HEADER LYASE 05-AUG-21 7PDA TITLE CRYSTAL STRUCTURE OF PHENAZINE 1-CARBOXYLIC ACID DECARBOXYLASE FROM TITLE 2 MYCOBACTERIUM FORTUITUM COMPND MOL_ID: 1; COMPND 2 MOLECULE: UBID FAMILY DECARBOXYLASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: UNK; COMPND 7 CHAIN: B; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOLICIBACTERIUM FORTUITUM; SOURCE 3 ORGANISM_TAXID: 1766; SOURCE 4 GENE: XA26_16650; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 561; SOURCE 7 MOL_ID: 2; SOURCE 8 ORGANISM_SCIENTIFIC: UNIDENTIFIED; SOURCE 9 ORGANISM_TAXID: 32644; SOURCE 10 EXPRESSION_SYSTEM: UNIDENTIFIED; SOURCE 11 EXPRESSION_SYSTEM_TAXID: 32644 KEYWDS PHENAZINE 1-CARBOXYLIC ACID, UBID, PRFMN, LYASE EXPDTA X-RAY DIFFRACTION AUTHOR D.GAHLOTH,D.LEYS REVDAT 2 31-JAN-24 7PDA 1 REMARK REVDAT 1 24-AUG-22 7PDA 0 JRNL AUTH D.GAHLOTH,D.LEYS JRNL TITL CRYSTAL STRUCTURE OF PHENAZINE 1-CARBOXYLIC ACID JRNL TITL 2 DECARBOXYLASE FROM MYCOBACTERIUM FORTUITUM JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.65 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0238 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) : 2.65 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 58.12 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 16994 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) : 0.188 REMARK 3 R VALUE (WORKING SET) : 0.184 REMARK 3 FREE R VALUE : 0.258 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 866 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) : 2.65 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.72 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1240 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2810 REMARK 3 BIN FREE R VALUE SET COUNT : 63 REMARK 3 BIN FREE R VALUE : 0.3800 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3663 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 38 REMARK 3 SOLVENT ATOMS : 44 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 71.79 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.54000 REMARK 3 B22 (A**2) : -0.54000 REMARK 3 B33 (A**2) : 1.74000 REMARK 3 B12 (A**2) : -0.27000 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): 0.678 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.327 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.259 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 26.797 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.956 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.918 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3791 ; 0.010 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5182 ; 2.010 ; 1.637 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 480 ; 8.530 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 188 ;33.155 ;21.064 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 576 ;20.276 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 30 ;19.478 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 501 ; 0.137 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2949 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 3 A 318 REMARK 3 RESIDUE RANGE : A 454 A 999 REMARK 3 ORIGIN FOR THE GROUP (A): 18.7840 -40.2750 16.6580 REMARK 3 T TENSOR REMARK 3 T11: 0.4293 T22: 0.6717 REMARK 3 T33: 0.3539 T12: -0.0308 REMARK 3 T13: 0.1050 T23: 0.0636 REMARK 3 L TENSOR REMARK 3 L11: 1.6769 L22: 0.2408 REMARK 3 L33: 1.8660 L12: -0.2816 REMARK 3 L13: -0.7357 L23: 0.0397 REMARK 3 S TENSOR REMARK 3 S11: 0.0313 S12: -0.1808 S13: 0.1638 REMARK 3 S21: 0.0350 S22: 0.0684 S23: 0.2172 REMARK 3 S31: -0.2269 S32: -0.4929 S33: -0.0997 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 319 A 453 REMARK 3 ORIGIN FOR THE GROUP (A): 41.6050 -36.0640 -1.0360 REMARK 3 T TENSOR REMARK 3 T11: 0.2779 T22: 0.3594 REMARK 3 T33: 0.0466 T12: -0.0060 REMARK 3 T13: 0.0145 T23: 0.0235 REMARK 3 L TENSOR REMARK 3 L11: 1.2656 L22: 1.8667 REMARK 3 L33: 1.7035 L12: 0.1159 REMARK 3 L13: 0.5316 L23: -0.1722 REMARK 3 S TENSOR REMARK 3 S11: 0.0741 S12: -0.0374 S13: 0.1049 REMARK 3 S21: 0.0316 S22: 0.0280 S23: 0.2369 REMARK 3 S31: -0.1554 S32: -0.2864 S33: -0.1020 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: U VALUES : WITH TLS ADDED REMARK 4 REMARK 4 7PDA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 14-SEP-21. REMARK 100 THE DEPOSITION ID IS D_1292117349. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-MAR-19 REMARK 200 TEMPERATURE (KELVIN) : 80 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER2 XE 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XIA2 REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25728 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.350 REMARK 200 RESOLUTION RANGE LOW (A) : 58.420 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 10.40 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 16.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.35 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.39 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 7ABN REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.10 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.94 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.06 M DIVALENTS, 0.1 M BUFFER SYSTEM REMARK 280 2 PH 7.5, 30% PRECIPITANT MIX 3, PH 6.5, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 3 1 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 -Y,-X,-Z REMARK 290 5555 -X+Y,Y,-Z REMARK 290 6555 X,X-Y,-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 -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 0.00000 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 0.00000 REMARK 290 SMTRY1 4 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 -0.866025 -0.500000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 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 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: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 31510 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 98370 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -231.0 KCAL/MOL 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 350 BIOMT1 2 -0.500000 -0.866025 0.000000 62.34800 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 -107.98990 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 124.69600 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 4 0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 4 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT1 5 -1.000000 0.000000 0.000000 124.69600 REMARK 350 BIOMT2 5 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT1 6 0.500000 0.866025 0.000000 62.34800 REMARK 350 BIOMT2 6 0.866025 -0.500000 0.000000 -107.98990 REMARK 350 BIOMT3 6 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 ALA A 2 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 GLU A 111 CG CD OE1 OE2 REMARK 470 GLU A 120 CG CD OE1 OE2 REMARK 470 HIS A 282 CG ND1 CD2 CE1 NE2 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 ASN A 181 CB - CA - C ANGL. DEV. = -13.4 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 ASP A 6 170.16 178.64 REMARK 500 LEU A 33 -43.41 75.89 REMARK 500 HIS A 62 95.83 -62.86 REMARK 500 MET A 69 37.73 -143.25 REMARK 500 PRO A 82 131.68 -39.44 REMARK 500 PRO A 103 115.15 -30.32 REMARK 500 VAL A 109 146.53 54.14 REMARK 500 PRO A 130 48.91 -72.96 REMARK 500 THR A 145 -86.94 -115.96 REMARK 500 ASP A 172 10.57 -152.47 REMARK 500 ASP A 193 17.08 -66.03 REMARK 500 CYS A 206 177.87 165.78 REMARK 500 SER A 220 175.13 -54.18 REMARK 500 GLU A 224 4.61 -66.98 REMARK 500 GLU A 266 118.76 -168.51 REMARK 500 THR A 287 124.07 -20.71 REMARK 500 ALA A 305 75.14 -119.63 REMARK 500 GLN A 317 102.52 -168.91 REMARK 500 ARG A 347 -60.33 83.80 REMARK 500 GLN A 348 14.12 -161.19 REMARK 500 ARG A 373 171.32 -56.18 REMARK 500 THR A 376 -81.16 -127.00 REMARK 500 ARG A 381 -70.02 -152.59 REMARK 500 THR A 419 -168.25 -110.51 REMARK 500 MET A 438 -128.57 -134.99 REMARK 500 TRP A 451 26.97 -143.19 REMARK 500 TRP A 473 37.81 -97.45 REMARK 500 ALA A 475 -73.87 -70.07 REMARK 500 THR A 476 -57.36 -6.31 REMARK 500 UNK B 2 100.01 -21.94 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 GLU A 286 THR A 287 147.70 REMARK 500 GLY A 378 VAL A 379 149.32 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 MN A 501 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 160 OD1 REMARK 620 2 GLU A 224 OE1 104.0 REMARK 620 3 4LU A 502 O2P 75.3 87.2 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 503 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 VAL A 161 O REMARK 620 2 ALA A 214 O 67.7 REMARK 620 3 ILE A 216 O 132.4 90.4 REMARK 620 4 GLU A 224 OE1 68.1 125.4 96.7 REMARK 620 5 4LU A 502 O4' 146.4 84.9 63.4 145.4 REMARK 620 6 4LU A 502 O5' 103.9 99.8 121.7 120.6 60.7 REMARK 620 7 4LU A 502 O2P 80.8 128.1 139.5 72.7 103.3 48.3 REMARK 620 N 1 2 3 4 5 6 DBREF1 7PDA A 1 479 UNP A0A0N9Y7U2_MYCFO DBREF2 7PDA A A0A0N9Y7U2 1 479 DBREF 7PDA B 1 5 PDB 7PDA 7PDA 1 5 SEQRES 1 A 479 MET ALA VAL PHE ARG ASP LEU ARG HIS TYR ILE ASP THR SEQRES 2 A 479 LEU THR GLU LYS LEU GLY ALA ASP GLU VAL GLN THR ILE SEQRES 3 A 479 LYS GLY ALA ASN TRP ASP LEU GLU ILE GLY CYS ILE THR SEQRES 4 A 479 GLU LEU SER ALA GLU LYS GLU GLY PRO ALA LEU LEU PHE SEQRES 5 A 479 ASP ASP ILE PRO GLY TYR PRO SER GLY HIS ARG VAL PHE SEQRES 6 A 479 THR ASN PHE MET GLY THR VAL SER ARG CYS ALA VAL ALA SEQRES 7 A 479 LEU GLY LEU PRO ALA ASP THR SER ALA MET ASP ILE ILE SEQRES 8 A 479 ARG ALA TRP LYS ASP LEU GLY LYS ARG ILE GLU PRO ILE SEQRES 9 A 479 PRO PRO VAL GLU VAL SER GLU GLY ALA ILE LEU GLU ASN SEQRES 10 A 479 VAL LEU GLU GLY ASP ASP VAL ASP LEU GLU MET PHE PRO SEQRES 11 A 479 THR PRO ARG TRP HIS ASP GLY ASP GLY GLY ARG TYR ILE SEQRES 12 A 479 GLY THR ALA CYS MET VAL ILE THR ARG ASP PRO ASP THR SEQRES 13 A 479 GLY TRP VAL ASN VAL GLY THR TYR ARG GLY CYS VAL GLN SEQRES 14 A 479 GLY LYS ASP ARG LEU SER LEU TRP MET LEU GLY ASN ARG SEQRES 15 A 479 HIS ALA LEU ALA ILE ALA LYS LYS TYR TRP ASP ARG GLY SEQRES 16 A 479 THR ALA CYS PRO ILE ALA VAL VAL VAL GLY CYS ASP PRO SEQRES 17 A 479 ILE LEU THR THR ALA ALA ALA ILE ALA ALA PRO SER GLY SEQRES 18 A 479 VAL CYS GLU TYR ASP VAL ALA GLY GLY LEU ARG GLY VAL SEQRES 19 A 479 GLY VAL GLU VAL ILE SER ALA PRO GLY THR GLY LEU PRO SEQRES 20 A 479 ILE PRO ALA ASN ALA GLU ILE VAL PHE GLU GLY GLU MET SEQRES 21 A 479 PRO PRO VAL GLU GLU GLU SER VAL HIS GLU GLY PRO PHE SEQRES 22 A 479 GLY GLU TRP THR GLY TYR PHE THR HIS ALA GLY ASP GLU SEQRES 23 A 479 THR VAL VAL ARG VAL GLN ARG ILE LEU HIS ARG ASP SER SEQRES 24 A 479 PRO ILE ILE LEU GLY ALA PRO PRO MET ILE PRO THR VAL SEQRES 25 A 479 PRO ALA GLY ASP GLN ALA VAL PRO LEU TYR SER ALA SER SEQRES 26 A 479 VAL THR TRP ASP HIS LEU GLU ALA SER GLY VAL GLN ASN SEQRES 27 A 479 ILE LYS GLY VAL TRP ALA TYR ALA ARG GLN LEU MET MET SEQRES 28 A 479 VAL ILE SER ILE GLU GLN THR GLY ALA GLY ASP ALA MET SEQRES 29 A 479 HIS ALA LEU LEU ALA ALA ALA GLY ARG LYS ARG THR GLY SEQRES 30 A 479 GLY VAL ASP ARG TYR PHE VAL VAL VAL ASP GLU ASP ILE SEQRES 31 A 479 ASP ILE THR ASP ILE ASN HIS VAL LEU TRP ALA LEU PHE SEQRES 32 A 479 THR ARG VAL ASP PRO ALA GLU SER ILE HIS VAL LEU ARG SEQRES 33 A 479 THR PRO THR THR ALA ILE ASP PRO ARG LEU SER PRO ALA SEQRES 34 A 479 LYS ARG GLU ALA GLY ASP MET SER MET GLY ILE VAL LEU SEQRES 35 A 479 ILE ASP ALA CYS LYS PRO PHE ALA TRP LYS ASP SER TYR SEQRES 36 A 479 PRO ARG ALA ASN ARG PHE ASP GLU PRO TYR ARG ALA GLU SEQRES 37 A 479 ILE ARG ASP ARG TRP LYS ALA THR LEU PRO LEU SEQRES 1 B 5 UNK UNK UNK UNK UNK HET MN A 501 1 HET 4LU A 502 36 HET NA A 503 1 HETNAM MN MANGANESE (II) ION HETNAM 4LU 1-DEOXY-5-O-PHOSPHONO-1-(3,3,4,5-TETRAMETHYL-9,11- HETNAM 2 4LU DIOXO-2,3,8,9,10,11-HEXAHYDRO-7H-QUINOLINO[1,8- HETNAM 3 4LU FG]PTERIDIN-12-IUM-7-Y L)-D-RIBITOL HETNAM NA SODIUM ION HETSYN 4LU PRENYLATED-FMN IMINIUM FORM FORMUL 3 MN MN 2+ FORMUL 4 4LU C22 H30 N4 O9 P 1+ FORMUL 5 NA NA 1+ FORMUL 6 HOH *44(H2 O) HELIX 1 AA1 ASP A 6 GLY A 19 1 14 HELIX 2 AA2 LEU A 33 LYS A 45 1 13 HELIX 3 AA3 THR A 71 LEU A 79 1 9 HELIX 4 AA4 SER A 86 ILE A 101 1 16 HELIX 5 AA5 GLY A 112 GLU A 116 5 5 HELIX 6 AA6 ASP A 122 VAL A 124 5 3 HELIX 7 AA7 ASP A 125 PHE A 129 5 5 HELIX 8 AA8 ARG A 182 ASP A 193 1 12 HELIX 9 AA9 ASP A 207 ALA A 215 1 9 HELIX 10 AB1 CYS A 223 GLY A 233 1 11 HELIX 11 AB2 PRO A 320 SER A 334 1 15 HELIX 12 AB3 GLY A 361 GLY A 372 1 12 HELIX 13 AB4 ASP A 394 ARG A 405 1 12 HELIX 14 AB5 ASP A 407 SER A 411 1 5 HELIX 15 AB6 SER A 427 ALA A 433 1 7 HELIX 16 AB7 PRO A 448 TYR A 455 5 8 HELIX 17 AB8 ASP A 462 TRP A 473 1 12 SHEET 1 AA1 4 VAL A 23 LYS A 27 0 SHEET 2 AA1 4 ALA A 49 ASP A 53 1 O ASP A 53 N ILE A 26 SHEET 3 AA1 4 ARG A 63 THR A 66 -1 O VAL A 64 N PHE A 52 SHEET 4 AA1 4 ILE A 301 GLY A 304 1 O ILE A 302 N PHE A 65 SHEET 1 AA2 6 VAL A 159 GLY A 162 0 SHEET 2 AA2 6 MET A 148 ARG A 152 -1 N VAL A 149 O GLY A 162 SHEET 3 AA2 6 CYS A 198 GLY A 205 -1 O ALA A 201 N ILE A 150 SHEET 4 AA2 6 ILE A 254 MET A 260 -1 O GLY A 258 N ILE A 200 SHEET 5 AA2 6 GLY A 284 HIS A 296 -1 O LEU A 295 N VAL A 255 SHEET 6 AA2 6 SER A 267 GLU A 270 -1 N VAL A 268 O GLU A 286 SHEET 1 AA3 5 GLY A 166 VAL A 168 0 SHEET 2 AA3 5 ARG A 173 LEU A 176 -1 O SER A 175 N CYS A 167 SHEET 3 AA3 5 GLY A 284 HIS A 296 -1 O VAL A 289 N LEU A 174 SHEET 4 AA3 5 ASN A 117 GLU A 120 -1 N ASN A 117 O HIS A 296 SHEET 5 AA3 5 UNK B 3 UNK B 4 1 O UNK B 4 N GLU A 120 SHEET 1 AA4 2 VAL A 238 SER A 240 0 SHEET 2 AA4 2 PRO A 247 PRO A 249 -1 O ILE A 248 N ILE A 239 SHEET 1 AA5 5 ILE A 339 TYR A 345 0 SHEET 2 AA5 5 MET A 350 ILE A 355 -1 O SER A 354 N LYS A 340 SHEET 3 AA5 5 TYR A 382 VAL A 386 1 O VAL A 384 N MET A 351 SHEET 4 AA5 5 ILE A 440 ASP A 444 1 O ILE A 443 N PHE A 383 SHEET 5 AA5 5 ILE A 412 LEU A 415 -1 N LEU A 415 O ILE A 440 LINK OD1 ASN A 160 MN MN A 501 1555 1555 2.21 LINK O VAL A 161 NA NA A 503 1555 1555 3.07 LINK O ALA A 214 NA NA A 503 1555 1555 2.49 LINK O ILE A 216 NA NA A 503 1555 1555 2.98 LINK OE1 GLU A 224 MN MN A 501 1555 1555 2.25 LINK OE1 GLU A 224 NA NA A 503 1555 1555 2.62 LINK MN MN A 501 O2PA4LU A 502 1555 1555 2.66 LINK O4'A4LU A 502 NA NA A 503 1555 1555 2.97 LINK O5'A4LU A 502 NA NA A 503 1555 1555 3.15 LINK O2PA4LU A 502 NA NA A 503 1555 1555 3.08 CRYST1 124.696 124.696 68.846 90.00 90.00 120.00 P 3 1 2 6 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 0.008020 0.004630 0.000000 0.00000 SCALE2 0.000000 0.009260 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014525 0.00000