HEADER DNA BINDING PROTEIN 31-DEC-16 5WW9 TITLE CRYSTAL STRUCTURE OF R73E MUTANT OF THE SECOND DNA-BINDING PROTEIN TITLE 2 UNDER STARVATION FROM MYCOBACTERIUM SMEGMATIS COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE STARVATION-INDUCED DNA PROTECTING PROTEIN/FERRITIN COMPND 3 AND DPS; COMPND 4 CHAIN: A, B, C, D; COMPND 5 SYNONYM: MSDPS2, STARVATION-INDUCIBLE DNA-BINDING PROTEIN OR FINE COMPND 6 TANGLED PILI MAJOR SUBUNIT; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM SMEGMATIS STR. MC2 155; SOURCE 3 ORGANISM_TAXID: 246196; SOURCE 4 STRAIN: MC2 155; SOURCE 5 GENE: MSMEG_3242, MSMEI_3159; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS FERRITIN-LIKE FOLD, DNA BINDING, FERROXIDATION, OXIDOREDUCTASE, DNA KEYWDS 2 BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR S.M.WILLIAMS,D.CHATTERJI REVDAT 2 20-MAR-24 5WW9 1 LINK REVDAT 1 09-AUG-17 5WW9 0 JRNL AUTH S.M.WILLIAMS,D.CHATTERJI JRNL TITL FLEXIBLE ASPARTATES PROPEL IRON TO THE FERROXIDATION SITES JRNL TITL 2 ALONG PATHWAYS STABILIZED BY A CONSERVED ARGININE IN DPS JRNL TITL 3 PROTEINS FROM MYCOBACTERIUM SMEGMATIS JRNL REF METALLOMICS V. 9 685 2017 JRNL REFN ESSN 1756-591X JRNL PMID 28418062 JRNL DOI 10.1039/C7MT00008A REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0103 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 89.8 REMARK 3 NUMBER OF REFLECTIONS : 39311 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) : 0.184 REMARK 3 R VALUE (WORKING SET) : 0.182 REMARK 3 FREE R VALUE : 0.224 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2094 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) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3165 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.29 REMARK 3 BIN R VALUE (WORKING SET) : 0.1850 REMARK 3 BIN FREE R VALUE SET COUNT : 176 REMARK 3 BIN FREE R VALUE : 0.2630 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4964 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 8 REMARK 3 SOLVENT ATOMS : 514 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 13.38 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.12000 REMARK 3 B22 (A**2) : 0.12000 REMARK 3 B33 (A**2) : -0.41000 REMARK 3 B12 (A**2) : 0.06000 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): 0.216 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.177 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.103 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.641 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.937 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.909 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5063 ; 0.008 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6896 ; 1.154 ; 1.950 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 648 ; 5.148 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 256 ;32.304 ;24.219 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 834 ;14.552 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 48 ;17.655 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 814 ; 0.085 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3896 ; 0.005 ; 0.021 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): 2571 ; 0.728 ; 1.250 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3208 ; 1.304 ; 1.864 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2491 ; 0.688 ; 1.309 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): 8473 ; 3.744 ;10.562 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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 USED IF PRESENT IN REMARK 3 THE INPUT REMARK 4 REMARK 4 5WW9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 06-JAN-17. REMARK 100 THE DEPOSITION ID IS D_1300002499. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-MAY-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 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 : BRUKER AXS MICROSTAR REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54179 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 345 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 41444 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 89.9 REMARK 200 DATA REDUNDANCY : 17.00 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 38.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.11 REMARK 200 COMPLETENESS FOR SHELL (%) : 82.2 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 FOR SHELL : 15.70 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: REFMAC REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.14 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.37 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM SODIUM CACODYLATE, 150 MM REMARK 280 MGCL2, 20% PEG3350, PH 6.0, MICROBATCH, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 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 7555 X+2/3,Y+1/3,Z+1/3 REMARK 290 8555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 9555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 10555 Y+2/3,X+1/3,-Z+1/3 REMARK 290 11555 X-Y+2/3,-Y+1/3,-Z+1/3 REMARK 290 12555 -X+2/3,-X+Y+1/3,-Z+1/3 REMARK 290 13555 X+1/3,Y+2/3,Z+2/3 REMARK 290 14555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 15555 -X+Y+1/3,-X+2/3,Z+2/3 REMARK 290 16555 Y+1/3,X+2/3,-Z+2/3 REMARK 290 17555 X-Y+1/3,-Y+2/3,-Z+2/3 REMARK 290 18555 -X+1/3,-X+Y+2/3,-Z+2/3 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 SMTRY1 7 1.000000 0.000000 0.000000 45.47500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 26.25500 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 140.35500 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 45.47500 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 26.25500 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 140.35500 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 45.47500 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 26.25500 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 140.35500 REMARK 290 SMTRY1 10 -0.500000 0.866025 0.000000 45.47500 REMARK 290 SMTRY2 10 0.866025 0.500000 0.000000 26.25500 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 140.35500 REMARK 290 SMTRY1 11 1.000000 0.000000 0.000000 45.47500 REMARK 290 SMTRY2 11 0.000000 -1.000000 0.000000 26.25500 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 140.35500 REMARK 290 SMTRY1 12 -0.500000 -0.866025 0.000000 45.47500 REMARK 290 SMTRY2 12 -0.866025 0.500000 0.000000 26.25500 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 140.35500 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 52.51001 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 280.71000 REMARK 290 SMTRY1 14 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 14 0.866025 -0.500000 0.000000 52.51001 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 280.71000 REMARK 290 SMTRY1 15 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 15 -0.866025 -0.500000 0.000000 52.51001 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 280.71000 REMARK 290 SMTRY1 16 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 16 0.866025 0.500000 0.000000 52.51001 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 280.71000 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 -1.000000 0.000000 52.51001 REMARK 290 SMTRY3 17 0.000000 0.000000 -1.000000 280.71000 REMARK 290 SMTRY1 18 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 18 -0.866025 0.500000 0.000000 52.51001 REMARK 290 SMTRY3 18 0.000000 0.000000 -1.000000 280.71000 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: DODECAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DODECAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 55050 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 57860 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -174.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 90.95000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 45.47500 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 78.76501 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 MG MG A 201 LIES ON A SPECIAL POSITION. REMARK 375 CL CL A 202 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 412 LIES ON A SPECIAL POSITION. REMARK 375 HOH D 376 LIES ON A SPECIAL POSITION. REMARK 375 HOH D 409 LIES ON A SPECIAL POSITION. REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET B 1 REMARK 465 SER B 8 REMARK 465 MET C 1 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 MET A 1 CG SD CE REMARK 470 ASP A 9 CG OD1 OD2 REMARK 470 SER B 2 OG REMARK 470 LYS C 160 CG CD CE NZ REMARK 470 MET D 1 CG SD CE REMARK 470 GLU D 7 CB CG CD OE1 OE2 REMARK 470 ASP D 9 CG OD1 OD2 REMARK 470 GLU D 65 CG CD OE1 OE2 REMARK 470 LYS D 160 CG CD CE NZ 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 ARG B 155 NE - CZ - NH1 ANGL. DEV. = 3.6 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 9 60.42 -117.57 REMARK 500 PHE A 100 -174.71 70.87 REMARK 500 PHE B 100 172.38 73.79 REMARK 500 PHE D 100 172.58 76.08 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 A 201 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 48 OD1 REMARK 620 2 ASN A 48 OD1 0.0 REMARK 620 3 ASP A 51 OD2 88.4 88.4 REMARK 620 4 ASP A 51 OD2 88.4 88.4 0.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE A 203 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 68 OD1 REMARK 620 2 ASP A 68 OD2 50.4 REMARK 620 3 GLU A 72 OE2 107.2 93.9 REMARK 620 4 HIS B 41 NE2 101.9 149.2 109.2 REMARK 620 5 HOH B 308 O 89.1 70.4 142.3 99.9 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG D 201 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN B 48 OD1 REMARK 620 2 ASP B 51 OD2 92.0 REMARK 620 3 ASN C 48 OD1 89.9 175.7 REMARK 620 4 ASP C 51 OD2 86.0 90.1 93.9 REMARK 620 5 ASN D 48 OD1 131.4 93.4 88.2 45.8 REMARK 620 6 ASP D 51 OD2 133.5 91.0 90.5 47.6 3.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE D 202 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS C 41 NE2 REMARK 620 2 HOH C 304 O 102.3 REMARK 620 3 ASP D 68 OD2 142.8 73.5 REMARK 620 4 GLU D 72 OE2 88.5 167.7 101.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE C 201 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP C 68 OD1 REMARK 620 2 ASP C 68 OD2 47.3 REMARK 620 3 GLU C 72 OE2 90.2 95.1 REMARK 620 4 HIS D 41 NE2 97.5 144.5 89.1 REMARK 620 5 HOH D 304 O 92.6 69.8 155.9 114.2 REMARK 620 N 1 2 3 4 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 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FE A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FE B 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FE C 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG D 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FE D 202 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5WW3 RELATED DB: PDB REMARK 900 RELATED ID: 5WW4 RELATED DB: PDB REMARK 900 RELATED ID: 5WW5 RELATED DB: PDB REMARK 900 RELATED ID: 5WW6 RELATED DB: PDB REMARK 900 RELATED ID: 5WW7 RELATED DB: PDB REMARK 900 RELATED ID: 5WW8 RELATED DB: PDB DBREF 5WW9 A 1 161 UNP A0QXB7 A0QXB7_MYCS2 1 161 DBREF 5WW9 B 1 161 UNP A0QXB7 A0QXB7_MYCS2 1 161 DBREF 5WW9 C 1 161 UNP A0QXB7 A0QXB7_MYCS2 1 161 DBREF 5WW9 D 1 161 UNP A0QXB7 A0QXB7_MYCS2 1 161 SEQADV 5WW9 GLU A 73 UNP A0QXB7 ARG 73 ENGINEERED MUTATION SEQADV 5WW9 GLU B 73 UNP A0QXB7 ARG 73 ENGINEERED MUTATION SEQADV 5WW9 GLU C 73 UNP A0QXB7 ARG 73 ENGINEERED MUTATION SEQADV 5WW9 GLU D 73 UNP A0QXB7 ARG 73 ENGINEERED MUTATION SEQRES 1 A 161 MET SER ALA ARG ARG THR GLU SER ASP ILE GLN GLY PHE SEQRES 2 A 161 HIS ALA THR PRO GLU PHE GLY GLY ASN LEU GLN LYS VAL SEQRES 3 A 161 LEU VAL ASP LEU ILE GLU LEU SER LEU GLN GLY LYS GLN SEQRES 4 A 161 ALA HIS TRP ASN VAL VAL GLY SER ASN PHE ARG ASP LEU SEQRES 5 A 161 HIS LEU GLN LEU ASP GLU LEU VAL ASP PHE ALA ARG GLU SEQRES 6 A 161 GLY SER ASP THR ILE ALA GLU GLU MET ARG ALA LEU ASP SEQRES 7 A 161 ALA VAL PRO ASP GLY ARG SER ASP THR VAL ALA ALA THR SEQRES 8 A 161 THR THR LEU PRO GLU PHE PRO ALA PHE GLU ARG SER THR SEQRES 9 A 161 ALA ASP VAL VAL ASP LEU ILE THR THR ARG ILE ASN ALA SEQRES 10 A 161 THR VAL ASP THR ILE ARG ARG VAL HIS ASP ALA VAL ASP SEQRES 11 A 161 ALA GLU ASP PRO SER THR ALA ASP LEU LEU HIS GLY LEU SEQRES 12 A 161 ILE ASP GLY LEU GLU LYS GLN ALA TRP LEU ILE ARG SER SEQRES 13 A 161 GLU ASN ARG LYS VAL SEQRES 1 B 161 MET SER ALA ARG ARG THR GLU SER ASP ILE GLN GLY PHE SEQRES 2 B 161 HIS ALA THR PRO GLU PHE GLY GLY ASN LEU GLN LYS VAL SEQRES 3 B 161 LEU VAL ASP LEU ILE GLU LEU SER LEU GLN GLY LYS GLN SEQRES 4 B 161 ALA HIS TRP ASN VAL VAL GLY SER ASN PHE ARG ASP LEU SEQRES 5 B 161 HIS LEU GLN LEU ASP GLU LEU VAL ASP PHE ALA ARG GLU SEQRES 6 B 161 GLY SER ASP THR ILE ALA GLU GLU MET ARG ALA LEU ASP SEQRES 7 B 161 ALA VAL PRO ASP GLY ARG SER ASP THR VAL ALA ALA THR SEQRES 8 B 161 THR THR LEU PRO GLU PHE PRO ALA PHE GLU ARG SER THR SEQRES 9 B 161 ALA ASP VAL VAL ASP LEU ILE THR THR ARG ILE ASN ALA SEQRES 10 B 161 THR VAL ASP THR ILE ARG ARG VAL HIS ASP ALA VAL ASP SEQRES 11 B 161 ALA GLU ASP PRO SER THR ALA ASP LEU LEU HIS GLY LEU SEQRES 12 B 161 ILE ASP GLY LEU GLU LYS GLN ALA TRP LEU ILE ARG SER SEQRES 13 B 161 GLU ASN ARG LYS VAL SEQRES 1 C 161 MET SER ALA ARG ARG THR GLU SER ASP ILE GLN GLY PHE SEQRES 2 C 161 HIS ALA THR PRO GLU PHE GLY GLY ASN LEU GLN LYS VAL SEQRES 3 C 161 LEU VAL ASP LEU ILE GLU LEU SER LEU GLN GLY LYS GLN SEQRES 4 C 161 ALA HIS TRP ASN VAL VAL GLY SER ASN PHE ARG ASP LEU SEQRES 5 C 161 HIS LEU GLN LEU ASP GLU LEU VAL ASP PHE ALA ARG GLU SEQRES 6 C 161 GLY SER ASP THR ILE ALA GLU GLU MET ARG ALA LEU ASP SEQRES 7 C 161 ALA VAL PRO ASP GLY ARG SER ASP THR VAL ALA ALA THR SEQRES 8 C 161 THR THR LEU PRO GLU PHE PRO ALA PHE GLU ARG SER THR SEQRES 9 C 161 ALA ASP VAL VAL ASP LEU ILE THR THR ARG ILE ASN ALA SEQRES 10 C 161 THR VAL ASP THR ILE ARG ARG VAL HIS ASP ALA VAL ASP SEQRES 11 C 161 ALA GLU ASP PRO SER THR ALA ASP LEU LEU HIS GLY LEU SEQRES 12 C 161 ILE ASP GLY LEU GLU LYS GLN ALA TRP LEU ILE ARG SER SEQRES 13 C 161 GLU ASN ARG LYS VAL SEQRES 1 D 161 MET SER ALA ARG ARG THR GLU SER ASP ILE GLN GLY PHE SEQRES 2 D 161 HIS ALA THR PRO GLU PHE GLY GLY ASN LEU GLN LYS VAL SEQRES 3 D 161 LEU VAL ASP LEU ILE GLU LEU SER LEU GLN GLY LYS GLN SEQRES 4 D 161 ALA HIS TRP ASN VAL VAL GLY SER ASN PHE ARG ASP LEU SEQRES 5 D 161 HIS LEU GLN LEU ASP GLU LEU VAL ASP PHE ALA ARG GLU SEQRES 6 D 161 GLY SER ASP THR ILE ALA GLU GLU MET ARG ALA LEU ASP SEQRES 7 D 161 ALA VAL PRO ASP GLY ARG SER ASP THR VAL ALA ALA THR SEQRES 8 D 161 THR THR LEU PRO GLU PHE PRO ALA PHE GLU ARG SER THR SEQRES 9 D 161 ALA ASP VAL VAL ASP LEU ILE THR THR ARG ILE ASN ALA SEQRES 10 D 161 THR VAL ASP THR ILE ARG ARG VAL HIS ASP ALA VAL ASP SEQRES 11 D 161 ALA GLU ASP PRO SER THR ALA ASP LEU LEU HIS GLY LEU SEQRES 12 D 161 ILE ASP GLY LEU GLU LYS GLN ALA TRP LEU ILE ARG SER SEQRES 13 D 161 GLU ASN ARG LYS VAL HET MG A 201 1 HET CL A 202 1 HET FE A 203 1 HET CL B 201 1 HET FE B 202 1 HET FE C 201 1 HET MG D 201 1 HET FE D 202 1 HETNAM MG MAGNESIUM ION HETNAM CL CHLORIDE ION HETNAM FE FE (III) ION FORMUL 5 MG 2(MG 2+) FORMUL 6 CL 2(CL 1-) FORMUL 7 FE 4(FE 3+) FORMUL 13 HOH *514(H2 O) HELIX 1 AA1 THR A 16 ASN A 43 1 28 HELIX 2 AA2 ASN A 48 LEU A 77 1 30 HELIX 3 AA3 ARG A 84 THR A 92 1 9 HELIX 4 AA4 THR A 104 ASP A 133 1 30 HELIX 5 AA5 ASP A 133 SER A 156 1 24 HELIX 6 AA6 THR B 16 ASN B 43 1 28 HELIX 7 AA7 ASN B 48 LEU B 77 1 30 HELIX 8 AA8 ARG B 84 THR B 92 1 9 HELIX 9 AA9 THR B 104 ASP B 133 1 30 HELIX 10 AB1 ASP B 133 SER B 156 1 24 HELIX 11 AB2 GLU B 157 ARG B 159 5 3 HELIX 12 AB3 THR C 16 ASN C 43 1 28 HELIX 13 AB4 ASN C 48 LEU C 77 1 30 HELIX 14 AB5 ARG C 84 THR C 92 1 9 HELIX 15 AB6 THR C 104 ASP C 133 1 30 HELIX 16 AB7 ASP C 133 SER C 156 1 24 HELIX 17 AB8 GLU C 157 ARG C 159 5 3 HELIX 18 AB9 THR D 16 ASN D 43 1 28 HELIX 19 AC1 ASN D 48 LEU D 77 1 30 HELIX 20 AC2 ARG D 84 THR D 92 1 9 HELIX 21 AC3 THR D 104 ASP D 133 1 30 HELIX 22 AC4 ASP D 133 SER D 156 1 24 HELIX 23 AC5 GLU D 157 ARG D 159 5 3 SHEET 1 AA1 2 VAL A 44 VAL A 45 0 SHEET 2 AA1 2 ARG A 102 SER A 103 1 O ARG A 102 N VAL A 45 SHEET 1 AA2 2 VAL B 44 VAL B 45 0 SHEET 2 AA2 2 ARG B 102 SER B 103 1 O ARG B 102 N VAL B 45 SHEET 1 AA3 2 VAL C 44 VAL C 45 0 SHEET 2 AA3 2 ARG C 102 SER C 103 1 O ARG C 102 N VAL C 45 SHEET 1 AA4 2 VAL D 44 VAL D 45 0 SHEET 2 AA4 2 ARG D 102 SER D 103 1 O ARG D 102 N VAL D 45 LINK OD1 ASN A 48 MG MG A 201 1555 1555 2.14 LINK OD1 ASN A 48 MG MG A 201 1555 2655 1.91 LINK OD2 ASP A 51 MG MG A 201 1555 1555 2.20 LINK OD2 ASP A 51 MG MG A 201 1555 3665 1.98 LINK OD1 ASP A 68 FE FE A 203 1555 1555 2.52 LINK OD2 ASP A 68 FE FE A 203 1555 1555 2.66 LINK OE2 GLU A 72 FE FE A 203 1555 1555 2.26 LINK FE FE A 203 NE2 HIS B 41 1555 1555 2.33 LINK FE FE A 203 O HOH B 308 1555 1555 2.57 LINK O HOH A 301 FE FE B 202 1555 1555 2.23 LINK OD1 ASN B 48 MG MG D 201 1555 3665 1.97 LINK OD2 ASP B 51 MG MG D 201 1555 3665 2.12 LINK NE2 HIS C 41 FE FE D 202 1555 1555 2.44 LINK OD1 ASN C 48 MG MG D 201 1555 3665 1.92 LINK OD2 ASP C 51 MG MG D 201 1555 3665 2.10 LINK OD1 ASP C 68 FE FE C 201 1555 1555 2.75 LINK OD2 ASP C 68 FE FE C 201 1555 1555 2.74 LINK OE2 GLU C 72 FE FE C 201 1555 1555 2.18 LINK FE FE C 201 NE2 HIS D 41 1555 1555 2.32 LINK FE FE C 201 O HOH D 304 1555 1555 2.42 LINK O HOH C 304 FE FE D 202 1555 1555 2.56 LINK OD1 ASN D 48 MG MG D 201 1555 1555 1.98 LINK OD2 ASP D 51 MG MG D 201 1555 1555 2.08 LINK OD2 ASP D 68 FE FE D 202 1555 1555 2.60 LINK OE2 GLU D 72 FE FE D 202 1555 1555 2.32 SITE 1 AC1 2 ASN A 48 ASP A 51 SITE 1 AC2 2 ARG A 50 HOH A 305 SITE 1 AC3 4 ASP A 68 GLU A 72 HIS B 41 HOH B 308 SITE 1 AC4 4 ARG B 50 ARG C 50 HOH C 301 ARG D 50 SITE 1 AC5 6 LYS A 38 HIS A 41 TRP A 42 HOH A 301 SITE 2 AC5 6 ASP B 68 GLU B 72 SITE 1 AC6 5 ASP C 68 GLU C 72 HIS D 41 ASP D 57 SITE 2 AC6 5 HOH D 304 SITE 1 AC7 6 ASN B 48 ASP B 51 ASN C 48 ASP C 51 SITE 2 AC7 6 ASN D 48 ASP D 51 SITE 1 AC8 5 LYS C 38 HIS C 41 HOH C 304 ASP D 68 SITE 2 AC8 5 GLU D 72 CRYST1 90.950 90.950 421.065 90.00 90.00 120.00 H 3 2 72 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 0.010995 0.006348 0.000000 0.00000 SCALE2 0.000000 0.012696 0.000000 0.00000 SCALE3 0.000000 0.000000 0.002375 0.00000