL-05. REMARK 100 THE DEPOSITION ID IS D_1000033606. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU FR-D REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV++ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 45287 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.550 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 87.6 REMARK 200 DATA REDUNDANCY : 6.600 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 30.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.55 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.61 REMARK 200 COMPLETENESS FOR SHELL (%) : 30.8 REMARK 200 DATA REDUNDANCY IN SHELL : 3.50 REMARK 200 R MERGE FOR SHELL (I) : 0.34300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.900 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 1MOP REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.20 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.87 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 3000, GLYCEROL, ISOPROPANOL, REMARK 280 MAGNESIUM CHLORIDE, LITHIUM SULFATE, IMIDAZOLE, PH 8.0, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293K 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 59.47650 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 22.43850 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 59.47650 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 22.43850 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 300 REMARK: THE BIOLOGICAL ASSEMBLY IS A DIMER BY THE OPERATION: REMARK 300 -X, Y, 1-Z. 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 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 -47.40975 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 67.05841 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 ALA A 2 REMARK 465 GLY A 76 REMARK 465 GLY A 77 REMARK 465 ASP A 78 REMARK 465 LEU A 79 REMARK 465 ASP A 80 REMARK 465 ALA A 81 REMARK 465 TYR A 82 REMARK 465 PRO A 83 REMARK 465 ARG A 84 REMARK 465 THR A 85 REMARK 465 PHE A 290 REMARK 465 ALA A 291 REMARK 465 GLY A 292 REMARK 465 THR A 293 REMARK 465 ASP A 294 REMARK 465 ARG A 295 REMARK 465 PRO A 296 REMARK 465 ASP A 297 REMARK 465 GLY A 298 REMARK 465 TYR A 299 REMARK 465 ARG A 300 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 87 CB - CG - OD2 ANGL. DEV. = 5.9 DEGREES REMARK 500 ASP A 112 CB - CG - OD2 ANGL. DEV. = 6.3 DEGREES REMARK 500 ARG A 151 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ASP A 153 CB - CG - OD2 ANGL. DEV. = 5.9 DEGREES REMARK 500 ARG A 200 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 ASP A 248 CB - CG - OD2 ANGL. DEV. = 5.9 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 ARG A 115 -89.67 -117.61 REMARK 500 LEU A 127 -115.21 54.97 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 A1002 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 88 OD1 REMARK 620 2 ASP A 89 N 81.6 REMARK 620 3 ASP A 89 OD1 150.9 69.4 REMARK 620 4 GLN A 92 NE2 80.6 104.0 108.3 REMARK 620 5 HOH A3233 O 103.7 174.7 105.3 77.4 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A1001 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ATP A2001 O1G REMARK 620 2 ATP A2001 O2B 91.7 REMARK 620 3 ATP A2001 O2A 105.3 88.5 REMARK 620 4 HOH A3013 O 87.7 175.0 86.9 REMARK 620 5 HOH A3069 O 86.7 90.3 168.0 94.7 REMARK 620 6 HOH A3203 O 171.0 94.0 81.9 87.2 86.4 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 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ATP A 2001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 3001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 3002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 3003 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2A7X RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF A PANTOTHENATE SYNTHETASE COMPLEXED WITH AMP REMARK 900 RELATED ID: 1MOP RELATED DB: PDB REMARK 900 STRUCTURE OF THE APO ENZYME IN P21 CRYSTAL SPACE GROUP REMARK 900 RELATED ID: 1N2B RELATED DB: PDB REMARK 900 THE SAME PROTEIN COMPLEXED WITH AMPCPP AND PANTOATE REMARK 900 RELATED ID: 1N2H RELATED DB: PDB REMARK 900 THE SAME PROTEIN COMPLEXED WITH A REACTION INTERMEDIATE, PANTOYL REMARK 900 ADENYLATE REMARK 900 RELATED ID: 1N2J RELATED DB: PDB REMARK 900 THE SAME PROTEIN COMPLEXED WITH PANTOATE REMARK 900 RELATED ID: RV3602C RELATED DB: TARGETDB DBREF 2A84 A 1 300 UNP P0A5R0 PANC_MYCTU 1 300 SEQADV 2A84 ALA A 2 UNP P0A5R0 THR 2 ENGINEERED MUTATION SEQADV 2A84 GLY A 77 UNP P0A5R0 GLU 77 ENGINEERED MUTATION SEQRES 1 A 300 MET ALA ILE PRO ALA PHE HIS PRO GLY GLU LEU ASN VAL SEQRES 2 A 300 TYR SER ALA PRO GLY ASP VAL ALA ASP VAL SER ARG ALA SEQRES 3 A 300 LEU ARG LEU THR GLY ARG ARG VAL MET LEU VAL PRO THR SEQRES 4 A 300 MET GLY ALA LEU HIS GLU GLY HIS LEU ALA LEU VAL ARG SEQRES 5 A 300 ALA ALA LYS ARG VAL PRO GLY SER VAL VAL VAL VAL SER SEQRES 6 A 300 ILE PHE VAL ASN PRO MET GLN PHE GLY ALA GLY GLY ASP SEQRES 7 A 300 LEU ASP ALA TYR PRO ARG THR PRO ASP ASP ASP LEU ALA SEQRES 8 A 300 GLN LEU ARG ALA GLU GLY VAL GLU ILE ALA PHE THR PRO SEQRES 9 A 300 THR THR ALA ALA MET TYR PRO ASP GLY LEU ARG THR THR SEQRES 10 A 300 VAL GLN PRO GLY PRO LEU ALA ALA GLU LEU GLU GLY GLY SEQRES 11 A 300 PRO ARG PRO THR HIS PHE ALA GLY VAL LEU THR VAL VAL SEQRES 12 A 300 LEU LYS LEU LEU GLN ILE VAL ARG PRO ASP ARG VAL PHE SEQRES 13 A 300 PHE GLY GLU LYS ASP TYR GLN GLN LEU VAL LEU ILE ARG SEQRES 14 A 300 GLN LEU VAL ALA ASP PHE ASN LEU ASP VAL ALA VAL VAL SEQRES 15 A 300 GLY VAL PRO THR VAL ARG GLU ALA ASP GLY LEU ALA MET SEQRES 16 A 300 SER SER ARG ASN ARG TYR LEU ASP PRO ALA GLN ARG ALA SEQRES 17 A 300 ALA ALA VAL ALA LEU SER ALA ALA LEU THR ALA ALA ALA SEQRES 18 A 300 HIS ALA ALA THR ALA GLY ALA GLN ALA ALA LEU ASP ALA SEQRES 19 A 300 ALA ARG ALA VAL LEU ASP ALA ALA PRO GLY VAL ALA VAL SEQRES 20 A 300 ASP TYR LEU GLU LEU ARG ASP ILE GLY LEU GLY PRO MET SEQRES 21 A 300 PRO LEU ASN GLY SER GLY ARG LEU LEU VAL ALA ALA ARG SEQRES 22 A 300 LEU GLY THR THR ARG LEU LEU ASP ASN ILE ALA ILE GLU SEQRES 23 A 300 ILE GLY THR PHE ALA GLY THR ASP ARG PRO ASP GLY TYR SEQRES 24 A 300 ARG HET MG A1001 1 HET MG A1002 1 HET ATP A2001 31 HET GOL A3001 6 HET GOL A3002 6 HET GOL A3003 6 HETNAM MG MAGNESIUM ION HETNAM ATP ADENOSINE-5'-TRIPHOSPHATE HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 MG 2(MG 2+) FORMUL 4 ATP C10 H16 N5 O13 P3 FORMUL 5 GOL 3(C3 H8 O3) FORMUL 8 HOH *293(H2 O) HELIX 1 1 ALA A 16 THR A 30 1 15 HELIX 2 2 HIS A 44 ARG A 56 1 13 HELIX 3 3 ASP A 88 GLU A 96 1 9 HELIX 4 4 THR A 105 TYR A 110 1 6 HELIX 5 5 GLY A 121 GLY A 130 5 10 HELIX 6 6 THR A 134 ARG A 151 1 18 HELIX 7 7 ASP A 161 PHE A 175 1 15 HELIX 8 8 SER A 196 LEU A 202 5 7 HELIX 9 9 ASP A 203 ALA A 210 1 8 HELIX 10 10 VAL A 211 ALA A 224 1 14 HELIX 11 11 GLY A 227 ALA A 241 1 15 SHEET 1 A 6 ASN A 12 TYR A 14 0 SHEET 2 A 6 ILE A 100 PHE A 102 1 O ALA A 101 N TYR A 14 SHEET 3 A 6 VAL A 61 ILE A 66 1 N ILE A 66 O PHE A 102 SHEET 4 A 6 VAL A 34 THR A 39 1 N MET A 35 O VAL A 61 SHEET 5 A 6 ARG A 154 GLY A 158 1 O PHE A 156 N LEU A 36 SHEET 6 A 6 ALA A 180 VAL A 184 1 O VAL A 182 N VAL A 155 SHEET 1 B 3 ALA A 246 ASP A 254 0 SHEET 2 B 3 GLY A 264 LEU A 274 -1 O ALA A 271 N ASP A 248 SHEET 3 B 3 THR A 277 ILE A 287 -1 O LEU A 279 N ALA A 272 LINK OD1 ASP A 88 MG MG A1002 1555 1555 2.13 LINK N ASP A 89 MG MG A1002 1555 1555 3.08 LINK OD1 ASP A 89 MG MG A1002 1555 1555 2.46 LINK NE2 GLN A 92 MG MG A1002 1555 1555 2.96 LINK MG MG A1001 O1G ATP A2001 1555 1555 2.13 LINK MG MG A1001 O2B ATP A2001 1555 1555 1.99 LINK MG MG A1001 O2A ATP A2001 1555 1555 2.26 LINK MG MG A1001 O HOH A3013 1555 1555 1.95 LINK MG MG A1001 O HOH A3069 1555 1555 2.29 LINK MG MG A1001 O HOH A3203 1555 1555 2.11 LINK MG MG A1002 O HOH A3233 1555 1555 2.50 SITE 1 AC1 4 ATP A2001 HOH A3013 HOH A3069 HOH A3203 SITE 1 AC2 4 ASP A 88 ASP A 89 GLN A 92 HOH A3233 SITE 1 AC3 26 PRO A 38 MET A 40 HIS A 44 HIS A 47 SITE 2 AC3 26 LEU A 50 PHE A 157 GLY A 158 LYS A 160 SITE 3 AC3 26 ASP A 161 PRO A 185 THR A 186 VAL A 187 SITE 4 AC3 26 MET A 195 SER A 196 SER A 197 ARG A 198 SITE 5 AC3 26 MG A1001 GOL A3001 HOH A3013 HOH A3040 SITE 6 AC3 26 HOH A3049 HOH A3069 HOH A3125 HOH A3186 SITE 7 AC3 26 HOH A3203 HOH A3217 SITE 1 AC4 5 THR A 39 GLN A 164 ATP A2001 HOH A3203 SITE 2 AC4 5 HOH A3222 SITE 1 AC5 7 GLU A 128 ARG A 132 HIS A 135 ARG A 198 SITE 2 AC5 7 LEU A 280 HOH A3014 HOH A3193 SITE 1 AC6 7 MET A 195 SER A 196 SER A 197 ASN A 199 SITE 2 AC6 7 ARG A 200 HOH A3081 HOH A3168 CRYST1 118.953 44.877 82.125 90.00 125.26 90.00 C 1 2 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 0.008410 0.000000 0.005940 0.00000 SCALE2 0.000000 0.022280 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014910 0.00000