HEADER ISOMERASE 15-JAN-09 3FVE TITLE CRYSTAL STRUCTURE OF DIAMINOPIMELATE EPIMERASE MYCOBACTERIUM TITLE 2 TUBERCULOSIS DAPF COMPND MOL_ID: 1; COMPND 2 MOLECULE: DIAMINOPIMELATE EPIMERASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: DAP EPIMERASE; COMPND 5 EC: 5.1.1.7; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM TUBERCULOSIS; SOURCE 3 ORGANISM_TAXID: 1773; SOURCE 4 STRAIN: H37RV; SOURCE 5 GENE: DAPF, MT2798, MTCY154.06C, RV2726C; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: C41(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS ALPHA/BETA, AMINO-ACID BIOSYNTHESIS, ISOMERASE, LYSINE BIOSYNTHESIS EXPDTA X-RAY DIFFRACTION AUTHOR V.USHA,L.G.DOVER,D.I.ROPER,K.FUTTERER,G.S.BESRA REVDAT 4 06-SEP-23 3FVE 1 REMARK SEQADV REVDAT 3 13-JUL-11 3FVE 1 VERSN REVDAT 2 28-JUL-09 3FVE 1 JRNL REVDAT 1 27-JAN-09 3FVE 0 JRNL AUTH V.USHA,L.G.DOVER,D.I.ROPER,K.FUTTERER,G.S.BESRA JRNL TITL STRUCTURE OF THE DIAMINOPIMELATE EPIMERASE DAPF FROM JRNL TITL 2 MYCOBACTERIUM TUBERCULOSIS JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 65 383 2009 JRNL REFN ISSN 0907-4449 JRNL PMID 19307721 JRNL DOI 10.1107/S0907444909002522 REMARK 2 REMARK 2 RESOLUTION. 2.60 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) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 14341 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) : 0.226 REMARK 3 R VALUE (WORKING SET) : 0.224 REMARK 3 FREE R VALUE : 0.254 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 722 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) : 2.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.67 REMARK 3 REFLECTION IN BIN (WORKING SET) : 994 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.81 REMARK 3 BIN R VALUE (WORKING SET) : 0.3410 REMARK 3 BIN FREE R VALUE SET COUNT : 45 REMARK 3 BIN FREE R VALUE : 0.4560 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2003 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 20 REMARK 3 SOLVENT ATOMS : 38 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 64.80 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 38.10 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.06000 REMARK 3 B22 (A**2) : -1.06000 REMARK 3 B33 (A**2) : 1.58000 REMARK 3 B12 (A**2) : -0.53000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.367 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.262 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.213 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 20.884 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.931 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.908 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2055 ; 0.009 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2799 ; 1.362 ; 1.945 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 280 ; 5.639 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 79 ;34.896 ;23.165 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 270 ;18.300 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 15 ;17.410 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 329 ; 0.070 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1571 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 820 ; 0.211 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1363 ; 0.305 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 73 ; 0.123 ; 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): 33 ; 0.152 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 6 ; 0.121 ; 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): 1407 ; 0.458 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2184 ; 0.817 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 718 ; 0.966 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 615 ; 1.609 ; 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 : 1 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 1 A 300 REMARK 3 ORIGIN FOR THE GROUP (A): -17.3890 73.2990 -3.4700 REMARK 3 T TENSOR REMARK 3 T11: 0.0183 T22: 0.0388 REMARK 3 T33: 0.1083 T12: -0.0220 REMARK 3 T13: 0.0786 T23: -0.0327 REMARK 3 L TENSOR REMARK 3 L11: 4.0218 L22: 1.8749 REMARK 3 L33: 1.7028 L12: 0.6657 REMARK 3 L13: -1.4457 L23: -1.1234 REMARK 3 S TENSOR REMARK 3 S11: -0.2642 S12: -0.0106 S13: -0.8263 REMARK 3 S21: -0.2333 S22: -0.0463 S23: -0.1792 REMARK 3 S31: 0.3722 S32: 0.0664 S33: 0.3105 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : 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 3FVE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-JAN-09. REMARK 100 THE DEPOSITION ID IS D_1000051089. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-SEP-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 9.5 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) : 0.976 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL, SI(111) OR REMARK 200 SI(311) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM Q315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 14430 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.590 REMARK 200 RESOLUTION RANGE LOW (A) : 45.220 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 13.20 REMARK 200 R MERGE (I) : 0.08600 REMARK 200 R SYM (I) : 0.08600 REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.59 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.73 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.4 REMARK 200 DATA REDUNDANCY IN SHELL : 13.00 REMARK 200 R MERGE FOR SHELL (I) : 0.75800 REMARK 200 R SYM FOR SHELL (I) : 0.75800 REMARK 200 FOR SHELL : 3.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 1BWZ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 66.62 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.68 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.9 M (NH4)H2PO4, 0.1 M BIS-TRIS REMARK 280 PROPANE, PH 9.5, 2.5% GLYCEROL, VAPOR DIFFUSION, TEMPERATURE REMARK 280 291K, VAPOR DIFFUSION REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+1/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+5/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 30.14000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 15.07000 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 22.60500 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 7.53500 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 37.67500 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 30.14000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 15.07000 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 7.53500 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 22.60500 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 37.67500 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: BIOLOGICAL UNIT IS THE SAME AS ASYM. 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: MONOMERIC 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3400 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22510 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -11.0 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 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -22.60500 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 VAL A 149 REMARK 465 GLY A 150 REMARK 465 GLY A 151 REMARK 465 ARG A 152 REMARK 465 ARG A 153 REMARK 465 ALA A 185 REMARK 465 PRO A 186 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 HIS A 0 CG ND1 CD2 CE1 NE2 REMARK 470 ASP A 61 CG OD1 OD2 REMARK 470 GLU A 65 CG CD OE1 OE2 REMARK 470 GLN A 85 CG CD OE1 NE2 REMARK 470 LEU A 142 CD1 CD2 REMARK 470 GLU A 146 CG CD OE1 OE2 REMARK 470 LEU A 181 CG CD1 CD2 REMARK 470 VAL A 183 CG1 CG2 REMARK 470 VAL A 187 CG1 CG2 REMARK 470 ASP A 208 CG OD1 OD2 REMARK 470 THR A 223 OG1 CG2 REMARK 470 ARG A 224 CG CD NE CZ NH1 NH2 REMARK 470 THR A 228 CG2 REMARK 470 VAL A 241 CG1 CG2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 ASP A 176 CG ASP A 176 OD1 0.162 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 GLN A 10 -56.43 -139.68 REMARK 500 ASP A 18 68.35 -162.35 REMARK 500 ASP A 61 -78.36 -84.43 REMARK 500 ASP A 80 36.76 -84.53 REMARK 500 ALA A 84 82.67 -14.33 REMARK 500 GLN A 85 156.27 -49.56 REMARK 500 CYS A 87 -32.11 -37.84 REMARK 500 LEU A 142 47.83 -140.18 REMARK 500 PRO A 206 109.95 -57.84 REMARK 500 ARG A 224 -130.00 41.11 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DTT A 290 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 291 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 292 DBREF 3FVE A 1 289 UNP P63897 DAPF_MYCTU 1 289 SEQADV 3FVE HIS A 0 UNP P63897 EXPRESSION TAG SEQRES 1 A 290 HIS MET ILE PHE ALA LYS GLY HIS GLY THR GLN ASN ASP SEQRES 2 A 290 PHE VAL LEU LEU PRO ASP VAL ASP ALA GLU LEU VAL LEU SEQRES 3 A 290 THR ALA ALA ARG VAL ALA ALA LEU CYS ASP ARG ARG LYS SEQRES 4 A 290 GLY LEU GLY ALA ASP GLY VAL LEU ARG VAL THR THR ALA SEQRES 5 A 290 GLY ALA ALA GLN ALA VAL GLY VAL LEU ASP SER LEU PRO SEQRES 6 A 290 GLU GLY VAL ARG VAL THR ASP TRP TYR MET ASP TYR ARG SEQRES 7 A 290 ASN ALA ASP GLY SER ALA ALA GLN MET CYS GLY ASN GLY SEQRES 8 A 290 VAL ARG VAL PHE ALA HIS TYR LEU ARG ALA SER GLY LEU SEQRES 9 A 290 GLU VAL ARG ASP GLU PHE VAL VAL GLY SER LEU ALA GLY SEQRES 10 A 290 PRO ARG PRO VAL THR CYS HIS HIS VAL GLU ALA ALA TYR SEQRES 11 A 290 ALA ASP VAL SER VAL ASP MET GLY LYS ALA ASN ARG LEU SEQRES 12 A 290 GLY ALA GLY GLU ALA VAL VAL GLY GLY ARG ARG PHE HIS SEQRES 13 A 290 GLY LEU ALA VAL ASP VAL GLY ASN PRO HIS LEU ALA CYS SEQRES 14 A 290 VAL ASP SER GLN LEU THR VAL ASP GLY LEU ALA ALA LEU SEQRES 15 A 290 ASP VAL GLY ALA PRO VAL SER PHE ASP GLY ALA GLN PHE SEQRES 16 A 290 PRO ASP GLY VAL ASN VAL GLU VAL LEU THR ALA PRO VAL SEQRES 17 A 290 ASP GLY ALA VAL TRP MET ARG VAL HIS GLU ARG GLY VAL SEQRES 18 A 290 GLY GLU THR ARG SER CYS GLY THR GLY THR VAL ALA ALA SEQRES 19 A 290 ALA VAL ALA ALA LEU ALA ALA VAL GLY SER PRO THR GLY SEQRES 20 A 290 THR LEU THR VAL HIS VAL PRO GLY GLY GLU VAL VAL VAL SEQRES 21 A 290 THR VAL THR ASP ALA THR SER PHE LEU ARG GLY PRO SER SEQRES 22 A 290 VAL LEU VAL ALA ARG GLY ASP LEU ALA ASP ASP TRP TRP SEQRES 23 A 290 ASN ALA MET GLY HET DTT A 290 8 HET GOL A 291 6 HET GOL A 292 6 HETNAM DTT 2,3-DIHYDROXY-1,4-DITHIOBUTANE HETNAM GOL GLYCEROL HETSYN DTT 1,4-DITHIOTHREITOL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 DTT C4 H10 O2 S2 FORMUL 3 GOL 2(C3 H8 O3) FORMUL 5 HOH *38(H2 O) HELIX 1 1 THR A 26 ASP A 35 1 10 HELIX 2 2 ALA A 51 VAL A 57 1 7 HELIX 3 3 GLY A 90 SER A 101 1 12 HELIX 4 4 CYS A 226 VAL A 241 1 16 HELIX 5 5 ALA A 281 ALA A 287 1 7 SHEET 1 A16 ASN A 140 GLU A 146 0 SHEET 2 A16 HIS A 155 ASP A 160 -1 O ALA A 158 N LEU A 142 SHEET 3 A16 PRO A 164 ASP A 170 -1 O ALA A 167 N LEU A 157 SHEET 4 A16 ASN A 199 THR A 204 1 O LEU A 203 N CYS A 168 SHEET 5 A16 ALA A 210 HIS A 216 -1 O TRP A 212 N THR A 204 SHEET 6 A16 GLY A 246 VAL A 252 1 O HIS A 251 N VAL A 211 SHEET 7 A16 GLY A 255 VAL A 261 -1 O VAL A 257 N VAL A 250 SHEET 8 A16 SER A 266 LEU A 280 -1 O PHE A 267 N THR A 260 SHEET 9 A16 TYR A 129 ASP A 135 -1 N VAL A 134 O LEU A 268 SHEET 10 A16 ARG A 118 VAL A 125 -1 N PRO A 119 O ASP A 135 SHEET 11 A16 GLU A 108 GLY A 112 -1 N PHE A 109 O VAL A 120 SHEET 12 A16 TRP A 72 ASN A 78 1 N MET A 74 O GLY A 112 SHEET 13 A16 GLY A 44 THR A 50 -1 N THR A 49 O TYR A 73 SHEET 14 A16 ASP A 12 PRO A 17 1 N VAL A 14 O LEU A 46 SHEET 15 A16 MET A 1 HIS A 7 -1 N GLY A 6 O PHE A 13 SHEET 16 A16 SER A 266 LEU A 280 -1 O LEU A 280 N MET A 1 SITE 1 AC1 10 GLY A 8 THR A 9 GLN A 10 ASN A 11 SITE 2 AC1 10 ASN A 89 GLY A 90 VAL A 91 ARG A 92 SITE 3 AC1 10 VAL A 93 SER A 225 SITE 1 AC2 5 ASP A 71 TRP A 72 ARG A 106 PHE A 109 SITE 2 AC2 5 VAL A 110 SITE 1 AC3 2 HIS A 123 ARG A 269 CRYST1 183.640 183.640 45.210 90.00 90.00 120.00 P 65 2 2 12 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 0.005445 0.003144 0.000000 0.00000 SCALE2 0.000000 0.006288 0.000000 0.00000 SCALE3 0.000000 0.000000 0.022119 0.00000