HEADER LYASE 15-DEC-17 6BWL TITLE X-RAY STRUCTURE OF PAL FROM BACILLUS THURINGIENSIS COMPND MOL_ID: 1; COMPND 2 MOLECULE: PAL; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: DTDP-GLUCOSE 4,6-DEHYDRATASE; COMPND 5 EC: 4.2.1.46; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS THURINGIENSIS SEROVAR ISRAELENSIS ATCC SOURCE 3 35646; SOURCE 4 ORGANISM_TAXID: 339854; SOURCE 5 GENE: RBTH_04254; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS SHORT CHAIN DEHYDROGENASE, DEOXYSUGAR, LYASE EXPDTA X-RAY DIFFRACTION AUTHOR N.A.DELVAUX,J.B.THODEN,H.M.HOLDEN REVDAT 4 04-OCT-23 6BWL 1 REMARK LINK REVDAT 3 01-JAN-20 6BWL 1 REMARK REVDAT 2 28-FEB-18 6BWL 1 JRNL REVDAT 1 17-JAN-18 6BWL 0 JRNL AUTH N.A.DELVAUX,J.B.THODEN,H.M.HOLDEN JRNL TITL MOLECULAR ARCHITECTURES OF PEN AND PAL: KEY ENZYMES REQUIRED JRNL TITL 2 FOR CMP-PSEUDAMINIC ACID BIOSYNTHESIS IN BACILLUS JRNL TITL 3 THURINGIENSIS. JRNL REF PROTEIN SCI. V. 27 738 2018 JRNL REFN ESSN 1469-896X JRNL PMID 29266550 JRNL DOI 10.1002/PRO.3368 REMARK 2 REMARK 2 RESOLUTION. 1.45 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0124 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.45 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 23.50 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 3 NUMBER OF REFLECTIONS : 78049 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) : 0.131 REMARK 3 R VALUE (WORKING SET) : 0.129 REMARK 3 FREE R VALUE : 0.151 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 3981 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) : 1.45 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.49 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5593 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.29 REMARK 3 BIN R VALUE (WORKING SET) : 0.1850 REMARK 3 BIN FREE R VALUE SET COUNT : 297 REMARK 3 BIN FREE R VALUE : 0.1760 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2448 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 88 REMARK 3 SOLVENT ATOMS : 558 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 14.88 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.44000 REMARK 3 B22 (A**2) : -1.10000 REMARK 3 B33 (A**2) : -0.34000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.042 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.045 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.027 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.695 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.978 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.971 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2627 ; 0.012 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2501 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3579 ; 1.782 ; 1.987 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5774 ; 0.808 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 328 ; 6.578 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 116 ;39.517 ;26.121 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 452 ;12.253 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 5 ; 7.473 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 408 ; 0.106 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2953 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 583 ; 0.001 ; 0.020 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): 1267 ; 1.307 ; 1.133 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1266 ; 1.295 ; 1.130 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1586 ; 1.851 ; 1.696 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1587 ; 1.853 ; 1.699 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1360 ; 3.101 ; 1.392 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1360 ; 3.101 ; 1.392 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1986 ; 4.493 ; 1.970 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 3705 ; 6.596 ;12.784 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 3706 ; 6.595 ;12.788 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 : 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 6BWL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-JAN-18. REMARK 100 THE DEPOSITION ID IS D_1000231718. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-APR-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-BM REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9794 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 270 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 82030 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.450 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 200 DATA REDUNDANCY : 7.300 REMARK 200 R MERGE (I) : 0.04100 REMARK 200 R SYM (I) : 0.04100 REMARK 200 FOR THE DATA SET : 53.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.45 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.50 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.9 REMARK 200 DATA REDUNDANCY IN SHELL : 4.40 REMARK 200 R MERGE FOR SHELL (I) : 0.17500 REMARK 200 R SYM FOR SHELL (I) : 0.17500 REMARK 200 FOR SHELL : 8.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 2P5U REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 61.34 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.18 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 8-12% PEG 5000, 100 MM MES, 2% MPD, 5 REMARK 280 MM UDP, PH 6, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K 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 49.30150 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 49.30150 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 48.21000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 49.17050 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 48.21000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 49.17050 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 49.30150 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 48.21000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 49.17050 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 49.30150 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 48.21000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 49.17050 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: 8540 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23960 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -86.0 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 BIOMT1 2 1.000000 0.000000 0.000000 0.00000 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 527 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 728 LIES ON A SPECIAL POSITION. 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 ILE A 314 REMARK 465 ASN A 315 REMARK 465 PRO A 316 REMARK 465 LYS A 317 REMARK 465 GLU A 318 REMARK 465 LYS A 319 REMARK 465 GLU A 320 REMARK 465 LEU A 321 REMARK 465 GLU A 322 REMARK 465 HIS A 323 REMARK 465 HIS A 324 REMARK 465 HIS A 325 REMARK 465 HIS A 326 REMARK 465 HIS A 327 REMARK 465 HIS A 328 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 O HOH A 869 O HOH A 911 1.62 REMARK 500 O HOH A 839 O HOH A 887 1.71 REMARK 500 O HOH A 707 O HOH A 862 1.93 REMARK 500 O HOH A 833 O HOH A 905 1.95 REMARK 500 O HOH A 511 O HOH A 862 1.96 REMARK 500 O HOH A 511 O HOH A 847 1.97 REMARK 500 O HOH A 567 O HOH A 969 1.99 REMARK 500 O HOH A 895 O HOH A 931 2.01 REMARK 500 O HOH A 634 O HOH A 913 2.03 REMARK 500 O HOH A 502 O HOH A 972 2.04 REMARK 500 O HOH A 577 O HOH A 811 2.04 REMARK 500 O HOH A 855 O HOH A 939 2.06 REMARK 500 O HOH A 623 O HOH A 886 2.06 REMARK 500 NZ LYS A 51 O HOH A 501 2.07 REMARK 500 O HOH A 777 O HOH A 851 2.09 REMARK 500 O HOH A 609 O HOH A 1037 2.10 REMARK 500 O HOH A 542 O HOH A 675 2.11 REMARK 500 O HOH A 510 O HOH A 515 2.14 REMARK 500 O HOH A 694 O HOH A 975 2.17 REMARK 500 O HOH A 652 O HOH A 796 2.17 REMARK 500 O HOH A 811 O HOH A 841 2.18 REMARK 500 O HOH A 509 O HOH A 510 2.19 REMARK 500 O HOH A 819 O HOH A 990 2.19 REMARK 500 OE2 GLU A 255 O HOH A 502 2.19 REMARK 500 O HOH A 739 O HOH A 1026 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 909 O HOH A 1040 4555 2.03 REMARK 500 O HOH A 902 O HOH A 986 4555 2.07 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 SER A 121 -152.99 -96.17 REMARK 500 PHE A 181 -2.08 83.35 REMARK 500 HIS A 271 67.87 -157.56 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A1049 DISTANCE = 5.90 ANGSTROMS REMARK 525 HOH A1050 DISTANCE = 5.98 ANGSTROMS REMARK 525 HOH A1051 DISTANCE = 6.20 ANGSTROMS REMARK 525 HOH A1052 DISTANCE = 6.45 ANGSTROMS REMARK 525 HOH A1053 DISTANCE = 6.49 ANGSTROMS REMARK 525 HOH A1054 DISTANCE = 6.62 ANGSTROMS REMARK 525 HOH A1055 DISTANCE = 6.92 ANGSTROMS REMARK 525 HOH A1056 DISTANCE = 6.96 ANGSTROMS REMARK 525 HOH A1057 DISTANCE = 7.64 ANGSTROMS REMARK 525 HOH A1058 DISTANCE = 7.79 ANGSTROMS REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 409 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 247 O REMARK 620 2 ASP A 247 OD2 81.7 REMARK 620 3 HOH A 689 O 86.5 80.6 REMARK 620 4 HOH A 874 O 87.9 87.9 167.9 REMARK 620 5 HOH A 877 O 89.1 165.7 88.0 102.6 REMARK 620 6 HOH A 904 O 178.7 99.1 94.6 91.2 90.3 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NAD A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue UDP A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 406 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 407 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 408 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 409 DBREF 6BWL A 1 320 UNP Q3ESA4 Q3ESA4_BACTI 1 320 SEQADV 6BWL LEU A 321 UNP Q3ESA4 EXPRESSION TAG SEQADV 6BWL GLU A 322 UNP Q3ESA4 EXPRESSION TAG SEQADV 6BWL HIS A 323 UNP Q3ESA4 EXPRESSION TAG SEQADV 6BWL HIS A 324 UNP Q3ESA4 EXPRESSION TAG SEQADV 6BWL HIS A 325 UNP Q3ESA4 EXPRESSION TAG SEQADV 6BWL HIS A 326 UNP Q3ESA4 EXPRESSION TAG SEQADV 6BWL HIS A 327 UNP Q3ESA4 EXPRESSION TAG SEQADV 6BWL HIS A 328 UNP Q3ESA4 EXPRESSION TAG SEQRES 1 A 328 MET LYS ILE LEU VAL THR GLY GLY ALA GLY PHE ILE GLY SEQRES 2 A 328 ARG TRP VAL VAL LYS ARG LEU LEU GLN ASP LYS HIS GLU SEQRES 3 A 328 VAL TRP ILE LEU ASP ASN LEU ALA ASN SER THR THR ALA SEQRES 4 A 328 ASN ILE THR GLU PHE ALA HIS ASP LEU ASN LEU LYS GLN SEQRES 5 A 328 CYS ILE GLN GLY ASP ILE LYS ASP LYS LYS LEU VAL ALA SEQRES 6 A 328 GLN LEU PHE GLU ASN ASN SER PHE ASP LEU CYS TYR HIS SEQRES 7 A 328 LEU ALA ALA SER ILE ASN VAL GLN ASP SER ILE ASP ASP SEQRES 8 A 328 ALA ARG ALA THR PHE GLU ASN ASP THR ILE GLY THR PHE SEQRES 9 A 328 ASN LEU LEU GLU GLN CYS LEU ASN TYR ASP VAL LYS MET SEQRES 10 A 328 VAL PHE MET SER THR CYS MET VAL TYR ASP LYS ALA THR SEQRES 11 A 328 ASN ILE GLN GLY ILE SER GLU LEU ASP PRO ILE LYS PRO SEQRES 12 A 328 ALA SER PRO TYR ALA GLY SER LYS ILE ALA ALA GLU ASN SEQRES 13 A 328 MET VAL LEU SER TYR TYR TYR ALA TYR LYS LEU PRO VAL SEQRES 14 A 328 VAL VAL ILE ARG PRO PHE ASN THR TYR GLY PRO PHE GLN SEQRES 15 A 328 LYS THR GLY GLY GLU GLY GLY VAL VAL ALA ILE PHE ILE SEQRES 16 A 328 ASN ASN LYS LEU ASP ASN VAL PRO LEU ASN ILE TYR GLY SEQRES 17 A 328 ASP GLY LYS GLN THR ARG ASP LEU LEU TYR VAL GLU ASP SEQRES 18 A 328 CYS ALA ASP PHE VAL VAL ALA ALA GLY TYR SER ALA LYS SEQRES 19 A 328 ALA ASN GLY HIS ILE ILE ASN ALA GLY THR GLY GLN ASP SEQRES 20 A 328 ILE SER ILE ASN LYS LEU ALA GLU LEU ILE SER GLY ASN SEQRES 21 A 328 LYS VAL SER ILE GLN HIS VAL THR HIS ILE HIS PRO GLN SEQRES 22 A 328 SER GLU ILE GLN LYS LEU LEU CYS ASN TYR GLU LYS ALA SEQRES 23 A 328 LYS THR ILE LEU ASN TRP GLU PRO LYS VAL SER LEU GLU SEQRES 24 A 328 ASP GLY VAL ILE LYS THR GLU GLU TRP ILE LYS SER LEU SEQRES 25 A 328 LYS ILE ASN PRO LYS GLU LYS GLU LEU GLU HIS HIS HIS SEQRES 26 A 328 HIS HIS HIS HET NAD A 401 44 HET UDP A 402 25 HET EDO A 403 4 HET EDO A 404 4 HET EDO A 405 4 HET EDO A 406 4 HET CL A 407 1 HET CL A 408 1 HET NA A 409 1 HETNAM NAD NICOTINAMIDE-ADENINE-DINUCLEOTIDE HETNAM UDP URIDINE-5'-DIPHOSPHATE HETNAM EDO 1,2-ETHANEDIOL HETNAM CL CHLORIDE ION HETNAM NA SODIUM ION HETSYN EDO ETHYLENE GLYCOL FORMUL 2 NAD C21 H27 N7 O14 P2 FORMUL 3 UDP C9 H14 N2 O12 P2 FORMUL 4 EDO 4(C2 H6 O2) FORMUL 8 CL 2(CL 1-) FORMUL 10 NA NA 1+ FORMUL 11 HOH *558(H2 O) HELIX 1 AA1 GLY A 10 ASP A 23 1 14 HELIX 2 AA2 THR A 37 ALA A 45 5 9 HELIX 3 AA3 ASP A 60 ASN A 70 1 11 HELIX 4 AA4 ASN A 84 ASP A 91 1 8 HELIX 5 AA5 ASP A 91 THR A 100 1 10 HELIX 6 AA6 THR A 100 ASP A 114 1 15 HELIX 7 AA7 THR A 122 TYR A 126 5 5 HELIX 8 AA8 SER A 145 LYS A 166 1 22 HELIX 9 AA9 GLY A 189 ASP A 200 1 12 HELIX 10 AB1 VAL A 219 SER A 232 1 14 HELIX 11 AB2 ALA A 233 ASN A 236 5 4 HELIX 12 AB3 ILE A 250 GLY A 259 1 10 HELIX 13 AB4 HIS A 271 GLU A 275 5 5 HELIX 14 AB5 TYR A 283 ASN A 291 1 9 HELIX 15 AB6 SER A 297 LEU A 312 1 16 SHEET 1 AA1 7 LEU A 50 ILE A 54 0 SHEET 2 AA1 7 GLU A 26 LEU A 30 1 N ILE A 29 O ILE A 54 SHEET 3 AA1 7 LYS A 2 THR A 6 1 N VAL A 5 O TRP A 28 SHEET 4 AA1 7 LEU A 75 HIS A 78 1 O TYR A 77 N LEU A 4 SHEET 5 AA1 7 LYS A 116 MET A 120 1 O VAL A 118 N HIS A 78 SHEET 6 AA1 7 VAL A 169 PRO A 174 1 O VAL A 170 N PHE A 119 SHEET 7 AA1 7 ILE A 239 ALA A 242 1 O ILE A 240 N ARG A 173 SHEET 1 AA2 2 THR A 177 TYR A 178 0 SHEET 2 AA2 2 LEU A 217 TYR A 218 1 O LEU A 217 N TYR A 178 SHEET 1 AA3 2 LEU A 204 TYR A 207 0 SHEET 2 AA3 2 ILE A 264 VAL A 267 1 O GLN A 265 N ILE A 206 SHEET 1 AA4 2 THR A 213 ARG A 214 0 SHEET 2 AA4 2 ILE A 248 SER A 249 -1 O ILE A 248 N ARG A 214 LINK O ASP A 247 NA NA A 409 1555 1555 2.48 LINK OD2 ASP A 247 NA NA A 409 1555 1555 2.35 LINK NA NA A 409 O HOH A 689 1555 1555 2.43 LINK NA NA A 409 O HOH A 874 1555 1555 2.48 LINK NA NA A 409 O HOH A 877 1555 1555 2.35 LINK NA NA A 409 O HOH A 904 1555 1555 2.36 SITE 1 AC1 34 GLY A 7 GLY A 10 PHE A 11 ILE A 12 SITE 2 AC1 34 ASP A 31 ASN A 32 LEU A 33 ALA A 34 SITE 3 AC1 34 ASN A 35 SER A 36 GLY A 56 ASP A 57 SITE 4 AC1 34 ILE A 58 LYS A 59 LEU A 79 ALA A 80 SITE 5 AC1 34 ALA A 81 ILE A 83 ASN A 98 MET A 120 SITE 6 AC1 34 SER A 121 TYR A 147 LYS A 151 PRO A 174 SITE 7 AC1 34 ASN A 176 THR A 177 CL A 408 HOH A 541 SITE 8 AC1 34 HOH A 598 HOH A 599 HOH A 649 HOH A 652 SITE 9 AC1 34 HOH A 718 HOH A 796 SITE 1 AC2 19 ASN A 176 GLY A 189 VAL A 190 ASN A 205 SITE 2 AC2 19 ILE A 206 TYR A 207 GLN A 212 ARG A 214 SITE 3 AC2 19 ILE A 250 GLU A 275 HOH A 513 HOH A 514 SITE 4 AC2 19 HOH A 542 HOH A 549 HOH A 568 HOH A 569 SITE 5 AC2 19 HOH A 615 HOH A 673 HOH A 717 SITE 1 AC3 5 GLN A 246 PRO A 294 VAL A 296 HOH A 555 SITE 2 AC3 5 HOH A 823 SITE 1 AC4 6 TYR A 207 GLY A 208 ASP A 209 GLN A 212 SITE 2 AC4 6 HIS A 269 GLN A 277 SITE 1 AC5 7 ARG A 214 ASP A 215 LEU A 216 THR A 244 SITE 2 AC5 7 GLN A 246 ILE A 248 HOH A 532 SITE 1 AC6 6 MET A 1 GLU A 26 GLU A 255 HOH A 522 SITE 2 AC6 6 HOH A 538 HOH A 840 SITE 1 AC7 2 SER A 249 ASN A 251 SITE 1 AC8 4 THR A 122 TYR A 147 NAD A 401 HOH A 800 SITE 1 AC9 5 ASP A 247 HOH A 689 HOH A 874 HOH A 877 SITE 2 AC9 5 HOH A 904 CRYST1 96.420 98.341 98.603 90.00 90.00 90.00 C 2 2 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 0.010371 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010169 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010142 0.00000