PDB Short entry for 2JCG HEADER TRANSCRIPTION 22-DEC-06 2JCG TITLE APO FORM OF THE CATABOLITE CONTROL PROTEIN A (CCPA) FROM BACILLUS TITLE 2 MEGATERIUM, WITH THE DNA BINDING DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLUCOSE-RESISTANCE AMYLASE REGULATOR; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: CATABOLITE CONTROL PROTEIN, CATABOLITE CONTROL PROTEIN A; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS MEGATERIUM; SOURCE 3 ORGANISM_TAXID: 1404; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS MEGATERIUM, DNA-BINDING, TRANSCRIPTION, CCPA, BACILLUS, APO- FORM, KEYWDS 2 ACTIVATOR, REPRESSOR, TRANSCRIPTION REGULATION, CATABOLITE CONTROL KEYWDS 3 PROTEIN A EXPDTA X-RAY DIFFRACTION AUTHOR R.K.SINGH,S.PANJIKAR,G.J.PALM,W.HINRICHS REVDAT 7 13-DEC-23 2JCG 1 LINK REVDAT 6 24-JUL-19 2JCG 1 REMARK REVDAT 5 13-JUL-11 2JCG 1 VERSN REVDAT 4 24-FEB-09 2JCG 1 VERSN REVDAT 3 10-APR-07 2JCG 1 JRNL REVDAT 2 27-MAR-07 2JCG 1 REMARK REVDAT 1 06-MAR-07 2JCG 0 JRNL AUTH R.K.SINGH,G.J.PALM,S.PANJIKAR,W.HINRICHS JRNL TITL STRUCTURE OF THE APO FORM OF THE CATABOLITE CONTROL PROTEIN JRNL TITL 2 A (CCPA) FROM BACILLUS MEGATERIUM WITH A DNA-BINDING DOMAIN. JRNL REF ACTA CRYSTALLOGR.,SECT.F V. 63 253 2007 JRNL REFN ESSN 1744-3091 JRNL PMID 17401189 JRNL DOI 10.1107/S1744309107008949 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH J.TEBBE,P.ORTH,E.KUESTER-SCHOECK,W.HILLEN,W.SAENGER, REMARK 1 AUTH 2 W.HINRICHS REMARK 1 TITL CRYSTALLIZATION AND PRELIMINARY X-RAY ANALYSES OF CATABOLITE REMARK 1 TITL 2 CONTROL PROTEIN A, FREE AND IN COMPLEX WITH ITS DNA-BINDING REMARK 1 TITL 3 SITE REMARK 1 REF ACTA CRYSTALLOGR.,SECT.D V. 56 67 2000 REMARK 1 REFN ISSN 0907-4449 REMARK 1 PMID 10666630 REMARK 1 DOI 10.1107/S0907444999013104 REMARK 2 REMARK 2 RESOLUTION. 2.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.3.0022 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) : 19.60 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 3 NUMBER OF REFLECTIONS : 11615 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) : 0.234 REMARK 3 R VALUE (WORKING SET) : 0.229 REMARK 3 FREE R VALUE : 0.297 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 8.200 REMARK 3 FREE R VALUE TEST SET COUNT : 1036 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) : 833 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2890 REMARK 3 BIN FREE R VALUE SET COUNT : 86 REMARK 3 BIN FREE R VALUE : 0.3310 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2427 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 1 REMARK 3 SOLVENT ATOMS : 41 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 46.14 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.09000 REMARK 3 B22 (A**2) : 0.09000 REMARK 3 B33 (A**2) : -0.14000 REMARK 3 B12 (A**2) : 0.05000 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): 0.732 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.368 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.271 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 24.450 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.930 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.882 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2462 ; 0.010 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3349 ; 1.300 ; 1.972 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 319 ; 5.984 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 101 ;38.023 ;25.446 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 413 ;17.519 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 11 ;20.220 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 406 ; 0.091 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1826 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1271 ; 0.218 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1749 ; 0.308 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 121 ; 0.142 ; 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): 43 ; 0.197 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 11 ; 0.165 ; 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): 1635 ; 0.437 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2593 ; 0.862 ; 2.500 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 909 ; 2.568 ; 5.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 756 ; 4.118 ;10.000 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 3 A 50 REMARK 3 ORIGIN FOR THE GROUP (A): -59.1030 27.9674 110.7963 REMARK 3 T TENSOR REMARK 3 T11: 0.0952 T22: -0.1283 REMARK 3 T33: -0.0013 T12: -0.1590 REMARK 3 T13: 0.0536 T23: -0.0151 REMARK 3 L TENSOR REMARK 3 L11: 12.5184 L22: 5.0493 REMARK 3 L33: 10.0640 L12: 0.9989 REMARK 3 L13: 9.8857 L23: -0.2086 REMARK 3 S TENSOR REMARK 3 S11: -0.2116 S12: 0.2064 S13: -0.2003 REMARK 3 S21: -0.1526 S22: 0.1593 S23: -0.5452 REMARK 3 S31: 0.0287 S32: 0.8406 S33: 0.0523 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 60 A 160 REMARK 3 RESIDUE RANGE : A 292 A 322 REMARK 3 ORIGIN FOR THE GROUP (A): -24.6034 34.9924 103.8096 REMARK 3 T TENSOR REMARK 3 T11: 0.4836 T22: 0.4671 REMARK 3 T33: 0.1236 T12: 0.1799 REMARK 3 T13: -0.1751 T23: -0.0151 REMARK 3 L TENSOR REMARK 3 L11: 12.0784 L22: 4.4973 REMARK 3 L33: 8.8420 L12: -3.0970 REMARK 3 L13: -6.4082 L23: 0.8278 REMARK 3 S TENSOR REMARK 3 S11: 0.4348 S12: 2.3104 S13: 0.1000 REMARK 3 S21: -1.3535 S22: -0.3385 S23: 0.5816 REMARK 3 S31: -1.1452 S32: -2.3634 S33: -0.0963 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 162 A 290 REMARK 3 RESIDUE RANGE : A 324 A 332 REMARK 3 ORIGIN FOR THE GROUP (A): -1.8778 19.2886 94.7288 REMARK 3 T TENSOR REMARK 3 T11: -0.0097 T22: -0.1319 REMARK 3 T33: -0.1574 T12: -0.2557 REMARK 3 T13: 0.0302 T23: -0.0818 REMARK 3 L TENSOR REMARK 3 L11: 3.0510 L22: 6.7286 REMARK 3 L33: 4.3393 L12: 2.1969 REMARK 3 L13: -0.1643 L23: 0.7043 REMARK 3 S TENSOR REMARK 3 S11: -0.0582 S12: 0.3832 S13: 0.0417 REMARK 3 S21: -0.6145 S22: 0.3531 S23: -0.0073 REMARK 3 S31: -0.5948 S32: 0.4054 S33: -0.2949 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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 2JCG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 22-DEC-06. REMARK 100 THE DEPOSITION ID IS D_1290030908. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 8.00 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : EMBL/DESY, HAMBURG REMARK 200 BEAMLINE : X11 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.95 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 14161 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 200 DATA REDUNDANCY : 6.500 REMARK 200 R MERGE (I) : 0.05000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 24.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.70 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.44000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 1SXG REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.60 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 3% PEG 3000, 100 MM CACL2, 10% (V/V) REMARK 280 GLYCEROL, 100 MM TRIS-HCL PH 8.0, PH 8.00 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 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+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 REMARK 290 7555 Y,X,-Z+1/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+2/3 REMARK 290 10555 -Y,-X,-Z+5/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+1/6 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 79.61333 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 159.22667 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 119.42000 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 199.03333 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 39.80667 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 79.61333 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 159.22667 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 199.03333 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 119.42000 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 39.80667 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PQS 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 0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 199.03333 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 HOH A2002 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2025 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2032 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 A 1 REMARK 465 ASN A 2 REMARK 465 ALA A 52 REMARK 465 ARG A 53 REMARK 465 GLY A 54 REMARK 465 LEU A 55 REMARK 465 ALA A 56 REMARK 465 SER A 57 REMARK 465 LYS A 58 REMARK 465 LYS A 59 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 LYS A 35 CG CD CE NZ REMARK 470 SER A 71 OG REMARK 470 ASN A 72 CG OD1 ND2 REMARK 470 ARG A 80 CG CD NE CZ NH1 NH2 REMARK 470 ASN A 97 CG OD1 ND2 REMARK 470 LYS A 104 CG CD CE NZ REMARK 470 GLN A 105 CG CD OE1 NE2 REMARK 470 LEU A 106 CG CD1 CD2 REMARK 470 ASN A 126 CG OD1 ND2 REMARK 470 HIS A 131 CG ND1 CD2 CE1 NE2 REMARK 470 ILE A 148 CG1 CG2 CD1 REMARK 470 GLU A 149 CG CD OE1 OE2 REMARK 470 GLU A 188 CG CD OE1 OE2 REMARK 470 LYS A 232 CG CD CE NZ REMARK 470 GLU A 238 CG CD OE1 OE2 REMARK 470 ARG A 261 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 278 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 332 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 VAL A 283 CB - CA - C ANGL. DEV. = -12.8 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 GLN A 100 97.92 -15.36 REMARK 500 GLN A 102 -70.31 -50.67 REMARK 500 ASP A 103 34.12 -86.40 REMARK 500 LYS A 104 -18.38 -145.77 REMARK 500 SER A 150 -19.04 -48.41 REMARK 500 ASN A 192 -78.43 -79.52 REMARK 500 LYS A 195 -63.00 -122.38 REMARK 500 TYR A 221 -6.11 71.58 REMARK 500 ASP A 237 -78.51 -54.85 REMARK 500 ASP A 275 -13.43 83.51 REMARK 500 ASP A 315 102.09 56.93 REMARK 500 SER A 316 108.86 79.12 REMARK 500 ARG A 328 -144.23 -115.84 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 CA A1333 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 231 OE1 REMARK 620 2 GLU A 231 OE1 90.1 REMARK 620 3 GLU A 231 OE2 44.1 129.0 REMARK 620 4 GLU A 235 OE2 156.2 73.7 156.9 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A1333 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1RZR RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF TRANSCRIPTIONAL REGULATOR- PHOSPHOPROTEIN-DNA REMARK 900 COMPLEX REMARK 900 RELATED ID: 1SXG RELATED DB: PDB REMARK 900 STRUCTURAL STUDIES ON THE APO TRANSCRIPTION FACTOR FORM B.MEGATERIUM REMARK 900 RELATED ID: 1SXH RELATED DB: PDB REMARK 900 APO STRUCTURE OF B. MEGATERIUM TRANSCRIPTION REGULATOR REMARK 900 RELATED ID: 1SXI RELATED DB: PDB REMARK 900 STRUCTURE OF APO TRANSCRIPTION REGULATOR B. MEGATERIUM REMARK 900 RELATED ID: 1ZVV RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF A CCPA-CRH-DNA COMPLEX DBREF 2JCG A 1 332 UNP P46828 CCPA_BACME 1 332 SEQADV 2JCG GLN A 105 UNP P46828 GLU 105 CONFLICT SEQADV 2JCG GLU A 320 UNP P46828 GLN 320 CONFLICT SEQRES 1 A 332 MET ASN VAL THR ILE TYR ASP VAL ALA ARG GLU ALA SER SEQRES 2 A 332 VAL SER MET ALA THR VAL SER ARG VAL VAL ASN GLY ASN SEQRES 3 A 332 PRO ASN VAL LYS PRO SER THR ARG LYS LYS VAL LEU GLU SEQRES 4 A 332 THR ILE GLU ARG LEU GLY TYR ARG PRO ASN ALA VAL ALA SEQRES 5 A 332 ARG GLY LEU ALA SER LYS LYS THR THR THR VAL GLY VAL SEQRES 6 A 332 ILE ILE PRO ASP ILE SER ASN ILE PHE TYR ALA GLU LEU SEQRES 7 A 332 ALA ARG GLY ILE GLU ASP ILE ALA SER MET TYR LYS TYR SEQRES 8 A 332 ASN ILE ILE LEU SER ASN SER ASP GLN ASN GLN ASP LYS SEQRES 9 A 332 GLN LEU HIS LEU LEU ASN ASN MET LEU GLY LYS GLN VAL SEQRES 10 A 332 ASP GLY ILE ILE PHE MET SER GLY ASN VAL THR GLU GLU SEQRES 11 A 332 HIS VAL GLU GLU LEU LYS LYS SER PRO VAL PRO VAL VAL SEQRES 12 A 332 LEU ALA ALA SER ILE GLU SER THR ASN GLN ILE PRO SER SEQRES 13 A 332 VAL THR ILE ASP TYR GLU GLN ALA ALA PHE ASP ALA VAL SEQRES 14 A 332 GLN SER LEU ILE ASP SER GLY HIS LYS ASN ILE ALA PHE SEQRES 15 A 332 VAL SER GLY THR LEU GLU GLU PRO ILE ASN HIS ALA LYS SEQRES 16 A 332 LYS VAL LYS GLY TYR LYS ARG ALA LEU THR GLU SER GLY SEQRES 17 A 332 LEU PRO VAL ARG ASP SER TYR ILE VAL GLU GLY ASP TYR SEQRES 18 A 332 THR TYR ASP SER GLY ILE GLU ALA VAL GLU LYS LEU LEU SEQRES 19 A 332 GLU GLU ASP GLU LYS PRO THR ALA ILE PHE VAL GLY THR SEQRES 20 A 332 ASP GLU MET ALA LEU GLY VAL ILE HIS GLY ALA GLN ASP SEQRES 21 A 332 ARG GLY LEU ASN VAL PRO ASN ASP LEU GLU ILE ILE GLY SEQRES 22 A 332 PHE ASP ASN THR ARG LEU SER THR MET VAL ARG PRO GLN SEQRES 23 A 332 LEU THR SER VAL VAL GLN PRO MET TYR ASP ILE GLY ALA SEQRES 24 A 332 VAL ALA MET ARG LEU LEU THR LYS TYR MET ASN LYS GLU SEQRES 25 A 332 THR VAL ASP SER SER ILE VAL GLU LEU PRO HIS ARG ILE SEQRES 26 A 332 GLU PHE ARG GLN SER THR LYS HET CA A1333 1 HETNAM CA CALCIUM ION FORMUL 2 CA CA 2+ FORMUL 3 HOH *41(H2 O) HELIX 1 1 THR A 4 ALA A 12 1 9 HELIX 2 2 SER A 15 ASN A 24 1 10 HELIX 3 3 LYS A 30 GLY A 45 1 16 HELIX 4 4 GLU A 77 LYS A 90 1 14 HELIX 5 5 ASN A 101 GLY A 114 1 14 HELIX 6 6 THR A 128 LYS A 136 1 9 HELIX 7 7 ASP A 160 SER A 175 1 16 HELIX 8 8 GLU A 189 ALA A 194 1 6 HELIX 9 9 LYS A 195 GLU A 206 1 12 HELIX 10 10 ARG A 212 SER A 214 5 3 HELIX 11 11 THR A 222 GLU A 236 1 15 HELIX 12 12 THR A 247 ARG A 261 1 15 HELIX 13 13 THR A 277 MET A 282 5 6 HELIX 14 14 PRO A 293 ASN A 310 1 18 SHEET 1 AA 6 ASN A 92 ASN A 97 0 SHEET 2 AA 6 THR A 62 ILE A 67 1 O VAL A 63 N ILE A 94 SHEET 3 AA 6 GLY A 119 PHE A 122 1 O GLY A 119 N GLY A 64 SHEET 4 AA 6 VAL A 142 ALA A 145 1 O VAL A 143 N PHE A 122 SHEET 5 AA 6 SER A 156 ILE A 159 1 N VAL A 157 O LEU A 144 SHEET 6 AA 6 ILE A 318 LEU A 321 1 O VAL A 319 N THR A 158 SHEET 1 AB 6 ILE A 216 GLU A 218 0 SHEET 2 AB 6 ILE A 180 SER A 184 1 O PHE A 182 N VAL A 217 SHEET 3 AB 6 ALA A 242 VAL A 245 1 O ALA A 242 N ALA A 181 SHEET 4 AB 6 GLU A 270 PHE A 274 1 O GLU A 270 N ILE A 243 SHEET 5 AB 6 THR A 288 VAL A 291 1 O THR A 288 N GLY A 273 SHEET 6 AB 6 ARG A 324 GLU A 326 -1 O ARG A 324 N VAL A 291 LINK OE1 GLU A 231 CA CA A1333 9555 1555 3.14 LINK OE1 GLU A 231 CA CA A1333 1555 1555 2.39 LINK OE2 GLU A 231 CA CA A1333 9555 1555 2.42 LINK OE2 GLU A 235 CA CA A1333 1555 1555 2.76 CISPEP 1 VAL A 265 PRO A 266 0 9.96 CISPEP 2 ARG A 284 PRO A 285 0 -0.79 SITE 1 AC1 2 GLU A 231 GLU A 235 CRYST1 74.450 74.450 238.840 90.00 90.00 120.00 P 61 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 0.013432 0.007755 0.000000 0.00000 SCALE2 0.000000 0.015510 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004187 0.00000