HEADER TRANSFERASE 02-AUG-19 6Q0Y TITLE CRYSTAL STRUCTURE OF MURA FROM CLOSTRIDIUM DIFFICILE, MUTANT C116S, IN TITLE 2 THE PRESENCE OF URIDINE-DIPHOSPHATE-N-ACETYLGLUCOSAMINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: UDP-N-ACETYLGLUCOSAMINE 1-CARBOXYVINYLTRANSFERASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: ENOYLPYRUVATE TRANSFERASE,UDP-N-ACETYLGLUCOSAMINE COMPND 5 ENOLPYRUVYL TRANSFERASE,EPT; COMPND 6 EC: 2.5.1.7; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PEPTOCLOSTRIDIUM DIFFICILE (STRAIN 630); SOURCE 3 ORGANISM_TAXID: 272563; SOURCE 4 STRAIN: 630; SOURCE 5 GENE: MURA, CD630_01230; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTA(2) KEYWDS PEPTIDOGLYCAN, ANTIBIOTICS, CLOSTRIDIUM DIFFICILE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR B.J.DOPKINS,C.J.CALL,J.B.THODEN,H.M.HOLDEN REVDAT 3 11-OCT-23 6Q0Y 1 REMARK REVDAT 2 01-JAN-20 6Q0Y 1 REMARK REVDAT 1 27-NOV-19 6Q0Y 0 JRNL AUTH B.J.DOPKINS,C.J.CALL,J.B.THODEN,H.M.HOLDEN JRNL TITL CRYSTAL STRUCTURE OF MURA FROM CLOSTRIDIUM DIFFICILE, MUTANT JRNL TITL 2 C116S, IN THE PRESENCE OF JRNL TITL 3 URIDINE-DIPHOSPHATE-N-ACETYLGLUCOSAMINE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0253 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) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.69 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 46582 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) : 0.174 REMARK 3 R VALUE (WORKING SET) : 0.173 REMARK 3 FREE R VALUE : 0.209 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 2342 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) : 1.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.74 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3460 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.97 REMARK 3 BIN R VALUE (WORKING SET) : 0.3770 REMARK 3 BIN FREE R VALUE SET COUNT : 167 REMARK 3 BIN FREE R VALUE : 0.3770 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3106 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 43 REMARK 3 SOLVENT ATOMS : 315 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.86 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 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): 0.097 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.099 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.078 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.475 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.972 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.959 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3217 ; 0.012 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 3159 ; 0.002 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4363 ; 1.672 ; 1.638 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7333 ; 1.602 ; 1.574 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 422 ; 6.244 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 134 ;38.665 ;23.582 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 575 ;15.716 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;16.562 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 456 ; 0.085 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3549 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 581 ; 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): 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 : 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 U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 6Q0Y COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 05-AUG-19. REMARK 100 THE DEPOSITION ID IS D_1000243415. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-JUN-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7 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) : 0.9981 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 48924 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 18.30 REMARK 200 R MERGE (I) : 0.07800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.73 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 9.40 REMARK 200 R MERGE FOR SHELL (I) : 0.43700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.700 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: 6Q03 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.22 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.47 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10% PEG 8000, 1M NME4CL, 100 MM MOPS, REMARK 280 PH 7, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 Z,X,Y REMARK 290 6555 Z,-X,-Y REMARK 290 7555 -Z,-X,Y REMARK 290 8555 -Z,X,-Y REMARK 290 9555 Y,Z,X REMARK 290 10555 -Y,Z,-X REMARK 290 11555 Y,-Z,-X REMARK 290 12555 -Y,-Z,X REMARK 290 13555 X+1/2,Y+1/2,Z+1/2 REMARK 290 14555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 15555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 16555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 17555 Z+1/2,X+1/2,Y+1/2 REMARK 290 18555 Z+1/2,-X+1/2,-Y+1/2 REMARK 290 19555 -Z+1/2,-X+1/2,Y+1/2 REMARK 290 20555 -Z+1/2,X+1/2,-Y+1/2 REMARK 290 21555 Y+1/2,Z+1/2,X+1/2 REMARK 290 22555 -Y+1/2,Z+1/2,-X+1/2 REMARK 290 23555 Y+1/2,-Z+1/2,-X+1/2 REMARK 290 24555 -Y+1/2,-Z+1/2,X+1/2 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 0.00000 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 0.00000 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 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 6 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 6 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 7 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 9 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 9 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 9 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 10 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 12 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 12 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 12 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 69.32350 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 69.32350 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 69.32350 REMARK 290 SMTRY1 14 -1.000000 0.000000 0.000000 69.32350 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 69.32350 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 69.32350 REMARK 290 SMTRY1 15 -1.000000 0.000000 0.000000 69.32350 REMARK 290 SMTRY2 15 0.000000 1.000000 0.000000 69.32350 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 69.32350 REMARK 290 SMTRY1 16 1.000000 0.000000 0.000000 69.32350 REMARK 290 SMTRY2 16 0.000000 -1.000000 0.000000 69.32350 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 69.32350 REMARK 290 SMTRY1 17 0.000000 0.000000 1.000000 69.32350 REMARK 290 SMTRY2 17 1.000000 0.000000 0.000000 69.32350 REMARK 290 SMTRY3 17 0.000000 1.000000 0.000000 69.32350 REMARK 290 SMTRY1 18 0.000000 0.000000 1.000000 69.32350 REMARK 290 SMTRY2 18 -1.000000 0.000000 0.000000 69.32350 REMARK 290 SMTRY3 18 0.000000 -1.000000 0.000000 69.32350 REMARK 290 SMTRY1 19 0.000000 0.000000 -1.000000 69.32350 REMARK 290 SMTRY2 19 -1.000000 0.000000 0.000000 69.32350 REMARK 290 SMTRY3 19 0.000000 1.000000 0.000000 69.32350 REMARK 290 SMTRY1 20 0.000000 0.000000 -1.000000 69.32350 REMARK 290 SMTRY2 20 1.000000 0.000000 0.000000 69.32350 REMARK 290 SMTRY3 20 0.000000 -1.000000 0.000000 69.32350 REMARK 290 SMTRY1 21 0.000000 1.000000 0.000000 69.32350 REMARK 290 SMTRY2 21 0.000000 0.000000 1.000000 69.32350 REMARK 290 SMTRY3 21 1.000000 0.000000 0.000000 69.32350 REMARK 290 SMTRY1 22 0.000000 -1.000000 0.000000 69.32350 REMARK 290 SMTRY2 22 0.000000 0.000000 1.000000 69.32350 REMARK 290 SMTRY3 22 -1.000000 0.000000 0.000000 69.32350 REMARK 290 SMTRY1 23 0.000000 1.000000 0.000000 69.32350 REMARK 290 SMTRY2 23 0.000000 0.000000 -1.000000 69.32350 REMARK 290 SMTRY3 23 -1.000000 0.000000 0.000000 69.32350 REMARK 290 SMTRY1 24 0.000000 -1.000000 0.000000 69.32350 REMARK 290 SMTRY2 24 0.000000 0.000000 -1.000000 69.32350 REMARK 290 SMTRY3 24 1.000000 0.000000 0.000000 69.32350 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 15460 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 52470 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -22.0 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 -138.64700 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 BIOMT1 3 -1.000000 0.000000 0.000000 -138.64700 REMARK 350 BIOMT2 3 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT1 4 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 4 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 914 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 GLY A -3 REMARK 465 GLY A -2 REMARK 465 GLY A -1 REMARK 465 HIS A 0 REMARK 465 ASP A 417 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 ASN A 329 CG OD1 ND2 REMARK 470 GLU A 416 CG CD OE1 OE2 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 OE1 GLU A 252 O HOH A 601 2.10 REMARK 500 O HOH A 664 O HOH A 736 2.16 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 MET A 91 107.13 -160.38 REMARK 500 LYS A 150 143.19 -170.20 REMARK 500 ASN A 329 64.17 -107.54 REMARK 500 ARG A 330 45.64 -108.51 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 EDO A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue UD1 A 502 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6Q03 RELATED DB: PDB REMARK 900 RELATED ID: 6Q0A RELATED DB: PDB DBREF 6Q0Y A 1 417 UNP Q18CL1 Q18CL1_PEPD6 7 423 SEQADV 6Q0Y GLY A -3 UNP Q18CL1 EXPRESSION TAG SEQADV 6Q0Y GLY A -2 UNP Q18CL1 EXPRESSION TAG SEQADV 6Q0Y GLY A -1 UNP Q18CL1 EXPRESSION TAG SEQADV 6Q0Y HIS A 0 UNP Q18CL1 EXPRESSION TAG SEQADV 6Q0Y SER A 116 UNP Q18CL1 CYS 122 ENGINEERED MUTATION SEQRES 1 A 421 GLY GLY GLY HIS MET ALA LYS ILE ILE VAL LYS LYS SER SEQRES 2 A 421 ASN PRO LEU LYS GLY SER VAL LYS ILE ASP GLY ALA LYS SEQRES 3 A 421 ASN ALA VAL LEU PRO ILE ILE ALA ALA THR LEU LEU ALA SEQRES 4 A 421 ASN GLY LYS SER THR LEU ASN GLY VAL PRO ASN LEU ARG SEQRES 5 A 421 ASP VAL HIS VAL ILE SER ASP LEU LEU ARG HIS VAL GLY SEQRES 6 A 421 ALA GLU VAL GLU TYR LYS GLU ASN THR LEU THR VAL ASP SEQRES 7 A 421 ALA SER ASN ILE LYS THR CYS GLU ALA PRO TYR GLU LEU SEQRES 8 A 421 VAL ARG LYS MET ARG ALA SER PHE LEU VAL MET GLY PRO SEQRES 9 A 421 LEU LEU ALA ARG PHE ASN SER THR LYS ILE SER MET PRO SEQRES 10 A 421 GLY GLY SER ALA ILE GLY THR ARG PRO ILE ASP LEU HIS SEQRES 11 A 421 LEU LYS GLY PHE LYS ALA LEU GLY ALA LYS ILE GLU MET SEQRES 12 A 421 ASP HIS GLY PHE VAL GLU ALA ALA THR GLU LYS LEU VAL SEQRES 13 A 421 GLY ASN LYS LEU TYR LEU ASP PHE PRO SER VAL GLY ALA SEQRES 14 A 421 THR GLU ASN ILE MET MET ALA ALA SER LEU ALA GLU GLY SEQRES 15 A 421 THR THR ILE ILE GLU ASN ALA ALA GLU GLU PRO GLU ILE SEQRES 16 A 421 VAL ASP LEU ALA ASN PHE LEU ASN GLU MET GLY ALA ASP SEQRES 17 A 421 VAL LYS GLY ALA GLY THR ASN THR ILE LYS ILE LYS GLY SEQRES 18 A 421 VAL LYS GLU LEU LYS GLY ALA GLU HIS ASN VAL ILE PRO SEQRES 19 A 421 ASP ARG ILE GLU ALA ALA THR TYR MET VAL ALA ALA ALA SEQRES 20 A 421 MET THR LYS GLY ASP ILE THR VAL GLU ASN VAL LEU MET SEQRES 21 A 421 GLU HIS LEU LYS PRO VAL VAL ALA LYS LEU ARG GLU ALA SEQRES 22 A 421 GLY CYS GLU ILE THR GLU MET ASP ASN SER VAL ARG VAL SEQRES 23 A 421 VAL GLY PRO LYS VAL LEU LYS PRO ILE ASP ILE LYS THR SEQRES 24 A 421 LEU PRO HIS PRO GLY PHE PRO THR ASP VAL GLN ALA GLN SEQRES 25 A 421 PHE MET ALA MET LEU THR VAL ALA ASN GLY THR GLY VAL SEQRES 26 A 421 VAL ILE GLU THR VAL PHE GLU ASN ARG PHE MET HIS VAL SEQRES 27 A 421 ALA GLU PHE ASN ARG MET GLY ALA ASN ILE LYS ILE ASP SEQRES 28 A 421 GLY ARG SER ALA VAL VAL ASN GLY VAL ASP GLU LEU HIS SEQRES 29 A 421 GLY ALA ALA VAL ASN ALA THR ASP LEU ARG ALA GLY ALA SEQRES 30 A 421 ALA LEU ILE LEU CYS GLY LEU ILE ALA GLU GLY GLU THR SEQRES 31 A 421 GLN ILE GLY GLU ILE TYR HIS ILE GLN ARG GLY TYR VAL SEQRES 32 A 421 ASP ILE ASP LYS LYS ILE THR ALA LEU GLY GLY GLN ILE SEQRES 33 A 421 GLU ILE VAL GLU ASP HET EDO A 501 4 HET UD1 A 502 39 HETNAM EDO 1,2-ETHANEDIOL HETNAM UD1 URIDINE-DIPHOSPHATE-N-ACETYLGLUCOSAMINE HETSYN EDO ETHYLENE GLYCOL FORMUL 2 EDO C2 H6 O2 FORMUL 3 UD1 C17 H27 N3 O17 P2 FORMUL 4 HOH *315(H2 O) HELIX 1 AA1 ALA A 21 THR A 32 1 12 HELIX 2 AA2 LEU A 33 ALA A 35 5 3 HELIX 3 AA3 LEU A 47 GLY A 61 1 15 HELIX 4 AA4 PRO A 84 MET A 91 1 8 HELIX 5 AA5 ARG A 92 LEU A 96 5 5 HELIX 6 AA6 VAL A 97 ASN A 106 1 10 HELIX 7 AA7 ILE A 123 LEU A 133 1 11 HELIX 8 AA8 SER A 162 SER A 174 1 13 HELIX 9 AA9 GLU A 188 MET A 201 1 14 HELIX 10 AB1 ASP A 231 LYS A 246 1 16 HELIX 11 AB2 LEU A 255 HIS A 258 5 4 HELIX 12 AB3 LEU A 259 ALA A 269 1 11 HELIX 13 AB4 PRO A 302 ASP A 304 5 3 HELIX 14 AB5 VAL A 305 THR A 314 1 10 HELIX 15 AB6 HIS A 333 MET A 340 1 8 HELIX 16 AB7 ASP A 368 ALA A 382 1 15 HELIX 17 AB8 ILE A 391 ARG A 396 1 6 HELIX 18 AB9 ASP A 400 LEU A 408 1 9 SHEET 1 AA1 4 ALA A 363 ASN A 365 0 SHEET 2 AA1 4 GLU A 385 GLY A 389 1 O GLY A 389 N VAL A 364 SHEET 3 AA1 4 LYS A 3 LYS A 7 -1 N VAL A 6 O THR A 386 SHEET 4 AA1 4 GLN A 411 VAL A 415 -1 O VAL A 415 N LYS A 3 SHEET 1 AA2 4 LYS A 13 LYS A 17 0 SHEET 2 AA2 4 ASP A 248 GLU A 252 1 O GLU A 252 N VAL A 16 SHEET 3 AA2 4 SER A 279 VAL A 283 -1 O VAL A 280 N VAL A 251 SHEET 4 AA2 4 GLU A 272 GLU A 275 -1 N THR A 274 O ARG A 281 SHEET 1 AA3 4 GLU A 63 LYS A 67 0 SHEET 2 AA3 4 THR A 70 ASP A 74 -1 O THR A 70 N LYS A 67 SHEET 3 AA3 4 LYS A 38 ASN A 42 -1 N SER A 39 O VAL A 73 SHEET 4 AA3 4 GLU A 225 ASN A 227 1 O HIS A 226 N ASN A 42 SHEET 1 AA4 4 GLU A 82 ALA A 83 0 SHEET 2 AA4 4 SER A 107 SER A 111 1 O SER A 111 N ALA A 83 SHEET 3 AA4 4 PHE A 143 ALA A 147 -1 O VAL A 144 N ILE A 110 SHEET 4 AA4 4 LYS A 136 ASP A 140 -1 N LYS A 136 O ALA A 147 SHEET 1 AA5 4 LYS A 155 TYR A 157 0 SHEET 2 AA5 4 THR A 179 GLU A 183 1 O GLU A 183 N LEU A 156 SHEET 3 AA5 4 THR A 212 LYS A 216 -1 O ILE A 213 N ILE A 182 SHEET 4 AA5 4 VAL A 205 LYS A 206 -1 N LYS A 206 O LYS A 214 SHEET 1 AA6 4 ILE A 293 THR A 295 0 SHEET 2 AA6 4 THR A 319 GLU A 324 1 O ILE A 323 N THR A 295 SHEET 3 AA6 4 SER A 350 ASN A 354 -1 O VAL A 353 N GLY A 320 SHEET 4 AA6 4 ILE A 344 ASP A 347 -1 N LYS A 345 O VAL A 352 CISPEP 1 HIS A 298 PRO A 299 0 7.73 SITE 1 AC1 6 ARG A 92 ARG A 121 HIS A 126 GLY A 164 SITE 2 AC1 6 UD1 A 502 HOH A 730 SITE 1 AC2 29 ASN A 23 THR A 120 ARG A 121 PRO A 122 SITE 2 AC2 29 ILE A 123 ASP A 124 LEU A 125 HIS A 126 SITE 3 AC2 29 PHE A 160 SER A 162 VAL A 163 GLY A 164 SITE 4 AC2 29 ASP A 304 VAL A 326 PHE A 327 ARG A 330 SITE 5 AC2 29 EDO A 501 HOH A 603 HOH A 645 HOH A 664 SITE 6 AC2 29 HOH A 665 HOH A 683 HOH A 691 HOH A 701 SITE 7 AC2 29 HOH A 716 HOH A 730 HOH A 736 HOH A 744 SITE 8 AC2 29 HOH A 802 CRYST1 138.647 138.647 138.647 90.00 90.00 90.00 I 2 3 24 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 0.007213 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007213 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007213 0.00000