HEADER DNA BINDING PROTEIN 02-APR-20 6YJ2 TITLE STRUCTURAL AND DNA BINDING STUDIES OF THE TRANSCRIPTIONAL REPRESSOR TITLE 2 RV2506 (BKAR) FROM MYCOBACTERIUM TUBERCULOSIS SUPPORTS A ROLE IN L- TITLE 3 LEUCINE CATABOLISM COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROBABLE TRANSCRIPTIONAL REGULATORY PROTEIN (PROBABLY TETR- COMPND 3 FAMILY); COMPND 4 CHAIN: B, D, A, C; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM TUBERCULOSIS (STRAIN ATCC 25618 / SOURCE 3 H37RV); SOURCE 4 ORGANISM_TAXID: 83332; SOURCE 5 STRAIN: ATCC 25618 / H37RV; SOURCE 6 GENE: RV2506; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) KEYWDS TUBERCULOSIS, BRANCH-CHAIN AMINO ACID CATABOLISM, TETR FAMILY, DNA KEYWDS 2 BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR N.H.KEEP,J.E.PRITCHARD,A.SULA,A.R.COLE,S.L.KENDALL REVDAT 2 24-JAN-24 6YJ2 1 REMARK REVDAT 1 14-APR-21 6YJ2 0 JRNL AUTH J.E.PRITCHARD,A.SULA,A.R.COLE,S.L.KENDALL,N.H.KEEP JRNL TITL STRUCTURAL AND DNA BINDING STUDIES OF THE TRANSCRIPTIONAL JRNL TITL 2 REPRESSOR RV2506 (BKAR) FROM MYCOBACTERIUM TUBERCULOSIS JRNL TITL 3 SUPPORTS A ROLE IN L-LEUCINE CATABOLISM JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.00 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 56283 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) : 0.194 REMARK 3 R VALUE (WORKING SET) : 0.192 REMARK 3 FREE R VALUE : 0.225 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2946 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) : 4123 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.68 REMARK 3 BIN R VALUE (WORKING SET) : 0.2770 REMARK 3 BIN FREE R VALUE SET COUNT : 221 REMARK 3 BIN FREE R VALUE : 0.3150 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5752 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 48 REMARK 3 SOLVENT ATOMS : 244 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 32.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 52.00 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.51000 REMARK 3 B22 (A**2) : -2.19000 REMARK 3 B33 (A**2) : 1.67000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.14000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.170 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.150 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.118 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.343 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.961 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.946 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5874 ; 0.008 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 5828 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7936 ; 1.474 ; 1.631 REMARK 3 BOND ANGLES OTHERS (DEGREES): 13295 ; 1.339 ; 1.575 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 749 ; 5.515 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 343 ;26.864 ;18.805 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 970 ;16.488 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 81 ;17.181 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 751 ; 0.076 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6681 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1366 ; 0.001 ; 0.020 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 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 6 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 B 24 215 D 24 215 5807 0.090 0.050 REMARK 3 2 B 25 214 A 25 214 5669 0.090 0.050 REMARK 3 3 B 28 214 C 28 214 5459 0.100 0.050 REMARK 3 4 D 25 214 A 25 214 5606 0.100 0.050 REMARK 3 5 D 28 214 C 28 214 5521 0.090 0.050 REMARK 3 6 A 28 213 C 28 213 5459 0.090 0.050 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 ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 6YJ2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 02-APR-20. REMARK 100 THE DEPOSITION ID IS D_1292107710. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-DEC-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SOLEIL REMARK 200 BEAMLINE : PROXIMA 1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97857 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 S 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 59229 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 46.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : 0.05200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.5000 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) : 2.05 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 3.50 REMARK 200 R MERGE FOR SHELL (I) : 0.55400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.300 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: 4G12 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.20 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.37 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.22 M AMMONIUM CITRATE TRIBASIC PH REMARK 280 7.0, 26.4 % (W/V) POLYETHYLENE GLYCOL (PEG) 3350, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 289K 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 90.88200 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 26.43700 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 90.88200 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 26.43700 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3820 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17670 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -30.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, 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: 3720 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17660 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -25.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: D, C REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET B 1 REMARK 465 THR B 2 REMARK 465 ALA B 3 REMARK 465 SER B 4 REMARK 465 ALA B 5 REMARK 465 PRO B 6 REMARK 465 ASP B 7 REMARK 465 GLY B 8 REMARK 465 ARG B 9 REMARK 465 PRO B 10 REMARK 465 GLY B 11 REMARK 465 GLN B 12 REMARK 465 PRO B 13 REMARK 465 GLU B 14 REMARK 465 ALA B 15 REMARK 465 THR B 16 REMARK 465 ASN B 17 REMARK 465 ARG B 18 REMARK 465 ARG B 19 REMARK 465 SER B 20 REMARK 465 GLN B 21 REMARK 465 LEU B 22 REMARK 465 LYS B 23 REMARK 465 MET D 1 REMARK 465 THR D 2 REMARK 465 ALA D 3 REMARK 465 SER D 4 REMARK 465 ALA D 5 REMARK 465 PRO D 6 REMARK 465 ASP D 7 REMARK 465 GLY D 8 REMARK 465 ARG D 9 REMARK 465 PRO D 10 REMARK 465 GLY D 11 REMARK 465 GLN D 12 REMARK 465 PRO D 13 REMARK 465 GLU D 14 REMARK 465 ALA D 15 REMARK 465 THR D 16 REMARK 465 ASN D 17 REMARK 465 ARG D 18 REMARK 465 ARG D 19 REMARK 465 SER D 20 REMARK 465 GLN D 21 REMARK 465 LEU D 22 REMARK 465 LYS D 23 REMARK 465 MET A 1 REMARK 465 THR A 2 REMARK 465 ALA A 3 REMARK 465 SER A 4 REMARK 465 ALA A 5 REMARK 465 PRO A 6 REMARK 465 ASP A 7 REMARK 465 GLY A 8 REMARK 465 ARG A 9 REMARK 465 PRO A 10 REMARK 465 GLY A 11 REMARK 465 GLN A 12 REMARK 465 PRO A 13 REMARK 465 GLU A 14 REMARK 465 ALA A 15 REMARK 465 THR A 16 REMARK 465 ASN A 17 REMARK 465 ARG A 18 REMARK 465 ARG A 19 REMARK 465 SER A 20 REMARK 465 GLN A 21 REMARK 465 LEU A 22 REMARK 465 LYS A 23 REMARK 465 SER A 24 REMARK 465 ALA A 185 REMARK 465 ALA A 186 REMARK 465 ASP A 187 REMARK 465 SER A 188 REMARK 465 LEU A 215 REMARK 465 MET C 1 REMARK 465 THR C 2 REMARK 465 ALA C 3 REMARK 465 SER C 4 REMARK 465 ALA C 5 REMARK 465 PRO C 6 REMARK 465 ASP C 7 REMARK 465 GLY C 8 REMARK 465 ARG C 9 REMARK 465 PRO C 10 REMARK 465 GLY C 11 REMARK 465 GLN C 12 REMARK 465 PRO C 13 REMARK 465 GLU C 14 REMARK 465 ALA C 15 REMARK 465 THR C 16 REMARK 465 ASN C 17 REMARK 465 ARG C 18 REMARK 465 ARG C 19 REMARK 465 SER C 20 REMARK 465 GLN C 21 REMARK 465 LEU C 22 REMARK 465 LYS C 23 REMARK 465 SER C 24 REMARK 465 ASP C 25 REMARK 465 ARG C 26 REMARK 465 ARG C 27 REMARK 465 ALA C 186 REMARK 465 ASP C 187 REMARK 465 SER C 188 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 ARG C 47 CG CD NE CZ NH1 NH2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 OE1 GLN D 123 O HOH D 401 2.08 REMARK 500 OD1 ASP C 164 O HOH C 401 2.11 REMARK 500 OE1 GLN C 123 O HOH C 402 2.14 REMARK 500 NH2 ARG D 192 O HOH C 401 2.15 REMARK 500 OG1 THR C 92 O HOH C 403 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ARG A 201 NE - CZ - NH2 ANGL. DEV. = -4.2 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 D 187 50.77 -96.93 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 GOL B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL D 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL D 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL C 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL C 302 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4G12 RELATED DB: PDB REMARK 900 MR MODEL DBREF 6YJ2 B 1 215 UNP O06169 O06169_MYCTU 1 215 DBREF 6YJ2 D 1 215 UNP O06169 O06169_MYCTU 1 215 DBREF 6YJ2 A 1 215 UNP O06169 O06169_MYCTU 1 215 DBREF 6YJ2 C 1 215 UNP O06169 O06169_MYCTU 1 215 SEQRES 1 B 215 MET THR ALA SER ALA PRO ASP GLY ARG PRO GLY GLN PRO SEQRES 2 B 215 GLU ALA THR ASN ARG ARG SER GLN LEU LYS SER ASP ARG SEQRES 3 B 215 ARG PHE GLN LEU LEU ALA ALA ALA GLU ARG LEU PHE ALA SEQRES 4 B 215 GLU ARG GLY PHE LEU ALA VAL ARG LEU GLU ASP ILE GLY SEQRES 5 B 215 ALA ALA ALA GLY VAL SER GLY PRO ALA ILE TYR ARG HIS SEQRES 6 B 215 PHE PRO ASN LYS GLU SER LEU LEU VAL GLU LEU LEU VAL SEQRES 7 B 215 GLY VAL SER ALA ARG LEU LEU ALA GLY ALA ARG ASP VAL SEQRES 8 B 215 THR THR ARG SER ALA ASN LEU ALA ALA ALA LEU ASP GLY SEQRES 9 B 215 LEU ILE GLU PHE HIS LEU ASP PHE ALA LEU GLY GLU ALA SEQRES 10 B 215 ASP LEU ILE ARG ILE GLN ASP ARG ASP LEU ALA HIS LEU SEQRES 11 B 215 PRO ALA VAL ALA GLU ARG GLN VAL ARG LYS ALA GLN ARG SEQRES 12 B 215 GLN TYR VAL GLU VAL TRP VAL GLY VAL LEU ARG GLU LEU SEQRES 13 B 215 ASN PRO GLY LEU ALA GLU ALA ASP ALA ARG LEU MET ALA SEQRES 14 B 215 HIS ALA VAL PHE GLY LEU LEU ASN SER THR PRO HIS SER SEQRES 15 B 215 MET LYS ALA ALA ASP SER LYS PRO ALA ARG THR VAL ARG SEQRES 16 B 215 ALA ARG ALA VAL LEU ARG ALA MET THR VAL ALA ALA LEU SEQRES 17 B 215 SER ALA ALA ASP ARG CYS LEU SEQRES 1 D 215 MET THR ALA SER ALA PRO ASP GLY ARG PRO GLY GLN PRO SEQRES 2 D 215 GLU ALA THR ASN ARG ARG SER GLN LEU LYS SER ASP ARG SEQRES 3 D 215 ARG PHE GLN LEU LEU ALA ALA ALA GLU ARG LEU PHE ALA SEQRES 4 D 215 GLU ARG GLY PHE LEU ALA VAL ARG LEU GLU ASP ILE GLY SEQRES 5 D 215 ALA ALA ALA GLY VAL SER GLY PRO ALA ILE TYR ARG HIS SEQRES 6 D 215 PHE PRO ASN LYS GLU SER LEU LEU VAL GLU LEU LEU VAL SEQRES 7 D 215 GLY VAL SER ALA ARG LEU LEU ALA GLY ALA ARG ASP VAL SEQRES 8 D 215 THR THR ARG SER ALA ASN LEU ALA ALA ALA LEU ASP GLY SEQRES 9 D 215 LEU ILE GLU PHE HIS LEU ASP PHE ALA LEU GLY GLU ALA SEQRES 10 D 215 ASP LEU ILE ARG ILE GLN ASP ARG ASP LEU ALA HIS LEU SEQRES 11 D 215 PRO ALA VAL ALA GLU ARG GLN VAL ARG LYS ALA GLN ARG SEQRES 12 D 215 GLN TYR VAL GLU VAL TRP VAL GLY VAL LEU ARG GLU LEU SEQRES 13 D 215 ASN PRO GLY LEU ALA GLU ALA ASP ALA ARG LEU MET ALA SEQRES 14 D 215 HIS ALA VAL PHE GLY LEU LEU ASN SER THR PRO HIS SER SEQRES 15 D 215 MET LYS ALA ALA ASP SER LYS PRO ALA ARG THR VAL ARG SEQRES 16 D 215 ALA ARG ALA VAL LEU ARG ALA MET THR VAL ALA ALA LEU SEQRES 17 D 215 SER ALA ALA ASP ARG CYS LEU SEQRES 1 A 215 MET THR ALA SER ALA PRO ASP GLY ARG PRO GLY GLN PRO SEQRES 2 A 215 GLU ALA THR ASN ARG ARG SER GLN LEU LYS SER ASP ARG SEQRES 3 A 215 ARG PHE GLN LEU LEU ALA ALA ALA GLU ARG LEU PHE ALA SEQRES 4 A 215 GLU ARG GLY PHE LEU ALA VAL ARG LEU GLU ASP ILE GLY SEQRES 5 A 215 ALA ALA ALA GLY VAL SER GLY PRO ALA ILE TYR ARG HIS SEQRES 6 A 215 PHE PRO ASN LYS GLU SER LEU LEU VAL GLU LEU LEU VAL SEQRES 7 A 215 GLY VAL SER ALA ARG LEU LEU ALA GLY ALA ARG ASP VAL SEQRES 8 A 215 THR THR ARG SER ALA ASN LEU ALA ALA ALA LEU ASP GLY SEQRES 9 A 215 LEU ILE GLU PHE HIS LEU ASP PHE ALA LEU GLY GLU ALA SEQRES 10 A 215 ASP LEU ILE ARG ILE GLN ASP ARG ASP LEU ALA HIS LEU SEQRES 11 A 215 PRO ALA VAL ALA GLU ARG GLN VAL ARG LYS ALA GLN ARG SEQRES 12 A 215 GLN TYR VAL GLU VAL TRP VAL GLY VAL LEU ARG GLU LEU SEQRES 13 A 215 ASN PRO GLY LEU ALA GLU ALA ASP ALA ARG LEU MET ALA SEQRES 14 A 215 HIS ALA VAL PHE GLY LEU LEU ASN SER THR PRO HIS SER SEQRES 15 A 215 MET LYS ALA ALA ASP SER LYS PRO ALA ARG THR VAL ARG SEQRES 16 A 215 ALA ARG ALA VAL LEU ARG ALA MET THR VAL ALA ALA LEU SEQRES 17 A 215 SER ALA ALA ASP ARG CYS LEU SEQRES 1 C 215 MET THR ALA SER ALA PRO ASP GLY ARG PRO GLY GLN PRO SEQRES 2 C 215 GLU ALA THR ASN ARG ARG SER GLN LEU LYS SER ASP ARG SEQRES 3 C 215 ARG PHE GLN LEU LEU ALA ALA ALA GLU ARG LEU PHE ALA SEQRES 4 C 215 GLU ARG GLY PHE LEU ALA VAL ARG LEU GLU ASP ILE GLY SEQRES 5 C 215 ALA ALA ALA GLY VAL SER GLY PRO ALA ILE TYR ARG HIS SEQRES 6 C 215 PHE PRO ASN LYS GLU SER LEU LEU VAL GLU LEU LEU VAL SEQRES 7 C 215 GLY VAL SER ALA ARG LEU LEU ALA GLY ALA ARG ASP VAL SEQRES 8 C 215 THR THR ARG SER ALA ASN LEU ALA ALA ALA LEU ASP GLY SEQRES 9 C 215 LEU ILE GLU PHE HIS LEU ASP PHE ALA LEU GLY GLU ALA SEQRES 10 C 215 ASP LEU ILE ARG ILE GLN ASP ARG ASP LEU ALA HIS LEU SEQRES 11 C 215 PRO ALA VAL ALA GLU ARG GLN VAL ARG LYS ALA GLN ARG SEQRES 12 C 215 GLN TYR VAL GLU VAL TRP VAL GLY VAL LEU ARG GLU LEU SEQRES 13 C 215 ASN PRO GLY LEU ALA GLU ALA ASP ALA ARG LEU MET ALA SEQRES 14 C 215 HIS ALA VAL PHE GLY LEU LEU ASN SER THR PRO HIS SER SEQRES 15 C 215 MET LYS ALA ALA ASP SER LYS PRO ALA ARG THR VAL ARG SEQRES 16 C 215 ALA ARG ALA VAL LEU ARG ALA MET THR VAL ALA ALA LEU SEQRES 17 C 215 SER ALA ALA ASP ARG CYS LEU HET GOL B 301 6 HET GOL B 302 6 HET GOL B 303 6 HET GOL D 301 6 HET GOL D 302 6 HET GOL A 301 6 HET GOL C 301 6 HET GOL C 302 6 HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 5 GOL 8(C3 H8 O3) FORMUL 13 HOH *244(H2 O) HELIX 1 AA1 ASP B 25 GLY B 42 1 18 HELIX 2 AA2 ARG B 47 GLY B 56 1 10 HELIX 3 AA3 SER B 58 TYR B 63 1 6 HELIX 4 AA4 ASN B 68 SER B 95 1 28 HELIX 5 AA5 ASN B 97 GLU B 116 1 20 HELIX 6 AA6 GLU B 116 ASP B 126 1 11 HELIX 7 AA7 LEU B 127 LEU B 130 5 4 HELIX 8 AA8 PRO B 131 ASN B 157 1 27 HELIX 9 AA9 ALA B 161 ASN B 177 1 17 HELIX 10 AB1 SER B 178 MET B 183 1 6 HELIX 11 AB2 LYS B 184 SER B 188 5 5 HELIX 12 AB3 LYS B 189 ARG B 213 1 25 HELIX 13 AB4 ASP D 25 GLY D 42 1 18 HELIX 14 AB5 ARG D 47 GLY D 56 1 10 HELIX 15 AB6 SER D 58 TYR D 63 1 6 HELIX 16 AB7 ASN D 68 SER D 95 1 28 HELIX 17 AB8 ASN D 97 GLU D 116 1 20 HELIX 18 AB9 GLU D 116 ASP D 126 1 11 HELIX 19 AC1 LEU D 127 LEU D 130 5 4 HELIX 20 AC2 PRO D 131 ASN D 157 1 27 HELIX 21 AC3 ALA D 161 ASN D 177 1 17 HELIX 22 AC4 SER D 178 MET D 183 1 6 HELIX 23 AC5 LYS D 184 SER D 188 5 5 HELIX 24 AC6 LYS D 189 SER D 209 1 21 HELIX 25 AC7 ALA D 210 LEU D 215 5 6 HELIX 26 AC8 ARG A 26 GLY A 42 1 17 HELIX 27 AC9 ARG A 47 GLY A 56 1 10 HELIX 28 AD1 SER A 58 TYR A 63 1 6 HELIX 29 AD2 ASN A 68 SER A 95 1 28 HELIX 30 AD3 ASN A 97 GLU A 116 1 20 HELIX 31 AD4 GLU A 116 ASP A 126 1 11 HELIX 32 AD5 LEU A 127 LEU A 130 5 4 HELIX 33 AD6 PRO A 131 ASN A 157 1 27 HELIX 34 AD7 ALA A 161 ASN A 177 1 17 HELIX 35 AD8 SER A 178 MET A 183 1 6 HELIX 36 AD9 PRO A 190 ARG A 213 1 24 HELIX 37 AE1 GLN C 29 GLY C 42 1 14 HELIX 38 AE2 ARG C 47 GLY C 56 1 10 HELIX 39 AE3 SER C 58 TYR C 63 1 6 HELIX 40 AE4 ASN C 68 SER C 95 1 28 HELIX 41 AE5 ASN C 97 GLU C 116 1 20 HELIX 42 AE6 GLU C 116 ASP C 126 1 11 HELIX 43 AE7 LEU C 127 LEU C 130 5 4 HELIX 44 AE8 PRO C 131 ASN C 157 1 27 HELIX 45 AE9 ALA C 161 ASN C 177 1 17 HELIX 46 AF1 SER C 178 MET C 183 1 6 HELIX 47 AF2 PRO C 190 ALA C 210 1 21 HELIX 48 AF3 ALA C 211 LEU C 215 5 5 SITE 1 AC1 6 HIS B 109 GLN B 123 GLN B 142 ASN B 177 SITE 2 AC1 6 HOH B 417 HOH B 419 SITE 1 AC2 5 ARG B 83 LEU B 84 PHE B 108 GLU B 116 SITE 2 AC2 5 HOH B 431 SITE 1 AC3 6 ILE B 120 ARG B 121 ASP B 124 ASN B 177 SITE 2 AC3 6 PRO B 180 HIS B 181 SITE 1 AC4 4 ARG D 83 PHE D 108 GLU D 116 HOH D 451 SITE 1 AC5 6 SER C 178 HIS C 181 HOH C 422 HIS D 170 SITE 2 AC5 6 ASN D 177 HOH D 410 SITE 1 AC6 5 ARG A 83 PHE A 108 PHE A 112 GLU A 116 SITE 2 AC6 5 HOH A 402 SITE 1 AC7 5 VAL C 194 ARG C 195 ALA C 198 GLU D 147 SITE 2 AC7 5 HOH D 417 SITE 1 AC8 9 GLU C 107 ASP C 111 ARG C 197 HOH C 405 SITE 2 AC8 9 HOH C 426 HOH C 431 ARG D 154 PRO D 158 SITE 3 AC8 9 GLY D 159 CRYST1 181.764 52.874 91.919 90.00 90.10 90.00 C 1 2 1 16 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 0.005502 0.000000 0.000010 0.00000 SCALE2 0.000000 0.018913 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010879 0.00000 CONECT 5757 5758 5759 CONECT 5758 5757 CONECT 5759 5757 5760 5761 CONECT 5760 5759 CONECT 5761 5759 5762 CONECT 5762 5761 CONECT 5763 5764 5765 CONECT 5764 5763 CONECT 5765 5763 5766 5767 CONECT 5766 5765 CONECT 5767 5765 5768 CONECT 5768 5767 CONECT 5769 5770 5771 CONECT 5770 5769 CONECT 5771 5769 5772 5773 CONECT 5772 5771 CONECT 5773 5771 5774 CONECT 5774 5773 CONECT 5775 5776 5777 CONECT 5776 5775 CONECT 5777 5775 5778 5779 CONECT 5778 5777 CONECT 5779 5777 5780 CONECT 5780 5779 CONECT 5781 5782 5783 CONECT 5782 5781 CONECT 5783 5781 5784 5785 CONECT 5784 5783 CONECT 5785 5783 5786 CONECT 5786 5785 CONECT 5787 5788 5789 CONECT 5788 5787 CONECT 5789 5787 5790 5791 CONECT 5790 5789 CONECT 5791 5789 5792 CONECT 5792 5791 CONECT 5793 5794 5795 CONECT 5794 5793 CONECT 5795 5793 5796 5797 CONECT 5796 5795 CONECT 5797 5795 5798 CONECT 5798 5797 CONECT 5799 5800 5801 CONECT 5800 5799 CONECT 5801 5799 5802 5803 CONECT 5802 5801 CONECT 5803 5801 5804 CONECT 5804 5803 MASTER 467 0 8 48 0 0 16 6 6044 4 48 68 END