HEADER TRANSFERASE 29-MAR-11 3RB9 TITLE CRYSTAL STRUCTURE OF THE M. TUBERCULOSIS BETA CLAMP COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA POLYMERASE III SUBUNIT BETA; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: BETA CLAMP, UNP RESIDUES 8-402; COMPND 5 EC: 2.7.7.7; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM TUBERCULOSIS; SOURCE 3 ORGANISM_TAXID: 83332; SOURCE 4 STRAIN: H37RV; SOURCE 5 GENE: DNAN, MT0002, MTCY10H4.0, MTV029.02, RV0002; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS MYCOBACTERIUM TUBERCULOSIS, DNA SLIDING BETA CLAMP, BETA CLAMP, CLAMP KEYWDS 2 LOADER, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR V.KUKSHAL,R.RAMACHANDRAN REVDAT 3 20-MAR-24 3RB9 1 REMARK REVDAT 2 06-FEB-13 3RB9 1 JRNL REVDAT 1 04-APR-12 3RB9 0 JRNL AUTH V.KUKSHAL,T.KHANAM,D.CHOPRA,N.SINGH,S.SANYAL,R.RAMACHANDRAN JRNL TITL M. TUBERCULOSIS SLIDING BETA-CLAMP DOES NOT INTERACT JRNL TITL 2 DIRECTLY WITH THE NAD(+)-DEPENDENT DNA LIGASE JRNL REF PLOS ONE V. 7 35702 2012 JRNL REFN ESSN 1932-6203 JRNL PMID 22545130 JRNL DOI 10.1371/JOURNAL.PONE.0035702 REMARK 2 REMARK 2 RESOLUTION. 3.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 3.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 21.81 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 21312 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) : 0.211 REMARK 3 R VALUE (WORKING SET) : 0.209 REMARK 3 FREE R VALUE : 0.250 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1093 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) : 3.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.08 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1471 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.4140 REMARK 3 BIN FREE R VALUE SET COUNT : 80 REMARK 3 BIN FREE R VALUE : 0.4940 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5813 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 108.4 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 12.35000 REMARK 3 B22 (A**2) : -6.32000 REMARK 3 B33 (A**2) : -6.04000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.410 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.963 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.945 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5915 ; 0.010 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8071 ; 1.424 ; 2.000 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 786 ;11.288 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 220 ;33.858 ;23.364 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 931 ;20.632 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 50 ;15.879 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 974 ; 0.092 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4448 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2431 ; 0.307 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 3989 ; 0.334 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 136 ; 0.152 ; 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): 46 ; 0.269 ; 0.200 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): 3917 ; 7.408 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 6302 ;11.226 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1998 ; 9.822 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1769 ;14.332 ; 4.500 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 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 REMARK 4 REMARK 4 3RB9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 12-APR-11. REMARK 100 THE DEPOSITION ID IS D_1000064717. 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 REMARK 200 PH : 7.0 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 : RIGAKU MICROMAX-007 HF REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 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 : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21391 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.000 REMARK 200 RESOLUTION RANGE LOW (A) : 41.100 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : 3.600 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL 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 : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.91 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.15 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 9% ISOPROPANOL, 12% PEG 4000, 0.1M NA REMARK 280 HEPES , PH 7.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 62.15050 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 62.15050 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 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 35.95150 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 116.62350 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 35.95150 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 116.62350 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 62.15050 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 35.95150 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 116.62350 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 62.15050 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 35.95150 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 116.62350 REMARK 290 SMTRY3 8 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 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2170 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 35700 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -7.0 KCAL/MOL 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 VAL B 8 REMARK 465 GLY B 9 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 PRO A 362 C - N - CA ANGL. DEV. = 9.1 DEGREES REMARK 500 PRO A 383 C - N - CA ANGL. DEV. = 9.7 DEGREES REMARK 500 PRO B 383 C - N - CA ANGL. DEV. = 9.3 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 LEU A 10 -51.34 107.80 REMARK 500 ARG A 19 -60.85 74.77 REMARK 500 LEU A 33 48.19 38.75 REMARK 500 PRO A 34 -127.69 -75.30 REMARK 500 ALA A 35 -166.13 50.60 REMARK 500 SER A 50 -162.24 -170.86 REMARK 500 ASP A 51 -106.47 18.83 REMARK 500 ASN A 52 33.97 -143.28 REMARK 500 TYR A 61 -33.08 91.29 REMARK 500 GLU A 62 -74.56 -89.66 REMARK 500 SER A 64 114.86 -161.79 REMARK 500 GLU A 66 115.77 -172.82 REMARK 500 GLU A 72 97.71 -64.09 REMARK 500 SER A 75 119.73 -177.47 REMARK 500 SER A 82 127.31 -38.79 REMARK 500 PRO A 94 -127.21 -49.82 REMARK 500 HIS A 101 109.59 -161.80 REMARK 500 GLU A 103 44.82 -93.99 REMARK 500 ASN A 105 -17.68 90.19 REMARK 500 PRO A 119 -178.81 -69.98 REMARK 500 PRO A 127 40.57 -92.35 REMARK 500 THR A 128 95.83 52.86 REMARK 500 LEU A 132 107.08 103.79 REMARK 500 MET A 163 -54.80 90.22 REMARK 500 GLU A 174 -42.41 92.97 REMARK 500 ARG A 183 -9.13 94.20 REMARK 500 SER A 197 91.42 116.18 REMARK 500 PRO A 198 6.97 -65.33 REMARK 500 GLU A 201 85.43 -164.79 REMARK 500 SER A 222 35.80 30.49 REMARK 500 ASP A 223 93.79 165.50 REMARK 500 LYS A 236 162.60 -44.66 REMARK 500 ASP A 237 81.96 69.69 REMARK 500 ASN A 245 -130.74 68.10 REMARK 500 PRO A 259 136.53 -24.53 REMARK 500 PHE A 261 -34.64 72.65 REMARK 500 ASP A 292 66.75 106.58 REMARK 500 ASP A 303 -111.34 35.36 REMARK 500 SER A 309 120.85 -172.40 REMARK 500 ALA A 312 -151.70 -144.70 REMARK 500 ARG A 317 113.99 12.74 REMARK 500 PRO A 330 128.93 -19.90 REMARK 500 THR A 357 -112.41 -86.97 REMARK 500 PRO A 362 126.86 -35.45 REMARK 500 ASP A 371 65.96 -69.57 REMARK 500 PRO A 374 -126.13 1.86 REMARK 500 VAL A 375 -62.62 72.71 REMARK 500 ASN A 379 72.42 -66.00 REMARK 500 PRO A 383 134.81 -26.70 REMARK 500 VAL A 387 117.88 67.12 REMARK 500 REMARK 500 THIS ENTRY HAS 97 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ASP A 314 VAL A 315 -149.41 REMARK 500 THR B 11 ASP B 12 133.17 REMARK 500 ASP B 314 VAL B 315 -149.11 REMARK 500 REMARK 500 REMARK: NULL DBREF 3RB9 A 8 402 UNP Q50790 DPO3B_MYCTU 8 402 DBREF 3RB9 B 8 402 UNP Q50790 DPO3B_MYCTU 8 402 SEQRES 1 A 395 VAL GLY LEU THR ASP LEU THR PHE ARG LEU LEU ARG GLU SEQRES 2 A 395 SER PHE ALA ASP ALA VAL SER TRP VAL ALA LYS ASN LEU SEQRES 3 A 395 PRO ALA ARG PRO ALA VAL PRO VAL LEU SER GLY VAL LEU SEQRES 4 A 395 LEU THR GLY SER ASP ASN GLY LEU THR ILE SER GLY PHE SEQRES 5 A 395 ASP TYR GLU VAL SER ALA GLU ALA GLN VAL GLY ALA GLU SEQRES 6 A 395 ILE VAL SER PRO GLY SER VAL LEU VAL SER GLY ARG LEU SEQRES 7 A 395 LEU SER ASP ILE THR ARG ALA LEU PRO ASN LYS PRO VAL SEQRES 8 A 395 ASP VAL HIS VAL GLU GLY ASN ARG VAL ALA LEU THR CYS SEQRES 9 A 395 GLY ASN ALA ARG PHE SER LEU PRO THR MET PRO VAL GLU SEQRES 10 A 395 ASP TYR PRO THR LEU PRO THR LEU PRO GLU GLU THR GLY SEQRES 11 A 395 LEU LEU PRO ALA GLU LEU PHE ALA GLU ALA ILE SER GLN SEQRES 12 A 395 VAL ALA ILE ALA ALA GLY ARG ASP ASP THR LEU PRO MET SEQRES 13 A 395 LEU THR GLY ILE ARG VAL GLU ILE LEU GLY GLU THR VAL SEQRES 14 A 395 VAL LEU ALA ALA THR ASP ARG PHE ARG LEU ALA VAL ARG SEQRES 15 A 395 GLU LEU LYS TRP SER ALA SER SER PRO ASP ILE GLU ALA SEQRES 16 A 395 ALA VAL LEU VAL PRO ALA LYS THR LEU ALA GLU ALA ALA SEQRES 17 A 395 LYS ALA GLY ILE GLY GLY SER ASP VAL ARG LEU SER LEU SEQRES 18 A 395 GLY THR GLY PRO GLY VAL GLY LYS ASP GLY LEU LEU GLY SEQRES 19 A 395 ILE SER GLY ASN GLY LYS ARG SER THR THR ARG LEU LEU SEQRES 20 A 395 ASP ALA GLU PHE PRO LYS PHE ARG GLN LEU LEU PRO THR SEQRES 21 A 395 GLU HIS THR ALA VAL ALA THR MET ASP VAL ALA GLU LEU SEQRES 22 A 395 ILE GLU ALA ILE LYS LEU VAL ALA LEU VAL ALA ASP ARG SEQRES 23 A 395 GLY ALA GLN VAL ARG MET GLU PHE ALA ASP GLY SER VAL SEQRES 24 A 395 ARG LEU SER ALA GLY ALA ASP ASP VAL GLY ARG ALA GLU SEQRES 25 A 395 GLU ASP LEU VAL VAL ASP TYR ALA GLY GLU PRO LEU THR SEQRES 26 A 395 ILE ALA PHE ASN PRO THR TYR LEU THR ASP GLY LEU SER SEQRES 27 A 395 SER LEU ARG SER GLU ARG VAL SER PHE GLY PHE THR THR SEQRES 28 A 395 ALA GLY LYS PRO ALA LEU LEU ARG PRO VAL SER GLY ASP SEQRES 29 A 395 ASP ARG PRO VAL ALA GLY LEU ASN GLY ASN GLY PRO PHE SEQRES 30 A 395 PRO ALA VAL SER THR ASP TYR VAL TYR LEU LEU MET PRO SEQRES 31 A 395 VAL ARG LEU PRO GLY SEQRES 1 B 395 VAL GLY LEU THR ASP LEU THR PHE ARG LEU LEU ARG GLU SEQRES 2 B 395 SER PHE ALA ASP ALA VAL SER TRP VAL ALA LYS ASN LEU SEQRES 3 B 395 PRO ALA ARG PRO ALA VAL PRO VAL LEU SER GLY VAL LEU SEQRES 4 B 395 LEU THR GLY SER ASP ASN GLY LEU THR ILE SER GLY PHE SEQRES 5 B 395 ASP TYR GLU VAL SER ALA GLU ALA GLN VAL GLY ALA GLU SEQRES 6 B 395 ILE VAL SER PRO GLY SER VAL LEU VAL SER GLY ARG LEU SEQRES 7 B 395 LEU SER ASP ILE THR ARG ALA LEU PRO ASN LYS PRO VAL SEQRES 8 B 395 ASP VAL HIS VAL GLU GLY ASN ARG VAL ALA LEU THR CYS SEQRES 9 B 395 GLY ASN ALA ARG PHE SER LEU PRO THR MET PRO VAL GLU SEQRES 10 B 395 ASP TYR PRO THR LEU PRO THR LEU PRO GLU GLU THR GLY SEQRES 11 B 395 LEU LEU PRO ALA GLU LEU PHE ALA GLU ALA ILE SER GLN SEQRES 12 B 395 VAL ALA ILE ALA ALA GLY ARG ASP ASP THR LEU PRO MET SEQRES 13 B 395 LEU THR GLY ILE ARG VAL GLU ILE LEU GLY GLU THR VAL SEQRES 14 B 395 VAL LEU ALA ALA THR ASP ARG PHE ARG LEU ALA VAL ARG SEQRES 15 B 395 GLU LEU LYS TRP SER ALA SER SER PRO ASP ILE GLU ALA SEQRES 16 B 395 ALA VAL LEU VAL PRO ALA LYS THR LEU ALA GLU ALA ALA SEQRES 17 B 395 LYS ALA GLY ILE GLY GLY SER ASP VAL ARG LEU SER LEU SEQRES 18 B 395 GLY THR GLY PRO GLY VAL GLY LYS ASP GLY LEU LEU GLY SEQRES 19 B 395 ILE SER GLY ASN GLY LYS ARG SER THR THR ARG LEU LEU SEQRES 20 B 395 ASP ALA GLU PHE PRO LYS PHE ARG GLN LEU LEU PRO THR SEQRES 21 B 395 GLU HIS THR ALA VAL ALA THR MET ASP VAL ALA GLU LEU SEQRES 22 B 395 ILE GLU ALA ILE LYS LEU VAL ALA LEU VAL ALA ASP ARG SEQRES 23 B 395 GLY ALA GLN VAL ARG MET GLU PHE ALA ASP GLY SER VAL SEQRES 24 B 395 ARG LEU SER ALA GLY ALA ASP ASP VAL GLY ARG ALA GLU SEQRES 25 B 395 GLU ASP LEU VAL VAL ASP TYR ALA GLY GLU PRO LEU THR SEQRES 26 B 395 ILE ALA PHE ASN PRO THR TYR LEU THR ASP GLY LEU SER SEQRES 27 B 395 SER LEU ARG SER GLU ARG VAL SER PHE GLY PHE THR THR SEQRES 28 B 395 ALA GLY LYS PRO ALA LEU LEU ARG PRO VAL SER GLY ASP SEQRES 29 B 395 ASP ARG PRO VAL ALA GLY LEU ASN GLY ASN GLY PRO PHE SEQRES 30 B 395 PRO ALA VAL SER THR ASP TYR VAL TYR LEU LEU MET PRO SEQRES 31 B 395 VAL ARG LEU PRO GLY HELIX 1 1 ARG A 19 ASN A 32 1 14 HELIX 2 2 VAL A 39 LEU A 42 5 4 HELIX 3 3 GLY A 83 LEU A 93 1 11 HELIX 4 4 PRO A 140 ILE A 153 1 14 HELIX 5 5 ALA A 208 ALA A 214 1 7 HELIX 6 6 ASP A 276 ALA A 288 1 13 HELIX 7 7 LEU A 289 ALA A 291 5 3 HELIX 8 8 ASN A 336 LEU A 347 1 12 HELIX 9 9 ARG B 19 LYS B 31 1 13 HELIX 10 10 VAL B 39 LEU B 42 5 4 HELIX 11 11 GLY B 83 LEU B 93 1 11 HELIX 12 12 PRO B 140 ILE B 153 1 14 HELIX 13 13 ALA B 208 ALA B 214 1 7 HELIX 14 14 ASP B 276 ALA B 288 1 13 HELIX 15 15 LEU B 289 ALA B 291 5 3 HELIX 16 16 ASN B 336 LEU B 347 1 12 SHEET 1 A 9 GLU A 72 SER A 75 0 SHEET 2 A 9 THR A 14 LEU A 17 -1 N THR A 14 O SER A 75 SHEET 3 A 9 VAL A 98 VAL A 102 -1 O VAL A 98 N LEU A 17 SHEET 4 A 9 ARG A 106 CYS A 111 -1 O THR A 110 N ASP A 99 SHEET 5 A 9 ALA A 114 PRO A 119 -1 O PHE A 116 N LEU A 109 SHEET 6 A 9 ALA B 318 LEU B 322 -1 O GLU B 319 N ARG A 115 SHEET 7 A 9 SER B 305 SER B 309 -1 N VAL B 306 O LEU B 322 SHEET 8 A 9 VAL B 297 ALA B 302 -1 N ALA B 302 O SER B 305 SHEET 9 A 9 LEU B 331 PHE B 335 -1 O LEU B 331 N PHE B 301 SHEET 1 B 9 GLY A 77 SER A 82 0 SHEET 2 B 9 GLY A 44 SER A 50 -1 N GLY A 49 O GLY A 77 SHEET 3 B 9 GLY A 53 PHE A 59 -1 O THR A 55 N THR A 48 SHEET 4 B 9 VAL A 63 VAL A 69 -1 O VAL A 69 N LEU A 54 SHEET 5 B 9 LYS A 247 ARG A 252 -1 O THR A 250 N SER A 64 SHEET 6 B 9 LEU A 239 GLY A 244 -1 N ILE A 242 O SER A 249 SHEET 7 B 9 VAL A 224 LEU A 226 -1 N ARG A 225 O SER A 243 SHEET 8 B 9 GLY A 137 LEU A 139 -1 N LEU A 139 O VAL A 224 SHEET 9 B 9 SER A 194 ALA A 195 -1 O SER A 194 N LEU A 138 SHEET 1 C 8 GLU A 201 PRO A 207 0 SHEET 2 C 8 GLY A 166 LEU A 172 -1 N ILE A 171 O ALA A 202 SHEET 3 C 8 THR A 175 THR A 181 -1 O ALA A 179 N ARG A 168 SHEET 4 C 8 ARG A 185 LYS A 192 -1 O ARG A 189 N LEU A 178 SHEET 5 C 8 TYR A 391 LEU A 395 -1 O LEU A 394 N LEU A 186 SHEET 6 C 8 ALA A 363 VAL A 368 -1 N LEU A 365 O TYR A 393 SHEET 7 C 8 ARG A 351 PHE A 356 -1 N SER A 353 O ARG A 366 SHEET 8 C 8 ALA A 271 ALA A 273 -1 N ALA A 271 O PHE A 356 SHEET 1 D 2 GLU A 268 HIS A 269 0 SHEET 2 D 2 PHE A 384 PRO A 385 -1 O PHE A 384 N HIS A 269 SHEET 1 E 9 LEU A 331 PHE A 335 0 SHEET 2 E 9 VAL A 297 ALA A 302 -1 N MET A 299 O ILE A 333 SHEET 3 E 9 SER A 305 SER A 309 -1 O SER A 305 N ALA A 302 SHEET 4 E 9 ALA A 318 LEU A 322 -1 O LEU A 322 N VAL A 306 SHEET 5 E 9 ALA B 114 PRO B 119 -1 O ARG B 115 N GLU A 319 SHEET 6 E 9 ARG B 106 CYS B 111 -1 N LEU B 109 O PHE B 116 SHEET 7 E 9 VAL B 98 VAL B 102 -1 N ASP B 99 O THR B 110 SHEET 8 E 9 THR B 14 LEU B 17 -1 N LEU B 17 O VAL B 98 SHEET 9 E 9 GLU B 72 SER B 75 -1 O SER B 75 N THR B 14 SHEET 1 F 9 GLY B 77 SER B 82 0 SHEET 2 F 9 GLY B 44 SER B 50 -1 N GLY B 49 O GLY B 77 SHEET 3 F 9 GLY B 53 SER B 57 -1 O THR B 55 N THR B 48 SHEET 4 F 9 VAL B 63 VAL B 69 -1 O VAL B 69 N LEU B 54 SHEET 5 F 9 LYS B 247 ARG B 252 -1 O THR B 250 N SER B 64 SHEET 6 F 9 LEU B 239 GLY B 244 -1 N ILE B 242 O SER B 249 SHEET 7 F 9 VAL B 224 LEU B 226 -1 N ARG B 225 O SER B 243 SHEET 8 F 9 GLY B 137 LEU B 139 -1 N LEU B 139 O VAL B 224 SHEET 9 F 9 SER B 194 ALA B 195 -1 O SER B 194 N LEU B 138 SHEET 1 G 8 GLU B 201 PRO B 207 0 SHEET 2 G 8 GLY B 166 LEU B 172 -1 N ILE B 171 O ALA B 202 SHEET 3 G 8 THR B 175 THR B 181 -1 O ALA B 179 N ARG B 168 SHEET 4 G 8 ARG B 185 LYS B 192 -1 O ARG B 189 N LEU B 178 SHEET 5 G 8 TYR B 391 LEU B 395 -1 O LEU B 394 N LEU B 186 SHEET 6 G 8 ALA B 363 VAL B 368 -1 N LEU B 365 O TYR B 393 SHEET 7 G 8 ARG B 351 PHE B 356 -1 N SER B 353 O ARG B 366 SHEET 8 G 8 ALA B 271 ALA B 273 -1 N ALA B 271 O PHE B 356 SHEET 1 H 2 GLU B 268 HIS B 269 0 SHEET 2 H 2 PHE B 384 PRO B 385 -1 O PHE B 384 N HIS B 269 CISPEP 1 ARG A 373 PRO A 374 0 22.33 CISPEP 2 ASN B 379 GLY B 380 0 0.10 CRYST1 71.903 233.247 124.301 90.00 90.00 90.00 C 2 2 21 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 0.013908 0.000000 0.000000 0.00000 SCALE2 0.000000 0.004287 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008045 0.00000