HEADER LIGASE/LIGASE INHIBITOR 18-JAN-12 4DDM TITLE PANTOTHENATE SYNTHETASE IN COMPLEX WITH 2,1,3-BENZOTHIADIAZOLE-5- TITLE 2 CARBOXYLIC ACID COMPND MOL_ID: 1; COMPND 2 MOLECULE: PANTOTHENATE SYNTHETASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: PS, PANTOATE--BETA-ALANINE LIGASE, PANTOATE-ACTIVATING COMPND 5 ENZYME; COMPND 6 EC: 6.3.2.1; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM TUBERCULOSIS; SOURCE 3 ORGANISM_TAXID: 1773; SOURCE 4 STRAIN: H37RV; SOURCE 5 GENE: MT3707, MTCY07H7B.20, PANC, RV3602C; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTA 2; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET30B KEYWDS FRAGMENT-BASED DRUG DISCOVERY, ALPHA BETA/ADENINE NUCLEOTIDE ALPHA KEYWDS 2 HYDROLASE-LIKE, PANTOATE AND B-ALA BINDING, LIGASE-LIGASE INHIBITOR KEYWDS 3 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR H.L.SILVESTRE REVDAT 5 28-FEB-24 4DDM 1 REMARK SEQADV REVDAT 4 04-SEP-13 4DDM 1 JRNL REVDAT 3 07-AUG-13 4DDM 1 JRNL REVDAT 2 03-JUL-13 4DDM 1 AUTHOR REVDAT 1 13-FEB-13 4DDM 0 JRNL AUTH H.L.SILVESTRE,T.L.BLUNDELL,C.ABELL,A.CIULLI JRNL TITL INTEGRATED BIOPHYSICAL APPROACH TO FRAGMENT SCREENING AND JRNL TITL 2 VALIDATION FOR FRAGMENT-BASED LEAD DISCOVERY. JRNL REF PROC.NATL.ACAD.SCI.USA V. 110 12984 2013 JRNL REFN ISSN 0027-8424 JRNL PMID 23872845 JRNL DOI 10.1073/PNAS.1304045110 REMARK 2 REMARK 2 RESOLUTION. 1.83 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0102 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) : 1.83 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.52 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 45984 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) : 0.167 REMARK 3 R VALUE (WORKING SET) : 0.164 REMARK 3 FREE R VALUE : 0.221 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2446 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) : 1.83 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.88 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3379 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2780 REMARK 3 BIN FREE R VALUE SET COUNT : 188 REMARK 3 BIN FREE R VALUE : 0.3510 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4151 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 55 REMARK 3 SOLVENT ATOMS : 488 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 22.22 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 25.72 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.03000 REMARK 3 B22 (A**2) : 0.03000 REMARK 3 B33 (A**2) : -0.07000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.01000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.129 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.133 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.086 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.810 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.965 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): 4399 ; 0.025 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6017 ; 1.948 ; 1.994 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 588 ; 6.078 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 172 ;38.109 ;22.500 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 659 ;14.886 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 46 ;18.013 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 717 ; 0.152 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3378 ; 0.010 ; 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): 2888 ; 1.341 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4641 ; 2.226 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1511 ; 3.600 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1374 ; 5.549 ; 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 : 1.40 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 4DDM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-JAN-12. REMARK 100 THE DEPOSITION ID IS D_1000070196. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-JUN-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06DA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 48452 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.830 REMARK 200 RESOLUTION RANGE LOW (A) : 40.420 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 4.300 REMARK 200 R MERGE (I) : 0.06800 REMARK 200 R SYM (I) : 0.06800 REMARK 200 FOR THE DATA SET : 17.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.83 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.95 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 4.40 REMARK 200 R MERGE FOR SHELL (I) : 0.53100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.600 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 (%): 42.34 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.13 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10-15% PEG 3000, 150 MM LI2SO4, 0.1 M REMARK 280 IMIDAZOLE, 2% ETHANOL, 10% ETHYLENE GLYCOL, 20 MM MGCL2 , PH 8.0, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 294K 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 35.52000 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: 4780 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23270 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 9.0 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3370 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 24690 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -5.0 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 13.51484 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 -80.84819 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 ALA A 2 REMARK 465 GLY A 292 REMARK 465 THR A 293 REMARK 465 ASP A 294 REMARK 465 ARG A 295 REMARK 465 PRO A 296 REMARK 465 ASP A 297 REMARK 465 GLY A 298 REMARK 465 TYR A 299 REMARK 465 ARG A 300 REMARK 465 ALA A 301 REMARK 465 MET B 1 REMARK 465 PHE B 73 REMARK 465 GLY B 74 REMARK 465 ALA B 75 REMARK 465 GLY B 76 REMARK 465 GLY B 77 REMARK 465 ASP B 78 REMARK 465 LEU B 79 REMARK 465 ASP B 80 REMARK 465 ALA B 81 REMARK 465 TYR B 82 REMARK 465 PRO B 83 REMARK 465 ARG B 84 REMARK 465 THR B 289 REMARK 465 PHE B 290 REMARK 465 ALA B 291 REMARK 465 GLY B 292 REMARK 465 THR B 293 REMARK 465 ASP B 294 REMARK 465 ARG B 295 REMARK 465 PRO B 296 REMARK 465 ASP B 297 REMARK 465 GLY B 298 REMARK 465 TYR B 299 REMARK 465 ARG B 300 REMARK 465 ALA B 301 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 GLN B 72 CG CD OE1 NE2 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 NE2 GLN A 229 O HOH A 530 2.04 REMARK 500 O HOH A 570 O HOH A 630 2.05 REMARK 500 O EOH A 403 O HOH A 623 2.11 REMARK 500 O HOH A 676 O HOH B 502 2.11 REMARK 500 O HOH A 661 O HOH A 669 2.12 REMARK 500 O HOH B 651 O HOH B 683 2.13 REMARK 500 O HOH B 575 O HOH B 617 2.14 REMARK 500 O HOH A 594 O HOH A 670 2.16 REMARK 500 NH1 ARG B 56 O HOH B 691 2.16 REMARK 500 O HOH B 582 O HOH B 680 2.17 REMARK 500 O HOH B 604 O HOH B 722 2.18 REMARK 500 O HOH B 659 O HOH B 703 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 571 O HOH B 724 2656 1.86 REMARK 500 O HOH A 615 O HOH A 649 2645 2.13 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 28 NE - CZ - NH2 ANGL. DEV. = -4.0 DEGREES REMARK 500 MET A 40 CG - SD - CE ANGL. DEV. = -21.4 DEGREES REMARK 500 ARG A 169 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 ARG A 267 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 ARG A 278 NE - CZ - NH1 ANGL. DEV. = -4.5 DEGREES REMARK 500 ARG B 278 NE - CZ - NH1 ANGL. DEV. = -3.6 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 PHE A 67 117.61 -163.93 REMARK 500 ARG A 115 -92.20 -120.42 REMARK 500 LEU A 127 -116.19 55.68 REMARK 500 PRO A 259 41.27 -74.03 REMARK 500 ASN A 263 -122.83 -102.08 REMARK 500 PHE A 290 -37.14 141.65 REMARK 500 ARG B 115 -93.57 -129.29 REMARK 500 LEU B 127 -111.51 54.14 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 GOL A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EOH A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EOH A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 0HO A 406 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 0HO B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EOH B 403 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4DDK RELATED DB: PDB REMARK 900 RELATED ID: 4DDH RELATED DB: PDB DBREF 4DDM A 1 301 UNP P0A5R0 PANC_MYCTU 1 301 DBREF 4DDM B 1 301 UNP P0A5R0 PANC_MYCTU 1 301 SEQADV 4DDM ALA A 2 UNP P0A5R0 THR 2 ENGINEERED MUTATION SEQADV 4DDM GLY A 77 UNP P0A5R0 GLU 77 ENGINEERED MUTATION SEQADV 4DDM ALA B 2 UNP P0A5R0 THR 2 ENGINEERED MUTATION SEQADV 4DDM GLY B 77 UNP P0A5R0 GLU 77 ENGINEERED MUTATION SEQRES 1 A 301 MET ALA ILE PRO ALA PHE HIS PRO GLY GLU LEU ASN VAL SEQRES 2 A 301 TYR SER ALA PRO GLY ASP VAL ALA ASP VAL SER ARG ALA SEQRES 3 A 301 LEU ARG LEU THR GLY ARG ARG VAL MET LEU VAL PRO THR SEQRES 4 A 301 MET GLY ALA LEU HIS GLU GLY HIS LEU ALA LEU VAL ARG SEQRES 5 A 301 ALA ALA LYS ARG VAL PRO GLY SER VAL VAL VAL VAL SER SEQRES 6 A 301 ILE PHE VAL ASN PRO MET GLN PHE GLY ALA GLY GLY ASP SEQRES 7 A 301 LEU ASP ALA TYR PRO ARG THR PRO ASP ASP ASP LEU ALA SEQRES 8 A 301 GLN LEU ARG ALA GLU GLY VAL GLU ILE ALA PHE THR PRO SEQRES 9 A 301 THR THR ALA ALA MET TYR PRO ASP GLY LEU ARG THR THR SEQRES 10 A 301 VAL GLN PRO GLY PRO LEU ALA ALA GLU LEU GLU GLY GLY SEQRES 11 A 301 PRO ARG PRO THR HIS PHE ALA GLY VAL LEU THR VAL VAL SEQRES 12 A 301 LEU LYS LEU LEU GLN ILE VAL ARG PRO ASP ARG VAL PHE SEQRES 13 A 301 PHE GLY GLU LYS ASP TYR GLN GLN LEU VAL LEU ILE ARG SEQRES 14 A 301 GLN LEU VAL ALA ASP PHE ASN LEU ASP VAL ALA VAL VAL SEQRES 15 A 301 GLY VAL PRO THR VAL ARG GLU ALA ASP GLY LEU ALA MET SEQRES 16 A 301 SER SER ARG ASN ARG TYR LEU ASP PRO ALA GLN ARG ALA SEQRES 17 A 301 ALA ALA VAL ALA LEU SER ALA ALA LEU THR ALA ALA ALA SEQRES 18 A 301 HIS ALA ALA THR ALA GLY ALA GLN ALA ALA LEU ASP ALA SEQRES 19 A 301 ALA ARG ALA VAL LEU ASP ALA ALA PRO GLY VAL ALA VAL SEQRES 20 A 301 ASP TYR LEU GLU LEU ARG ASP ILE GLY LEU GLY PRO MET SEQRES 21 A 301 PRO LEU ASN GLY SER GLY ARG LEU LEU VAL ALA ALA ARG SEQRES 22 A 301 LEU GLY THR THR ARG LEU LEU ASP ASN ILE ALA ILE GLU SEQRES 23 A 301 ILE GLY THR PHE ALA GLY THR ASP ARG PRO ASP GLY TYR SEQRES 24 A 301 ARG ALA SEQRES 1 B 301 MET ALA ILE PRO ALA PHE HIS PRO GLY GLU LEU ASN VAL SEQRES 2 B 301 TYR SER ALA PRO GLY ASP VAL ALA ASP VAL SER ARG ALA SEQRES 3 B 301 LEU ARG LEU THR GLY ARG ARG VAL MET LEU VAL PRO THR SEQRES 4 B 301 MET GLY ALA LEU HIS GLU GLY HIS LEU ALA LEU VAL ARG SEQRES 5 B 301 ALA ALA LYS ARG VAL PRO GLY SER VAL VAL VAL VAL SER SEQRES 6 B 301 ILE PHE VAL ASN PRO MET GLN PHE GLY ALA GLY GLY ASP SEQRES 7 B 301 LEU ASP ALA TYR PRO ARG THR PRO ASP ASP ASP LEU ALA SEQRES 8 B 301 GLN LEU ARG ALA GLU GLY VAL GLU ILE ALA PHE THR PRO SEQRES 9 B 301 THR THR ALA ALA MET TYR PRO ASP GLY LEU ARG THR THR SEQRES 10 B 301 VAL GLN PRO GLY PRO LEU ALA ALA GLU LEU GLU GLY GLY SEQRES 11 B 301 PRO ARG PRO THR HIS PHE ALA GLY VAL LEU THR VAL VAL SEQRES 12 B 301 LEU LYS LEU LEU GLN ILE VAL ARG PRO ASP ARG VAL PHE SEQRES 13 B 301 PHE GLY GLU LYS ASP TYR GLN GLN LEU VAL LEU ILE ARG SEQRES 14 B 301 GLN LEU VAL ALA ASP PHE ASN LEU ASP VAL ALA VAL VAL SEQRES 15 B 301 GLY VAL PRO THR VAL ARG GLU ALA ASP GLY LEU ALA MET SEQRES 16 B 301 SER SER ARG ASN ARG TYR LEU ASP PRO ALA GLN ARG ALA SEQRES 17 B 301 ALA ALA VAL ALA LEU SER ALA ALA LEU THR ALA ALA ALA SEQRES 18 B 301 HIS ALA ALA THR ALA GLY ALA GLN ALA ALA LEU ASP ALA SEQRES 19 B 301 ALA ARG ALA VAL LEU ASP ALA ALA PRO GLY VAL ALA VAL SEQRES 20 B 301 ASP TYR LEU GLU LEU ARG ASP ILE GLY LEU GLY PRO MET SEQRES 21 B 301 PRO LEU ASN GLY SER GLY ARG LEU LEU VAL ALA ALA ARG SEQRES 22 B 301 LEU GLY THR THR ARG LEU LEU ASP ASN ILE ALA ILE GLU SEQRES 23 B 301 ILE GLY THR PHE ALA GLY THR ASP ARG PRO ASP GLY TYR SEQRES 24 B 301 ARG ALA HET GOL A 401 6 HET GOL A 402 6 HET EOH A 403 3 HET EOH A 404 3 HET GOL A 405 6 HET 0HO A 406 12 HET 0HO B 401 12 HET EDO B 402 4 HET EOH B 403 3 HETNAM GOL GLYCEROL HETNAM EOH ETHANOL HETNAM 0HO 2,1,3-BENZOTHIADIAZOLE-5-CARBOXYLIC ACID HETNAM EDO 1,2-ETHANEDIOL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 3 GOL 3(C3 H8 O3) FORMUL 5 EOH 3(C2 H6 O) FORMUL 8 0HO 2(C7 H4 N2 O2 S) FORMUL 10 EDO C2 H6 O2 FORMUL 12 HOH *488(H2 O) HELIX 1 1 ALA A 16 THR A 30 1 15 HELIX 2 2 HIS A 44 ARG A 56 1 13 HELIX 3 3 ASN A 69 PHE A 73 5 5 HELIX 4 4 GLY A 77 TYR A 82 1 6 HELIX 5 5 THR A 85 GLU A 96 1 12 HELIX 6 6 THR A 105 TYR A 110 1 6 HELIX 7 7 GLY A 121 GLY A 130 5 10 HELIX 8 8 THR A 134 ARG A 151 1 18 HELIX 9 9 ASP A 161 PHE A 175 1 15 HELIX 10 10 SER A 196 LEU A 202 5 7 HELIX 11 11 ASP A 203 ALA A 210 1 8 HELIX 12 12 VAL A 211 ALA A 224 1 14 HELIX 13 13 GLY A 227 ALA A 241 1 15 HELIX 14 14 ALA B 16 THR B 30 1 15 HELIX 15 15 HIS B 44 ARG B 56 1 13 HELIX 16 16 PRO B 86 GLU B 96 1 11 HELIX 17 17 THR B 105 TYR B 110 1 6 HELIX 18 18 GLY B 121 GLY B 130 5 10 HELIX 19 19 THR B 134 ARG B 151 1 18 HELIX 20 20 ASP B 161 PHE B 175 1 15 HELIX 21 21 SER B 196 LEU B 202 5 7 HELIX 22 22 ASP B 203 VAL B 211 1 9 HELIX 23 23 VAL B 211 ALA B 224 1 14 HELIX 24 24 GLY B 227 ALA B 241 1 15 SHEET 1 A 6 ASN A 12 TYR A 14 0 SHEET 2 A 6 ILE A 100 PHE A 102 1 O ALA A 101 N ASN A 12 SHEET 3 A 6 SER A 60 ILE A 66 1 N VAL A 64 O ILE A 100 SHEET 4 A 6 ARG A 33 THR A 39 1 N MET A 35 O VAL A 63 SHEET 5 A 6 ARG A 154 GLY A 158 1 O ARG A 154 N LEU A 36 SHEET 6 A 6 ALA A 180 VAL A 184 1 O VAL A 182 N VAL A 155 SHEET 1 B 2 THR A 117 GLN A 119 0 SHEET 2 B 2 THR B 117 GLN B 119 -1 O THR B 117 N GLN A 119 SHEET 1 C 3 ALA A 246 ASP A 254 0 SHEET 2 C 3 SER A 265 LEU A 274 -1 O ARG A 273 N ALA A 246 SHEET 3 C 3 THR A 277 GLU A 286 -1 O ILE A 285 N GLY A 266 SHEET 1 D 6 ASN B 12 TYR B 14 0 SHEET 2 D 6 ILE B 100 PHE B 102 1 O ALA B 101 N ASN B 12 SHEET 3 D 6 SER B 60 ILE B 66 1 N VAL B 64 O PHE B 102 SHEET 4 D 6 ARG B 33 THR B 39 1 N MET B 35 O VAL B 63 SHEET 5 D 6 ARG B 154 GLY B 158 1 O ARG B 154 N LEU B 36 SHEET 6 D 6 ALA B 180 VAL B 184 1 O VAL B 182 N VAL B 155 SHEET 1 E 3 ALA B 246 ASP B 254 0 SHEET 2 E 3 GLY B 264 LEU B 274 -1 O LEU B 269 N GLU B 251 SHEET 3 E 3 THR B 277 ILE B 287 -1 O LEU B 279 N ALA B 272 SITE 1 AC1 9 MET A 109 TYR A 110 PRO A 111 ASP A 112 SITE 2 AC1 9 GLY A 113 ARG A 115 THR A 116 LYS A 145 SITE 3 AC1 9 ASP B 174 SITE 1 AC2 4 PRO A 111 ASP A 112 HOH A 683 HOH A 685 SITE 1 AC3 6 LEU A 114 ARG A 115 THR A 117 HOH A 623 SITE 2 AC3 6 GLN B 119 PRO B 120 SITE 1 AC4 4 THR A 218 HOH A 739 HIS B 222 THR B 225 SITE 1 AC5 3 ASN A 176 GLN B 148 ARG B 151 SITE 1 AC6 9 PRO A 38 THR A 39 MET A 40 HIS A 47 SITE 2 AC6 9 PHE A 157 GLN A 164 HOH A 668 HOH A 744 SITE 3 AC6 9 HOH A 745 SITE 1 AC7 5 PRO B 38 THR B 39 MET B 40 HIS B 47 SITE 2 AC7 5 GLN B 164 SITE 1 AC8 9 ASP A 174 MET B 109 TYR B 110 GLY B 113 SITE 2 AC8 9 LEU B 114 ARG B 115 THR B 116 LYS B 145 SITE 3 AC8 9 HOH B 530 SITE 1 AC9 8 GLY B 158 GLU B 159 LYS B 160 VAL B 184 SITE 2 AC9 8 PRO B 185 THR B 186 HOH B 732 HOH B 733 CRYST1 48.450 71.040 81.970 90.00 99.49 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 0.020640 0.000000 0.003450 0.00000 SCALE2 0.000000 0.014077 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012369 0.00000