HEADER TRANSFERASE 16-MAY-16 5G4Q TITLE H.PYLORI BETA CLAMP IN COMPLEX WITH 5-CHLOROISATIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA POLYMERASE III SUBUNIT BETA; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: BETA CLAMP; COMPND 5 EC: 2.7.7.7; COMPND 6 ENGINEERED: YES; COMPND 7 OTHER_DETAILS: BETA CLAMP IN COMPLEX WITH 5-CHLOROISATIN SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HELICOBACTER PYLORI; SOURCE 3 ORGANISM_TAXID: 85962; SOURCE 4 STRAIN: 26695; SOURCE 5 ORGAN: STOMACH; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_VECTOR: PET28(B) KEYWDS TRANSFERASE, DNA SLIDING CLAMP, PROCESSIVITY PROMOTING FACTOR EXPDTA X-RAY DIFFRACTION AUTHOR P.PANDEY,S.GOURINATH REVDAT 4 10-JAN-24 5G4Q 1 REMARK REVDAT 3 22-MAY-19 5G4Q 1 REMARK REVDAT 2 18-JUL-18 5G4Q 1 JRNL REVDAT 1 21-JUN-17 5G4Q 0 JRNL AUTH P.PANDEY,V.VERMA,S.K.DHAR,S.GOURINATH JRNL TITL SCREENING OF E. COLI BETA-CLAMP INHIBITORS REVEALED THAT FEW JRNL TITL 2 INHIBIT HELICOBACTER PYLORI MORE EFFECTIVELY: STRUCTURAL AND JRNL TITL 3 FUNCTIONAL CHARACTERIZATION. JRNL REF ANTIBIOTICS (BASEL) V. 7 2018 JRNL REFN ESSN 2079-6382 JRNL PMID 29324718 JRNL DOI 10.3390/ANTIBIOTICS7010005 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH P.PANDEY,K.F.TARIQUE,M.MAZUMDER,S.A.A.REHMAN,N.KUMARI, REMARK 1 AUTH 2 S.GOURINATH REMARK 1 TITL STRUCTURAL INSIGHT INTO BETA-CLAMP AND ITS INTERACTION WITH REMARK 1 TITL 2 DNA LIGASE IN HELICOBACTER PYLORI. REMARK 1 REF SCI.REP. V. 6 31181 2016 REMARK 1 REFN ESSN 2045-2322 REMARK 1 PMID 27499105 REMARK 1 DOI 10.1038/SREP31181 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5 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) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 80.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 91.1 REMARK 3 NUMBER OF REFLECTIONS : 33035 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANNDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.230 REMARK 3 R VALUE (WORKING SET) : 0.227 REMARK 3 FREE R VALUE : 0.285 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.700 REMARK 3 FREE R VALUE TEST SET COUNT : 1633 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 REFLECTION IN BIN (WORKING SET) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE SET COUNT : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5574 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 12 REMARK 3 SOLVENT ATOMS : 57 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL 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): NULL 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 : NULL REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): NULL ; NULL ; NULL REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): NULL ; NULL ; NULL REMARK 3 GENERAL PLANES REFINED ATOMS (A): NULL ; NULL ; NULL 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): 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 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 : NULL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : NULL REMARK 3 ION PROBE RADIUS : NULL REMARK 3 SHRINKAGE RADIUS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. DATA OBTAINED FROM CRYSTALS SOAKED WITH LIGAND REMARK 3 LEADING TO HIGH TEMPERATURE FACTOR AND LOW OCCUPANCY. REMARK 4 REMARK 4 5G4Q COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 16-MAY-16. REMARK 100 THE DEPOSITION ID IS D_1290066860. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-NOV-15 REMARK 200 TEMPERATURE (KELVIN) : 287 REMARK 200 PH : NULL 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 : 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 : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 39777 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.300 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.1 REMARK 200 DATA REDUNDANCY : 3.600 REMARK 200 R MERGE (I) : 0.05000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 20.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 50.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.8 REMARK 200 DATA REDUNDANCY IN SHELL : 3.40 REMARK 200 R MERGE FOR SHELL (I) : 0.35000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.200 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: PDB NETRY 4RKI REMARK 200 REMARK 200 REMARK: THIS DATA WAS OBTAINED FROM CRYSTALS SOAKED IN LIGAND REMARK 200 BEFORE DIFFRACTION LEADING TO HIGH TEMPERATURE FACTOR AND LOW REMARK 200 OCCUPANCY REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.32 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 6% W/V PEG 20,000, 20% V/V PEG 550MME, REMARK 280 0.01M MGCL2, 0.1M MOPS/ HEPES-NA PH7.3, 0.2M AMMONIUM CITRATE REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 33.18600 REMARK 290 SMTRY3 2 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: 2100 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 32470 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -10.1 KCAL/MOL 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 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 2 1.000000 0.000000 0.000000 82.31100 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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: 2100 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 32470 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -10.1 KCAL/MOL 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 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 2 1.000000 0.000000 0.000000 -82.31100 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 GLU A 146 REMARK 465 GLN A 147 REMARK 465 THR A 148 REMARK 465 SER A 149 REMARK 465 HIS A 150 REMARK 465 LYS A 151 REMARK 465 ARG A 152 REMARK 465 GLN A 358 REMARK 465 SER A 359 REMARK 465 HIS A 360 REMARK 465 THR B 148 REMARK 465 SER B 149 REMARK 465 HIS B 150 REMARK 465 LYS B 151 REMARK 465 ARG B 152 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 ILE A 38 CG1 CG2 CD1 REMARK 470 LYS A 39 CG CD CE NZ REMARK 470 GLU A 40 CG CD OE1 OE2 REMARK 470 ASP A 84 CG OD1 OD2 REMARK 470 LYS A 92 CG CD CE NZ REMARK 470 ASP A 93 CG OD1 OD2 REMARK 470 GLU A 114 CG CD OE1 OE2 REMARK 470 GLU A 117 CG CD OE1 OE2 REMARK 470 ASP A 122 CG OD1 OD2 REMARK 470 LYS A 139 CG CD CE NZ REMARK 470 LYS A 164 CG CD CE NZ REMARK 470 LYS A 176 CG CD CE NZ REMARK 470 GLU A 184 CG CD OE1 OE2 REMARK 470 LYS A 185 CG CD CE NZ REMARK 470 GLU A 192 CG CD OE1 OE2 REMARK 470 LYS A 201 CG CD CE NZ REMARK 470 LYS A 236 CG CD CE NZ REMARK 470 ASP A 239 CG OD1 OD2 REMARK 470 ASN A 241 CG OD1 ND2 REMARK 470 LYS A 247 CG CD CE NZ REMARK 470 ILE A 248 CG1 CG2 CD1 REMARK 470 LYS A 251 CG CD CE NZ REMARK 470 GLU A 252 CG CD OE1 OE2 REMARK 470 LYS A 284 CG CD CE NZ REMARK 470 HIS A 296 CG ND1 CD2 CE1 NE2 REMARK 470 LYS A 314 CG CD CE NZ REMARK 470 GLU A 343 CG CD OE1 OE2 REMARK 470 GLU A 356 CG CD OE1 OE2 REMARK 470 LYS A 357 CG CD CE NZ REMARK 470 LEU A 361 CG CD1 CD2 REMARK 470 THR A 373 OG1 CG2 REMARK 470 LEU A 374 CG CD1 CD2 REMARK 470 ASN B 8 CG OD1 ND2 REMARK 470 LYS B 39 CG CD CE NZ REMARK 470 LYS B 64 CG CD CE NZ REMARK 470 LYS B 73 CG CD CE NZ REMARK 470 LYS B 92 CG CD CE NZ REMARK 470 LYS B 102 CG CD CE NZ REMARK 470 GLU B 117 CG CD OE1 OE2 REMARK 470 ASP B 122 CG OD1 OD2 REMARK 470 GLU B 146 CG CD OE1 OE2 REMARK 470 GLN B 147 CG CD OE1 NE2 REMARK 470 LYS B 164 CG CD CE NZ REMARK 470 GLU B 184 CG CD OE1 OE2 REMARK 470 LYS B 185 CG CD CE NZ REMARK 470 GLU B 193 CG CD OE1 OE2 REMARK 470 GLU B 229 CG CD OE1 OE2 REMARK 470 LYS B 236 CG CD CE NZ REMARK 470 ASP B 244 CG OD1 OD2 REMARK 470 LYS B 247 CG CD CE NZ REMARK 470 LYS B 251 CG CD CE NZ REMARK 470 GLU B 252 CG CD OE1 OE2 REMARK 470 LYS B 284 CG CD CE NZ REMARK 470 LEU B 288 CG CD1 CD2 REMARK 470 HIS B 296 CG ND1 CD2 CE1 NE2 REMARK 470 ASP B 311 CG OD1 OD2 REMARK 470 GLU B 313 CG CD OE1 OE2 REMARK 470 GLU B 343 CG CD OE1 OE2 REMARK 470 GLN B 358 CG CD OE1 NE2 REMARK 470 SER B 359 OG REMARK 470 HIS B 360 CG ND1 CD2 CE1 NE2 REMARK 470 LEU B 361 CG CD1 CD2 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 ASP B 25 CB - CG - OD2 ANGL. DEV. = -5.6 DEGREES REMARK 500 LEU B 44 CA - CB - CG ANGL. DEV. = 14.3 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 LYS A 39 -138.38 61.34 REMARK 500 ASP A 63 -47.69 -163.42 REMARK 500 SER A 85 164.67 -33.25 REMARK 500 LYS A 92 89.12 -174.97 REMARK 500 ASP A 93 -138.06 79.61 REMARK 500 ASP A 94 45.08 -104.43 REMARK 500 ASN A 101 -103.66 52.40 REMARK 500 THR A 175 -24.64 75.47 REMARK 500 TYR A 212 -64.76 -120.12 REMARK 500 ASN A 228 -165.54 -118.79 REMARK 500 ASN A 241 70.68 63.97 REMARK 500 ASP A 293 38.81 -93.10 REMARK 500 GLU A 313 -71.68 -78.63 REMARK 500 ASN A 342 -116.60 -110.90 REMARK 500 GLU A 356 -9.49 -55.99 REMARK 500 LYS B 39 -126.83 45.10 REMARK 500 GLU B 40 32.37 -97.73 REMARK 500 SER B 62 86.76 -153.84 REMARK 500 ASP B 93 -99.10 56.63 REMARK 500 ASN B 101 -109.09 69.69 REMARK 500 ASP B 174 -161.85 -112.86 REMARK 500 TYR B 212 -65.32 -143.79 REMARK 500 ASN B 214 62.20 63.33 REMARK 500 MET B 222 -40.35 -132.15 REMARK 500 LEU B 292 -65.58 -109.14 REMARK 500 ASP B 293 33.31 -88.28 REMARK 500 SER B 297 -6.12 90.45 REMARK 500 GLU B 313 -62.73 -95.45 REMARK 500 LEU B 318 112.49 -161.20 REMARK 500 ASN B 342 -123.02 -105.19 REMARK 500 PRO B 347 143.52 -38.01 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 2HQ B 1375 DBREF 5G4Q A 1 374 UNP O25242 DPO3B_HELPY 1 374 DBREF 5G4Q B 1 374 UNP O25242 DPO3B_HELPY 1 374 SEQRES 1 A 374 MET LYS ILE SER VAL SER LYS ASN ASP LEU GLU ASN ALA SEQRES 2 A 374 LEU ARG TYR LEU GLN ALA PHE LEU ASP LYS LYS ASP ALA SEQRES 3 A 374 SER SER ILE ALA SER HIS ILE HIS LEU GLU VAL ILE LYS SEQRES 4 A 374 GLU LYS LEU PHE LEU LYS ALA SER ASP SER ASP ILE GLY SEQRES 5 A 374 LEU LYS SER TYR ILE PHE THR GLN SER SER ASP LYS GLU SEQRES 6 A 374 GLY VAL GLY THR ILE ASN GLY LYS LYS PHE LEU ASP ILE SEQRES 7 A 374 ILE SER CYS LEU LYS ASP SER ASN ILE ILE LEU GLU THR SEQRES 8 A 374 LYS ASP ASP SER LEU ALA ILE LYS GLN ASN LYS SER SER SEQRES 9 A 374 PHE LYS LEU PRO MET PHE ASP ALA ASP GLU PHE PRO GLU SEQRES 10 A 374 PHE PRO VAL ILE ASP PRO LYS VAL SER ILE GLU VAL ASN SEQRES 11 A 374 ALA PRO PHE LEU VAL ASP ALA PHE LYS LYS ILE ALA PRO SEQRES 12 A 374 VAL ILE GLU GLN THR SER HIS LYS ARG GLU LEU ALA GLY SEQRES 13 A 374 ILE LEU MET GLN PHE ASP GLN LYS HIS GLN THR LEU SER SEQRES 14 A 374 VAL VAL GLY THR ASP THR LYS ARG LEU SER TYR THR GLN SEQRES 15 A 374 LEU GLU LYS ILE SER ILE HIS SER THR GLU GLU ASP ILE SEQRES 16 A 374 SER CYS ILE LEU PRO LYS ARG ALA LEU LEU GLU ILE LEU SEQRES 17 A 374 LYS LEU PHE TYR GLU ASN PHE SER PHE LYS SER ASP GLY SEQRES 18 A 374 MET LEU ALA VAL ILE GLU ASN GLU MET HIS THR PHE PHE SEQRES 19 A 374 THR LYS LEU ILE ASP GLY ASN TYR PRO ASP TYR GLN LYS SEQRES 20 A 374 ILE LEU PRO LYS GLU TYR ILE SER SER PHE THR LEU GLY SEQRES 21 A 374 LYS GLU GLU PHE LYS GLU SER ILE LYS LEU CYS SER SER SEQRES 22 A 374 LEU SER SER THR ILE LYS LEU THR LEU GLU LYS ASN ASN SEQRES 23 A 374 ALA LEU PHE GLU SER LEU ASP SER GLU HIS SER GLU THR SEQRES 24 A 374 ALA LYS THR SER VAL GLU ILE GLU LYS GLY LEU ASP ILE SEQRES 25 A 374 GLU LYS ALA PHE HIS LEU GLY VAL ASN ALA LYS PHE PHE SEQRES 26 A 374 LEU GLU ALA LEU ASN ALA LEU GLY THR THR GLN PHE VAL SEQRES 27 A 374 LEU ARG CYS ASN GLU PRO SER SER PRO PHE LEU ILE GLN SEQRES 28 A 374 GLU SER LEU ASP GLU LYS GLN SER HIS LEU ASN ALA LYS SEQRES 29 A 374 ILE SER THR LEU MET MET PRO ILE THR LEU SEQRES 1 B 374 MET LYS ILE SER VAL SER LYS ASN ASP LEU GLU ASN ALA SEQRES 2 B 374 LEU ARG TYR LEU GLN ALA PHE LEU ASP LYS LYS ASP ALA SEQRES 3 B 374 SER SER ILE ALA SER HIS ILE HIS LEU GLU VAL ILE LYS SEQRES 4 B 374 GLU LYS LEU PHE LEU LYS ALA SER ASP SER ASP ILE GLY SEQRES 5 B 374 LEU LYS SER TYR ILE PHE THR GLN SER SER ASP LYS GLU SEQRES 6 B 374 GLY VAL GLY THR ILE ASN GLY LYS LYS PHE LEU ASP ILE SEQRES 7 B 374 ILE SER CYS LEU LYS ASP SER ASN ILE ILE LEU GLU THR SEQRES 8 B 374 LYS ASP ASP SER LEU ALA ILE LYS GLN ASN LYS SER SER SEQRES 9 B 374 PHE LYS LEU PRO MET PHE ASP ALA ASP GLU PHE PRO GLU SEQRES 10 B 374 PHE PRO VAL ILE ASP PRO LYS VAL SER ILE GLU VAL ASN SEQRES 11 B 374 ALA PRO PHE LEU VAL ASP ALA PHE LYS LYS ILE ALA PRO SEQRES 12 B 374 VAL ILE GLU GLN THR SER HIS LYS ARG GLU LEU ALA GLY SEQRES 13 B 374 ILE LEU MET GLN PHE ASP GLN LYS HIS GLN THR LEU SER SEQRES 14 B 374 VAL VAL GLY THR ASP THR LYS ARG LEU SER TYR THR GLN SEQRES 15 B 374 LEU GLU LYS ILE SER ILE HIS SER THR GLU GLU ASP ILE SEQRES 16 B 374 SER CYS ILE LEU PRO LYS ARG ALA LEU LEU GLU ILE LEU SEQRES 17 B 374 LYS LEU PHE TYR GLU ASN PHE SER PHE LYS SER ASP GLY SEQRES 18 B 374 MET LEU ALA VAL ILE GLU ASN GLU MET HIS THR PHE PHE SEQRES 19 B 374 THR LYS LEU ILE ASP GLY ASN TYR PRO ASP TYR GLN LYS SEQRES 20 B 374 ILE LEU PRO LYS GLU TYR ILE SER SER PHE THR LEU GLY SEQRES 21 B 374 LYS GLU GLU PHE LYS GLU SER ILE LYS LEU CYS SER SER SEQRES 22 B 374 LEU SER SER THR ILE LYS LEU THR LEU GLU LYS ASN ASN SEQRES 23 B 374 ALA LEU PHE GLU SER LEU ASP SER GLU HIS SER GLU THR SEQRES 24 B 374 ALA LYS THR SER VAL GLU ILE GLU LYS GLY LEU ASP ILE SEQRES 25 B 374 GLU LYS ALA PHE HIS LEU GLY VAL ASN ALA LYS PHE PHE SEQRES 26 B 374 LEU GLU ALA LEU ASN ALA LEU GLY THR THR GLN PHE VAL SEQRES 27 B 374 LEU ARG CYS ASN GLU PRO SER SER PRO PHE LEU ILE GLN SEQRES 28 B 374 GLU SER LEU ASP GLU LYS GLN SER HIS LEU ASN ALA LYS SEQRES 29 B 374 ILE SER THR LEU MET MET PRO ILE THR LEU HET 2HQ B1375 12 HETNAM 2HQ 5-CHLORO-1H-INDOLE-2,3-DIONE FORMUL 3 2HQ C8 H4 CL N O2 FORMUL 4 HOH *57(H2 O) HELIX 1 1 LYS A 7 GLN A 18 1 12 HELIX 2 2 ALA A 19 LEU A 21 5 3 HELIX 3 3 SER A 28 ALA A 30 5 3 HELIX 4 4 GLY A 72 SER A 80 1 9 HELIX 5 5 ASP A 111 PHE A 115 5 5 HELIX 6 6 PRO A 132 ALA A 142 1 11 HELIX 7 7 PRO A 143 ILE A 145 5 3 HELIX 8 8 LYS A 201 PHE A 211 1 11 HELIX 9 9 ASP A 244 LEU A 249 1 6 HELIX 10 10 LYS A 261 SER A 272 1 12 HELIX 11 11 ALA A 322 ALA A 331 1 10 HELIX 12 12 LYS B 7 GLN B 18 1 12 HELIX 13 13 ALA B 19 LEU B 21 5 3 HELIX 14 14 SER B 28 ALA B 30 5 3 HELIX 15 15 GLY B 72 CYS B 81 1 10 HELIX 16 16 ASP B 111 PHE B 115 5 5 HELIX 17 17 PRO B 132 ALA B 142 1 11 HELIX 18 18 PRO B 143 ILE B 145 5 3 HELIX 19 19 LYS B 201 PHE B 211 1 11 HELIX 20 20 ASP B 244 LEU B 249 1 6 HELIX 21 21 LYS B 261 SER B 273 1 13 HELIX 22 22 ALA B 322 ALA B 331 1 10 SHEET 1 AA 5 SER A 61 LYS A 64 0 SHEET 2 AA 5 LYS A 2 SER A 6 -1 O LYS A 2 N LYS A 64 SHEET 3 AA 5 ASN A 86 THR A 91 -1 O ILE A 87 N VAL A 5 SHEET 4 AA 5 SER A 95 GLN A 100 -1 O ALA A 97 N GLU A 90 SHEET 5 AA 5 SER A 103 PRO A 108 -1 O SER A 103 N GLN A 100 SHEET 1 AB 9 GLY A 66 ASN A 71 0 SHEET 2 AB 9 HIS A 32 ILE A 38 -1 O ILE A 33 N ILE A 70 SHEET 3 AB 9 LYS A 41 SER A 47 -1 O LYS A 41 N ILE A 38 SHEET 4 AB 9 ILE A 51 PHE A 58 -1 O LEU A 53 N ALA A 46 SHEET 5 AB 9 HIS A 231 LYS A 236 -1 O THR A 232 N LYS A 54 SHEET 6 AB 9 LEU A 223 GLU A 227 -1 O ALA A 224 N THR A 235 SHEET 7 AB 9 PHE A 215 SER A 219 -1 O SER A 216 N GLU A 227 SHEET 8 AB 9 VAL A 125 VAL A 129 -1 O VAL A 125 N SER A 219 SHEET 9 AB 9 HIS A 189 SER A 190 -1 O HIS A 189 N SER A 126 SHEET 1 AC 8 ASP A 194 PRO A 200 0 SHEET 2 AC 8 GLY A 156 ASP A 162 -1 O ILE A 157 N LEU A 199 SHEET 3 AC 8 THR A 167 THR A 173 -1 O THR A 167 N ASP A 162 SHEET 4 AC 8 ARG A 177 GLU A 184 -1 O SER A 179 N GLY A 172 SHEET 5 AC 8 SER A 366 MET A 369 -1 O SER A 366 N TYR A 180 SHEET 6 AC 8 PHE A 348 GLU A 352 -1 O PHE A 348 N MET A 369 SHEET 7 AC 8 GLN A 336 CYS A 341 -1 O VAL A 338 N GLN A 351 SHEET 8 AC 8 SER A 255 GLY A 260 -1 O SER A 255 N CYS A 341 SHEET 1 AD 4 LYS A 301 GLU A 305 0 SHEET 2 AD 4 ASN A 286 SER A 291 -1 O ALA A 287 N VAL A 304 SHEET 3 AD 4 THR A 277 LEU A 282 -1 O LYS A 279 N GLU A 290 SHEET 4 AD 4 PHE A 316 ASN A 321 -1 O PHE A 316 N LEU A 282 SHEET 1 BA 5 SER B 61 LYS B 64 0 SHEET 2 BA 5 LYS B 2 SER B 6 -1 O LYS B 2 N LYS B 64 SHEET 3 BA 5 ASN B 86 LYS B 92 -1 O ILE B 87 N VAL B 5 SHEET 4 BA 5 SER B 95 GLN B 100 -1 O SER B 95 N LYS B 92 SHEET 5 BA 5 SER B 103 PRO B 108 -1 O SER B 103 N GLN B 100 SHEET 1 BB 9 GLY B 66 ASN B 71 0 SHEET 2 BB 9 HIS B 32 ILE B 38 -1 O ILE B 33 N ILE B 70 SHEET 3 BB 9 LYS B 41 SER B 47 -1 O LYS B 41 N ILE B 38 SHEET 4 BB 9 ILE B 51 PHE B 58 -1 O LEU B 53 N ALA B 46 SHEET 5 BB 9 HIS B 231 LYS B 236 -1 O THR B 232 N LYS B 54 SHEET 6 BB 9 LEU B 223 GLU B 227 -1 O ALA B 224 N THR B 235 SHEET 7 BB 9 PHE B 215 SER B 219 -1 O SER B 216 N GLU B 227 SHEET 8 BB 9 VAL B 125 VAL B 129 -1 O VAL B 125 N SER B 219 SHEET 9 BB 9 HIS B 189 SER B 190 -1 O HIS B 189 N SER B 126 SHEET 1 BC 8 ASP B 194 PRO B 200 0 SHEET 2 BC 8 GLY B 156 ASP B 162 -1 O ILE B 157 N LEU B 199 SHEET 3 BC 8 THR B 167 THR B 173 -1 O THR B 167 N ASP B 162 SHEET 4 BC 8 ARG B 177 LEU B 183 -1 O SER B 179 N GLY B 172 SHEET 5 BC 8 SER B 366 MET B 369 -1 O SER B 366 N TYR B 180 SHEET 6 BC 8 PHE B 348 GLU B 352 -1 O PHE B 348 N MET B 369 SHEET 7 BC 8 GLN B 336 CYS B 341 -1 O VAL B 338 N GLN B 351 SHEET 8 BC 8 SER B 255 GLY B 260 -1 O SER B 255 N CYS B 341 SHEET 1 BD 4 LYS B 301 GLU B 305 0 SHEET 2 BD 4 ASN B 286 SER B 291 -1 O ALA B 287 N VAL B 304 SHEET 3 BD 4 THR B 277 GLU B 283 -1 O LYS B 279 N GLU B 290 SHEET 4 BD 4 PHE B 316 ASN B 321 -1 O PHE B 316 N LEU B 282 SITE 1 AC1 6 THR B 173 THR B 175 LYS B 176 ARG B 177 SITE 2 AC1 6 LEU B 178 LEU B 368 CRYST1 82.311 66.372 89.119 90.00 115.96 90.00 P 1 21 1 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 0.012149 0.000000 0.005915 0.00000 SCALE2 0.000000 0.015067 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012480 0.00000