HEADER UNKNOWN FUNCTION 17-FEB-09 2WAW TITLE CRYSTAL STRUCTURE OF MYCOBACTERIUM TUBERCULOSIS RV0371C TITLE 2 HOMOLOG FROM MYCOBACTERIUM SP. STRAIN JC1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: MOBA RELATE PROTEIN; COMPND 3 CHAIN: A SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM SP. JC-1; SOURCE 3 ORGANISM_TAXID: 136134 KEYWDS UNKNOWN FUNCTION EXPDTA X-RAY DIFFRACTION AUTHOR H.J.CHO,B.S.KANG REVDAT 2 13-JUL-11 2WAW 1 VERSN REVDAT 1 07-APR-10 2WAW 0 JRNL AUTH H.J.CHO,B.S.KANG JRNL TITL CRYSTAL STRUCTURE OF MYCOBACTERIUM TUBERCULOSIS RV0371C JRNL TITL 2 HOMOLOG FROM MYCOBACTERIUM SP. STRAIN JC1 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 24.50 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 94.1 REMARK 3 NUMBER OF REFLECTIONS : 23465 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) : 0.175 REMARK 3 R VALUE (WORKING SET) : 0.173 REMARK 3 FREE R VALUE : 0.200 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1254 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) : 1.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.64 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1485 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2240 REMARK 3 BIN FREE R VALUE SET COUNT : 68 REMARK 3 BIN FREE R VALUE : 0.2460 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1538 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 12 REMARK 3 SOLVENT ATOMS : 203 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) : 23.80 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.24000 REMARK 3 B22 (A**2) : -0.16000 REMARK 3 B33 (A**2) : -0.08000 REMARK 3 B12 (A**2) : 0.00000 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): 0.094 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.091 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.058 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.247 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.965 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.960 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1585 ; 0.010 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2172 ; 1.254 ; 1.981 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 224 ;10.126 ; 5.089 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 63 ;33.961 ;22.381 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 260 ;13.205 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 17 ;17.119 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 257 ; 0.083 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1194 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 727 ; 0.201 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1068 ; 0.308 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 178 ; 0.187 ; 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): 40 ; 0.186 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 21 ; 0.250 ; 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): 1037 ; 1.592 ; 3.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1628 ; 2.483 ; 5.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 621 ; 3.948 ; 8.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 531 ; 5.846 ;11.000 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 2 A 199 REMARK 3 ORIGIN FOR THE GROUP (A): 4.0340 -4.7520 -15.1090 REMARK 3 T TENSOR REMARK 3 T11: -0.0567 T22: -0.0088 REMARK 3 T33: 0.0035 T12: -0.0116 REMARK 3 T13: -0.0047 T23: 0.0064 REMARK 3 L TENSOR REMARK 3 L11: 0.3469 L22: 0.4336 REMARK 3 L33: 1.2708 L12: -0.0570 REMARK 3 L13: 0.0261 L23: -0.2849 REMARK 3 S TENSOR REMARK 3 S11: 0.0134 S12: -0.0153 S13: 0.0149 REMARK 3 S21: 0.0029 S22: 0.0001 S23: -0.0111 REMARK 3 S31: 0.0097 S32: -0.0130 S33: -0.0134 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE REMARK 3 RIDING POSITIONS. REMARK 4 REMARK 4 2WAW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 17-FEB-09. REMARK 100 THE PDBE ID CODE IS EBI-38725. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-OCT-08 REMARK 200 TEMPERATURE (KELVIN) : 294 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PAL/PLS REMARK 200 BEAMLINE : 6C1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.23985 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : HKL2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23465 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.58 REMARK 200 RESOLUTION RANGE LOW (A) : 50.00 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NONE REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.1 REMARK 200 DATA REDUNDANCY : 8.9 REMARK 200 R MERGE (I) : 0.07 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 42.80 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.58 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.64 REMARK 200 COMPLETENESS FOR SHELL (%) : 72.4 REMARK 200 DATA REDUNDANCY IN SHELL : 4.3 REMARK 200 R MERGE FOR SHELL (I) : 0.24 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.80 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: MYCOBACTERIUM TUBERCULOSIS RV0371C REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.21 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.2 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 28% PEG 400, 0.1M HEPES PH 7.5, REMARK 280 0.2M CALCIUM CHLORIDE REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 19.54050 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 40.02950 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 30.87300 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 40.02950 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 19.54050 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 30.87300 REMARK 290 SMTRY3 4 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 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 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 ASP A 67 CG OD1 OD2 REMARK 470 GLU A 199 CG CD OE1 OE2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PGE A1200 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A1201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A1202 DBREF 2WAW A 1 199 PDB 2WAW 2WAW 1 199 SEQRES 1 A 199 MET LEU ARG SER ARG VAL THR GLY VAL VAL LEU ALA ALA SEQRES 2 A 199 GLY TYR SER ARG ARG LEU GLY THR PRO LYS GLN LEU LEU SEQRES 3 A 199 PRO LEU GLY ASP THR THR LEU LEU GLY ALA THR LEU ALA SEQRES 4 A 199 MET ALA ARG ARG CYS PRO PHE ASP GLN LEU ILE VAL THR SEQRES 5 A 199 LEU GLY GLY ALA ALA ASP GLU VAL LEU GLU LYS VAL GLU SEQRES 6 A 199 LEU ASP GLY LEU ASP ILE VAL LEU VAL ASP ASP ALA GLY SEQRES 7 A 199 LEU GLY CSO SER SER SER LEU LYS SER ALA LEU THR TRP SEQRES 8 A 199 VAL ASP PRO THR ALA GLU GLY ILE VAL LEU MET LEU GLY SEQRES 9 A 199 ASP GLN PRO GLY ILE THR ALA SER ALA VAL ALA SER LEU SEQRES 10 A 199 ILE ALA GLY GLY ARG GLY ALA THR ILE ALA VAL CYS GLU SEQRES 11 A 199 TYR ALA ASN GLY ILE GLY HIS PRO PHE TRP VAL SER ARG SEQRES 12 A 199 GLY VAL PHE GLY ASP LEU ALA GLU LEU HIS GLY ASP LYS SEQRES 13 A 199 GLY VAL TRP ARG LEU ILE GLU SER GLY ARG HIS GLY VAL SEQRES 14 A 199 ARG ARG ILE ARG VAL ASP ALA ASP VAL PRO LEU ASP VAL SEQRES 15 A 199 ASP THR TRP ASP ASP TYR GLU ARG LEU LEU ALA SER VAL SEQRES 16 A 199 VAL ARG LEU GLU MODRES 2WAW CSO A 81 CYS S-HYDROXYCYSTEINE HET CSO A 81 7 HET PGE A1200 10 HET CL A1201 1 HET CL A1202 1 HETNAM PGE TRIETHYLENE GLYCOL HETNAM CSO S-HYDROXYCYSTEINE HETNAM CL CHLORIDE ION FORMUL 2 PGE C6 H14 O4 FORMUL 3 CSO C3 H7 N O3 S FORMUL 4 CL 2(CL 1-) FORMUL 5 HOH *203(H2 O) HELIX 1 1 PRO A 22 LEU A 25 5 4 HELIX 2 2 LEU A 33 ARG A 43 1 11 HELIX 3 3 ALA A 56 VAL A 64 1 9 HELIX 4 4 SER A 83 TRP A 91 1 9 HELIX 5 5 THR A 110 ARG A 122 1 13 HELIX 6 6 VAL A 145 GLU A 151 1 7 HELIX 7 7 GLY A 157 SER A 164 1 8 HELIX 8 8 THR A 184 LEU A 198 1 15 SHEET 1 AA 7 ASP A 70 LEU A 73 0 SHEET 2 AA 7 GLN A 48 LEU A 53 1 O LEU A 49 N ASP A 70 SHEET 3 AA 7 VAL A 6 ALA A 12 1 O GLY A 8 N ILE A 50 SHEET 4 AA 7 GLY A 98 LEU A 103 1 O GLY A 98 N THR A 7 SHEET 5 AA 7 GLY A 134 SER A 142 -1 O PHE A 139 N LEU A 101 SHEET 6 AA 7 ILE A 126 TYR A 131 -1 O ALA A 127 N TRP A 140 SHEET 7 AA 7 VAL A 169 ARG A 173 1 O ARG A 170 N VAL A 128 SHEET 1 AB 2 PRO A 27 LEU A 28 0 SHEET 2 AB 2 THR A 31 THR A 32 -1 O THR A 31 N LEU A 28 LINK C GLY A 80 N CSO A 81 1555 1555 1.34 LINK C CSO A 81 N SER A 82 1555 1555 1.33 CISPEP 1 HIS A 137 PRO A 138 0 1.00 SITE 1 AC1 5 LEU A 28 GLY A 29 ASP A 30 LEU A 198 SITE 2 AC1 5 HOH A2202 SITE 1 AC2 5 GLY A 14 GLY A 54 GLY A 55 ALA A 56 SITE 2 AC2 5 HOH A2008 SITE 1 AC3 4 TYR A 15 SER A 16 ARG A 17 GLY A 80 CRYST1 39.081 61.746 80.059 90.00 90.00 90.00 P 21 21 21 4 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 0.025588 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016195 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012491 0.00000