HEADER LIGASE 23-MAR-10 2X9Q TITLE STRUCTURE OF THE MYCOBACTERIUM TUBERCULOSIS PROTEIN, RV2275, TITLE 2 DEMONSTRATES THAT CYCLODIPEPTIDE SYNTHETASES ARE RELATED TITLE 3 TO TYPE I TRNA-SYNTHETASES. COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYCLODIPEPTIDE SYNTHETASE; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM TUBERCULOSIS; SOURCE 3 ORGANISM_TAXID: 83332; SOURCE 4 STRAIN: H37RV; SOURCE 5 ATCC: 25618; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: B834(DE3); SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET28 KEYWDS LIGASE EXPDTA X-RAY DIFFRACTION AUTHOR M.W.VETTING,S.S.HEGDE,J.S.BLANCHARD REVDAT 4 29-DEC-10 2X9Q 1 MTRIX1 MTRIX2 MTRIX3 REVDAT 3 03-NOV-10 2X9Q 1 JRNL REMARK REVDAT 2 29-SEP-10 2X9Q 1 JRNL REVDAT 1 22-SEP-10 2X9Q 0 JRNL AUTH M.W.VETTING,S.S.HEGDE,J.S.BLANCHARD JRNL TITL THE STRUCTURE AND MECHANISM OF THE MYCOBACTERIUM JRNL TITL 2 TUBERCULOSIS CYCLODITYROSINE SYNTHETASE. JRNL REF NAT.CHEM.BIOL. V. 6 797 2010 JRNL REFN ISSN 1552-4450 JRNL PMID 20852636 JRNL DOI 10.1038/NCHEMBIO.440 REMARK 2 REMARK 2 RESOLUTION. 2.02 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0102 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) : 2.02 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 70.18 REMARK 3 DATA CUTOFF (SIGMA(F)) : NONE REMARK 3 COMPLETENESS FOR RANGE (%) : 98.78 REMARK 3 NUMBER OF REFLECTIONS : 47238 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) : 0.18142 REMARK 3 R VALUE (WORKING SET) : 0.17983 REMARK 3 FREE R VALUE : 0.21047 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.1 REMARK 3 FREE R VALUE TEST SET COUNT : 2525 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) : 2.015 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.067 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3284 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.31 REMARK 3 BIN R VALUE (WORKING SET) : 0.226 REMARK 3 BIN FREE R VALUE SET COUNT : 193 REMARK 3 BIN FREE R VALUE : 0.267 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3479 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 64 REMARK 3 SOLVENT ATOMS : 264 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 27.1 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 32.091 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.38 REMARK 3 B22 (A**2) : -1.52 REMARK 3 B33 (A**2) : 0.14 REMARK 3 B12 (A**2) : 0.00 REMARK 3 B13 (A**2) : 0.00 REMARK 3 B23 (A**2) : 0.00 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.128 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.123 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.082 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.903 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.956 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.941 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3606 ; 0.027 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4884 ; 2.047 ; 1.958 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 449 ; 5.938 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 180 ;37.277 ;22.833 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 598 ;14.815 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 42 ;19.541 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 548 ; 0.163 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2781 ; 0.011 ; 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): 2252 ; 1.403 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3616 ; 2.492 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1354 ; 4.244 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1268 ; 6.643 ; 4.500 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 : 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. RESIDUES A1-48, A212-A216, A285-289, B1-B48, B209- REMARK 3 B222, B285-B289 ARE DISORDERED RESIDUE WITH MINIMAL SIDE CHAIN REMARK 3 DENSITY AT TERMINI MAY BE MODELED AS ALANINES OR GLYCINES. REMARK 4 REMARK 4 2X9Q COMPLIES WITH FORMAT V. 3.20, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 24-MAR-10. REMARK 100 THE PDBE ID CODE IS EBI-43394. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 193 REMARK 200 PH : 8.75 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X9A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 49827 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.00 REMARK 200 RESOLUTION RANGE LOW (A) : 39.00 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.0 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 200 DATA REDUNDANCY : 5.3 REMARK 200 R MERGE (I) : 0.07 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.50 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) : 2.12 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.9 REMARK 200 DATA REDUNDANCY IN SHELL : 4.6 REMARK 200 R MERGE FOR SHELL (I) : 0.41 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.60 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: NONE REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.8 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.99 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 12-15% (W/V) PEG 8000, 1M LICL, REMARK 280 100 MM TRIS/BICINE, PH 8.75 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 35.54500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 70.18000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 37.53000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 70.18000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 35.54500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 37.53000 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, 3 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 MSE A 1 REMARK 465 SER A 2 REMARK 465 TYR A 3 REMARK 465 VAL A 4 REMARK 465 ALA A 5 REMARK 465 ALA A 6 REMARK 465 GLU A 7 REMARK 465 PRO A 8 REMARK 465 GLY A 9 REMARK 465 VAL A 10 REMARK 465 LEU A 11 REMARK 465 ILE A 12 REMARK 465 SER A 13 REMARK 465 PRO A 14 REMARK 465 THR A 15 REMARK 465 ASP A 16 REMARK 465 ASP A 17 REMARK 465 LEU A 18 REMARK 465 GLN A 19 REMARK 465 SER A 20 REMARK 465 PRO A 21 REMARK 465 ARG A 22 REMARK 465 SER A 23 REMARK 465 ALA A 24 REMARK 465 PRO A 25 REMARK 465 ALA A 26 REMARK 465 ALA A 27 REMARK 465 HIS A 28 REMARK 465 ASP A 29 REMARK 465 GLU A 30 REMARK 465 ASN A 31 REMARK 465 ALA A 32 REMARK 465 ASP A 33 REMARK 465 GLY A 34 REMARK 465 ILE A 35 REMARK 465 THR A 36 REMARK 465 GLY A 37 REMARK 465 GLY A 38 REMARK 465 THR A 39 REMARK 465 ARG A 40 REMARK 465 ASP A 41 REMARK 465 ASP A 42 REMARK 465 SER A 43 REMARK 465 ALA A 44 REMARK 465 PRO A 45 REMARK 465 ASN A 46 REMARK 465 SER A 47 REMARK 465 ARG A 48 REMARK 465 VAL A 212 REMARK 465 GLY A 213 REMARK 465 PRO A 214 REMARK 465 ARG A 215 REMARK 465 GLN A 216 REMARK 465 GLY A 285 REMARK 465 SER A 286 REMARK 465 PRO A 287 REMARK 465 ALA A 288 REMARK 465 GLU A 289 REMARK 465 MSE B 1 REMARK 465 SER B 2 REMARK 465 TYR B 3 REMARK 465 VAL B 4 REMARK 465 ALA B 5 REMARK 465 ALA B 6 REMARK 465 GLU B 7 REMARK 465 PRO B 8 REMARK 465 GLY B 9 REMARK 465 VAL B 10 REMARK 465 LEU B 11 REMARK 465 ILE B 12 REMARK 465 SER B 13 REMARK 465 PRO B 14 REMARK 465 THR B 15 REMARK 465 ASP B 16 REMARK 465 ASP B 17 REMARK 465 LEU B 18 REMARK 465 GLN B 19 REMARK 465 SER B 20 REMARK 465 PRO B 21 REMARK 465 ARG B 22 REMARK 465 SER B 23 REMARK 465 ALA B 24 REMARK 465 PRO B 25 REMARK 465 ALA B 26 REMARK 465 ALA B 27 REMARK 465 HIS B 28 REMARK 465 ASP B 29 REMARK 465 GLU B 30 REMARK 465 ASN B 31 REMARK 465 ALA B 32 REMARK 465 ASP B 33 REMARK 465 GLY B 34 REMARK 465 ILE B 35 REMARK 465 THR B 36 REMARK 465 GLY B 37 REMARK 465 GLY B 38 REMARK 465 THR B 39 REMARK 465 ARG B 40 REMARK 465 ASP B 41 REMARK 465 ASP B 42 REMARK 465 SER B 43 REMARK 465 ALA B 44 REMARK 465 PRO B 45 REMARK 465 ASN B 46 REMARK 465 SER B 47 REMARK 465 ARG B 48 REMARK 465 SER B 209 REMARK 465 THR B 210 REMARK 465 LYS B 211 REMARK 465 VAL B 212 REMARK 465 GLY B 213 REMARK 465 PRO B 214 REMARK 465 ARG B 215 REMARK 465 GLN B 216 REMARK 465 GLY B 217 REMARK 465 ALA B 218 REMARK 465 THR B 219 REMARK 465 ALA B 220 REMARK 465 THR B 221 REMARK 465 GLN B 222 REMARK 465 GLY B 285 REMARK 465 SER B 286 REMARK 465 PRO B 287 REMARK 465 ALA B 288 REMARK 465 GLU B 289 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 PHE A 49 CB CG CD1 CD2 CE1 CE2 CZ REMARK 470 LYS A 211 CG CD CE NZ REMARK 470 ASP A 284 CG OD1 OD2 REMARK 470 ASP B 284 CG OD1 OD2 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 NH2 ARG B 100 OE1 GLU B 157 1.85 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU A 124 CG GLU A 124 CD 0.117 REMARK 500 TYR A 229 CD1 TYR A 229 CE1 0.094 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 53 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 ARG A 137 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 ARG A 137 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 ARG A 148 NE - CZ - NH1 ANGL. DEV. = -3.6 DEGREES REMARK 500 ARG A 148 NE - CZ - NH2 ANGL. DEV. = 4.5 DEGREES REMARK 500 ARG A 189 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 MSE A 196 CG - SE - CE ANGL. DEV. = -17.0 DEGREES REMARK 500 ARG A 197 NE - CZ - NH1 ANGL. DEV. = 5.2 DEGREES REMARK 500 ARG A 197 NE - CZ - NH2 ANGL. DEV. = -6.0 DEGREES REMARK 500 ARG A 274 NE - CZ - NH2 ANGL. DEV. = -3.7 DEGREES REMARK 500 CYS B 166 CA - CB - SG ANGL. DEV. = -6.7 DEGREES REMARK 500 ARG B 189 NE - CZ - NH1 ANGL. DEV. = 3.3 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 ILE A 55 114.03 -38.23 REMARK 500 HIS A 121 15.34 59.83 REMARK 500 ASP A 239 59.76 -161.33 REMARK 500 ASP B 159 76.02 -154.26 REMARK 500 ASP B 239 60.60 -159.89 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE REMARK 500 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,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 ARG A 53 20.8 L L OUTSIDE RANGE REMARK 500 REMARK 500 REMARK: NULL DBREF 2X9Q A 1 289 UNP Q50688 Q50688_MYCTU 1 289 DBREF 2X9Q B 1 289 UNP Q50688 Q50688_MYCTU 1 289 SEQADV 2X9Q MSE A 196 UNP Q50688 LEU 196 CONFLICT SEQADV 2X9Q MSE B 196 UNP Q50688 LEU 196 CONFLICT SEQRES 1 A 289 MSE SER TYR VAL ALA ALA GLU PRO GLY VAL LEU ILE SER SEQRES 2 A 289 PRO THR ASP ASP LEU GLN SER PRO ARG SER ALA PRO ALA SEQRES 3 A 289 ALA HIS ASP GLU ASN ALA ASP GLY ILE THR GLY GLY THR SEQRES 4 A 289 ARG ASP ASP SER ALA PRO ASN SER ARG PHE GLN LEU GLY SEQRES 5 A 289 ARG ARG ILE PRO GLU ALA THR ALA GLN GLU GLY PHE LEU SEQRES 6 A 289 VAL ARG PRO PHE THR GLN GLN CYS GLN ILE ILE HIS THR SEQRES 7 A 289 GLU GLY ASP HIS ALA VAL ILE GLY VAL SER PRO GLY ASN SEQRES 8 A 289 SER TYR PHE SER ARG GLN ARG LEU ARG ASP LEU GLY LEU SEQRES 9 A 289 TRP GLY LEU THR ASN PHE ASP ARG VAL ASP PHE VAL TYR SEQRES 10 A 289 THR ASP VAL HIS VAL ALA GLU SER TYR GLU ALA LEU GLY SEQRES 11 A 289 ASP SER ALA ILE GLU ALA ARG ARG LYS ALA VAL LYS ASN SEQRES 12 A 289 ILE ARG GLY VAL ARG ALA LYS ILE THR THR THR VAL ASN SEQRES 13 A 289 GLU LEU ASP PRO ALA GLY ALA ARG LEU CYS VAL ARG PRO SEQRES 14 A 289 MSE SER GLU PHE GLN SER ASN GLU ALA TYR ARG GLU LEU SEQRES 15 A 289 HIS ALA ASP LEU LEU THR ARG LEU LYS ASP ASP GLU ASP SEQRES 16 A 289 MSE ARG ALA VAL CYS GLN ASP LEU VAL ARG ARG PHE LEU SEQRES 17 A 289 SER THR LYS VAL GLY PRO ARG GLN GLY ALA THR ALA THR SEQRES 18 A 289 GLN GLU GLN VAL CYS MSE ASP TYR ILE CYS ALA GLU ALA SEQRES 19 A 289 PRO LEU PHE LEU ASP THR PRO ALA ILE LEU GLY VAL PRO SEQRES 20 A 289 SER SER LEU ASN CYS TYR HIS GLN SER LEU PRO LEU ALA SEQRES 21 A 289 GLU MSE LEU TYR ALA ARG GLY SER GLY LEU ARG ALA SER SEQRES 22 A 289 ARG ASN GLN GLY HIS ALA ILE VAL THR PRO ASP GLY SER SEQRES 23 A 289 PRO ALA GLU SEQRES 1 B 289 MSE SER TYR VAL ALA ALA GLU PRO GLY VAL LEU ILE SER SEQRES 2 B 289 PRO THR ASP ASP LEU GLN SER PRO ARG SER ALA PRO ALA SEQRES 3 B 289 ALA HIS ASP GLU ASN ALA ASP GLY ILE THR GLY GLY THR SEQRES 4 B 289 ARG ASP ASP SER ALA PRO ASN SER ARG PHE GLN LEU GLY SEQRES 5 B 289 ARG ARG ILE PRO GLU ALA THR ALA GLN GLU GLY PHE LEU SEQRES 6 B 289 VAL ARG PRO PHE THR GLN GLN CYS GLN ILE ILE HIS THR SEQRES 7 B 289 GLU GLY ASP HIS ALA VAL ILE GLY VAL SER PRO GLY ASN SEQRES 8 B 289 SER TYR PHE SER ARG GLN ARG LEU ARG ASP LEU GLY LEU SEQRES 9 B 289 TRP GLY LEU THR ASN PHE ASP ARG VAL ASP PHE VAL TYR SEQRES 10 B 289 THR ASP VAL HIS VAL ALA GLU SER TYR GLU ALA LEU GLY SEQRES 11 B 289 ASP SER ALA ILE GLU ALA ARG ARG LYS ALA VAL LYS ASN SEQRES 12 B 289 ILE ARG GLY VAL ARG ALA LYS ILE THR THR THR VAL ASN SEQRES 13 B 289 GLU LEU ASP PRO ALA GLY ALA ARG LEU CYS VAL ARG PRO SEQRES 14 B 289 MSE SER GLU PHE GLN SER ASN GLU ALA TYR ARG GLU LEU SEQRES 15 B 289 HIS ALA ASP LEU LEU THR ARG LEU LYS ASP ASP GLU ASP SEQRES 16 B 289 MSE ARG ALA VAL CYS GLN ASP LEU VAL ARG ARG PHE LEU SEQRES 17 B 289 SER THR LYS VAL GLY PRO ARG GLN GLY ALA THR ALA THR SEQRES 18 B 289 GLN GLU GLN VAL CYS MSE ASP TYR ILE CYS ALA GLU ALA SEQRES 19 B 289 PRO LEU PHE LEU ASP THR PRO ALA ILE LEU GLY VAL PRO SEQRES 20 B 289 SER SER LEU ASN CYS TYR HIS GLN SER LEU PRO LEU ALA SEQRES 21 B 289 GLU MSE LEU TYR ALA ARG GLY SER GLY LEU ARG ALA SER SEQRES 22 B 289 ARG ASN GLN GLY HIS ALA ILE VAL THR PRO ASP GLY SER SEQRES 23 B 289 PRO ALA GLU MODRES 2X9Q MSE A 170 MET SELENOMETHIONINE MODRES 2X9Q MSE A 196 MET SELENOMETHIONINE MODRES 2X9Q MSE A 227 MET SELENOMETHIONINE MODRES 2X9Q MSE A 262 MET SELENOMETHIONINE MODRES 2X9Q MSE B 170 MET SELENOMETHIONINE MODRES 2X9Q MSE B 196 MET SELENOMETHIONINE MODRES 2X9Q MSE B 227 MET SELENOMETHIONINE MODRES 2X9Q MSE B 262 MET SELENOMETHIONINE HET MSE A 170 8 HET MSE A 196 8 HET MSE A 227 8 HET MSE A 262 8 HET MSE B 170 8 HET MSE B 196 8 HET MSE B 227 8 HET MSE B 262 8 HETNAM MSE SELENOMETHIONINE FORMUL 3 MSE 8(C5 H11 N O2 SE) FORMUL 4 HOH *264(H2 O) HELIX 1 1 THR A 70 GLY A 80 1 11 HELIX 2 2 SER A 95 PHE A 110 1 16 HELIX 3 3 HIS A 121 LEU A 129 1 9 HELIX 4 4 SER A 132 ASP A 159 1 28 HELIX 5 5 SER A 171 SER A 175 5 5 HELIX 6 6 ASN A 176 ASP A 193 1 18 HELIX 7 7 ASP A 193 LYS A 211 1 19 HELIX 8 8 THR A 219 GLY A 245 1 27 HELIX 9 9 LEU A 259 TYR A 264 1 6 HELIX 10 10 THR B 70 GLY B 80 1 11 HELIX 11 11 SER B 95 PHE B 110 1 16 HELIX 12 12 HIS B 121 LEU B 129 1 9 HELIX 13 13 SER B 132 ASP B 159 1 28 HELIX 14 14 SER B 171 SER B 175 5 5 HELIX 15 15 ASN B 176 ASP B 193 1 18 HELIX 16 16 ASP B 193 LEU B 208 1 16 HELIX 17 17 GLU B 223 GLY B 245 1 23 HELIX 18 18 LEU B 259 TYR B 264 1 6 SHEET 1 AA 7 THR A 59 GLN A 61 0 SHEET 2 AA 7 PHE A 64 PRO A 68 -1 O PHE A 64 N GLN A 61 SHEET 3 AA 7 GLN A 276 PRO A 283 -1 O ILE A 280 N ARG A 67 SHEET 4 AA 7 SER A 249 TYR A 253 1 O SER A 249 N GLY A 277 SHEET 5 AA 7 HIS A 82 VAL A 87 1 O HIS A 82 N LEU A 250 SHEET 6 AA 7 ARG A 112 TYR A 117 1 O ARG A 112 N ALA A 83 SHEET 7 AA 7 LEU A 165 PRO A 169 1 O CYS A 166 N PHE A 115 SHEET 1 BA 7 THR B 59 GLN B 61 0 SHEET 2 BA 7 PHE B 64 PRO B 68 -1 O PHE B 64 N GLN B 61 SHEET 3 BA 7 GLN B 276 PRO B 283 -1 O ILE B 280 N ARG B 67 SHEET 4 BA 7 SER B 249 TYR B 253 1 O SER B 249 N GLY B 277 SHEET 5 BA 7 HIS B 82 VAL B 87 1 O HIS B 82 N LEU B 250 SHEET 6 BA 7 ARG B 112 TYR B 117 1 O ARG B 112 N ALA B 83 SHEET 7 BA 7 LEU B 165 PRO B 169 1 O CYS B 166 N PHE B 115 LINK C PRO A 169 N MSE A 170 1555 1555 1.34 LINK C MSE A 170 N SER A 171 1555 1555 1.34 LINK C ASP A 195 N MSE A 196 1555 1555 1.31 LINK C MSE A 196 N ARG A 197 1555 1555 1.33 LINK C CYS A 226 N MSE A 227 1555 1555 1.33 LINK C MSE A 227 N ASP A 228 1555 1555 1.34 LINK C GLU A 261 N MSE A 262 1555 1555 1.33 LINK C MSE A 262 N LEU A 263 1555 1555 1.35 LINK C PRO B 169 N MSE B 170 1555 1555 1.33 LINK C MSE B 170 N SER B 171 1555 1555 1.34 LINK C ASP B 195 N MSE B 196 1555 1555 1.33 LINK C MSE B 196 N ARG B 197 1555 1555 1.33 LINK C CYS B 226 N MSE B 227 1555 1555 1.34 LINK C MSE B 227 N ASP B 228 1555 1555 1.32 LINK C GLU B 261 N MSE B 262 1555 1555 1.33 LINK C MSE B 262 N LEU B 263 1555 1555 1.35 CRYST1 71.090 75.060 140.360 90.00 90.00 90.00 P 21 21 21 8 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 0.014067 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013323 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007125 0.00000 MTRIX1 1 0.902800 -0.122500 -0.412200 38.26000 1 MTRIX2 1 -0.125600 -0.991900 0.019640 8.56900 1 MTRIX3 1 -0.411300 0.034030 -0.910900 173.40000 1