HEADER TRANSFERASE 14-MAY-07 2V0J TITLE CHARACTERIZATION OF SUBSTRATE BINDING AND CATALYSIS OF THE POTENTIAL TITLE 2 ANTIBACTERIAL TARGET N-ACETYLGLUCOSAMINE-1-PHOSPHATE TITLE 3 URIDYLTRANSFERASE (GLMU) COMPND MOL_ID: 1; COMPND 2 MOLECULE: BIFUNCTIONAL PROTEIN GLMU; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: GLMU FROM HAEMOPHILIS INFLUENZAE; COMPND 5 EC: 2.-.-.- SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HAEMOPHILUS INFLUENZAE; SOURCE 3 ORGANISM_TAXID: 727 KEYWDS GLMU, CELL WALL, MAGNESIUM, CELL SHAPE, TRANSFERASE, PEPTIDOGLYCAN KEYWDS 2 SYNTHESIS, ASSOCIATIVE MECHANISM, MULTIFUNCTIONAL ENZYME, KEYWDS 3 NUCLEOTIDYLTRANSFERASE, URIDYLATION, METAL-BINDING, ACYLTRANSFERASE, KEYWDS 4 CATALYTIC MECHANISM EXPDTA X-RAY DIFFRACTION AUTHOR I.MOCHALKIN,S.LIGHTLE,J.F.OHREN,N.Y.CHIRGADZE REVDAT 3 13-DEC-23 2V0J 1 LINK REVDAT 2 24-FEB-09 2V0J 1 VERSN REVDAT 1 15-JAN-08 2V0J 0 JRNL AUTH I.MOCHALKIN,S.LIGHTLE,Y.ZHU,J.F.OHREN,C.SPESSARD, JRNL AUTH 2 N.Y.CHIRGADZE,C.BANOTAI,M.MELNICK,L.MCDOWELL JRNL TITL CHARACTERIZATION OF SUBSTRATE BINDING AND CATALYSIS IN THE JRNL TITL 2 POTENTIAL ANTIBACTERIAL TARGET JRNL TITL 3 N-ACETYLGLUCOSAMINE-1-PHOSPHATE URIDYLTRANSFERASE (GLMU). JRNL REF PROTEIN SCI. V. 16 2657 2007 JRNL REFN ISSN 0961-8368 JRNL PMID 18029420 JRNL DOI 10.1110/PS.073135107 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 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) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 89.5 REMARK 3 NUMBER OF REFLECTIONS : 42985 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) : 0.199 REMARK 3 R VALUE (WORKING SET) : 0.197 REMARK 3 FREE R VALUE : 0.223 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2307 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) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3163 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.1980 REMARK 3 BIN FREE R VALUE SET COUNT : 163 REMARK 3 BIN FREE R VALUE : 0.2430 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3406 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 86 REMARK 3 SOLVENT ATOMS : 361 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.11 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.63000 REMARK 3 B22 (A**2) : 0.63000 REMARK 3 B33 (A**2) : -0.94000 REMARK 3 B12 (A**2) : 0.31000 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): 0.156 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.141 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.084 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.482 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.954 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.946 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3548 ; 0.009 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 3246 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4802 ; 1.234 ; 1.974 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7574 ; 1.065 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 448 ; 5.914 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 159 ;33.908 ;25.849 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 609 ;13.016 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 16 ;17.427 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 554 ; 0.071 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3920 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 628 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 590 ; 0.203 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 3069 ; 0.177 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1703 ; 0.161 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1970 ; 0.081 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 246 ; 0.143 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 21 ; 0.194 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 127 ; 0.238 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 39 ; 0.158 ; 0.200 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): 2883 ; 0.916 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3564 ; 1.104 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1507 ; 0.986 ; 2.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1238 ; 1.408 ; 3.000 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 2V0J COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 14-MAY-07. REMARK 100 THE DEPOSITION ID IS D_1290032565. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-NOV-03 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 17-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 45786 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 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 (%) : 90.2 REMARK 200 DATA REDUNDANCY : 4.900 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 23.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.07 REMARK 200 COMPLETENESS FOR SHELL (%) : 91.3 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.30000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: HKL-2000 REMARK 200 STARTING MODEL: PDB ENTRY 2VOI REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 63.85 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.43 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 6.0 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-X+Y,-Z REMARK 290 7555 X+2/3,Y+1/3,Z+1/3 REMARK 290 8555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 9555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 10555 Y+2/3,X+1/3,-Z+1/3 REMARK 290 11555 X-Y+2/3,-Y+1/3,-Z+1/3 REMARK 290 12555 -X+2/3,-X+Y+1/3,-Z+1/3 REMARK 290 13555 X+1/3,Y+2/3,Z+2/3 REMARK 290 14555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 15555 -X+Y+1/3,-X+2/3,Z+2/3 REMARK 290 16555 Y+1/3,X+2/3,-Z+2/3 REMARK 290 17555 X-Y+1/3,-Y+2/3,-Z+2/3 REMARK 290 18555 -X+1/3,-X+Y+2/3,-Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 54.36000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 31.38476 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 108.91800 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 54.36000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 31.38476 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 108.91800 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 54.36000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 31.38476 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 108.91800 REMARK 290 SMTRY1 10 -0.500000 0.866025 0.000000 54.36000 REMARK 290 SMTRY2 10 0.866025 0.500000 0.000000 31.38476 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 108.91800 REMARK 290 SMTRY1 11 1.000000 0.000000 0.000000 54.36000 REMARK 290 SMTRY2 11 0.000000 -1.000000 0.000000 31.38476 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 108.91800 REMARK 290 SMTRY1 12 -0.500000 -0.866025 0.000000 54.36000 REMARK 290 SMTRY2 12 -0.866025 0.500000 0.000000 31.38476 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 108.91800 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 62.76952 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 217.83600 REMARK 290 SMTRY1 14 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 14 0.866025 -0.500000 0.000000 62.76952 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 217.83600 REMARK 290 SMTRY1 15 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 15 -0.866025 -0.500000 0.000000 62.76952 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 217.83600 REMARK 290 SMTRY1 16 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 16 0.866025 0.500000 0.000000 62.76952 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 217.83600 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 -1.000000 0.000000 62.76952 REMARK 290 SMTRY3 17 0.000000 0.000000 -1.000000 217.83600 REMARK 290 SMTRY1 18 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 18 -0.866025 0.500000 0.000000 62.76952 REMARK 290 SMTRY3 18 0.000000 0.000000 -1.000000 217.83600 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 TOTAL BURIED SURFACE AREA: 15820 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 64970 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -60.6 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 -0.500000 -0.866025 0.000000 108.72000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 54.36000 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 94.15428 REMARK 350 BIOMT3 3 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 MG MG A1454 LIES ON A SPECIAL POSITION. REMARK 375 MG MG A1455 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 MET A 1 REMARK 465 THR A 2 REMARK 465 LYS A 3 REMARK 465 ILE A 453 REMARK 465 LYS A 454 REMARK 465 LYS A 455 REMARK 465 LYS A 456 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 2182 O HOH A 2201 2.17 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 ALA A 12 20.72 -140.90 REMARK 500 ASN A 124 18.62 55.65 REMARK 500 ASN A 391 141.74 36.27 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 A2061 DISTANCE = 6.62 ANGSTROMS REMARK 525 HOH A2109 DISTANCE = 6.10 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 MG A1454 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 406 OD2 REMARK 620 2 ASP A 406 OD2 97.1 REMARK 620 3 ASP A 406 OD2 97.0 97.0 REMARK 620 4 HOH A2310 O 85.7 174.7 87.2 REMARK 620 5 HOH A2310 O 87.3 85.7 174.6 89.8 REMARK 620 6 HOH A2310 O 174.6 87.3 85.6 89.8 89.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A1455 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 406 OD1 REMARK 620 2 ASP A 406 OD1 97.1 REMARK 620 3 ASP A 406 OD1 96.9 97.0 REMARK 620 4 HOH A2309 O 171.2 91.7 83.2 REMARK 620 5 HOH A2309 O 83.2 171.5 91.4 87.9 REMARK 620 6 HOH A2309 O 91.7 83.5 171.3 88.1 88.1 REMARK 620 N 1 2 3 4 5 REMARK 700 REMARK 700 SHEET REMARK 700 THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN REMARK 700 ORDER TO REPRESENT THIS FEATURE IN THE SHEET RECORDS BELOW, REMARK 700 TWO SHEETS ARE DEFINED. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE H2U A1453 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A1454 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A1455 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PG4 A1456 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PGE A1457 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PGE A1458 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A1459 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A1460 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A1461 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A1462 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A1463 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A1464 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2V0H RELATED DB: PDB REMARK 900 CHARACTERIZATION OF SUBSTRATE BINDING AND CATALYSIS OF THE REMARK 900 POTENTIAL ANTIBACTERIAL TARGET N-ACETYLGLUCOSAMINE-1-PHOSPHATE REMARK 900 URIDYLTRANSFERASE (GLMU) REMARK 900 RELATED ID: 2V0I RELATED DB: PDB REMARK 900 CHARACTERIZATION OF SUBSTRATE BINDING AND CATALYSIS OF THE REMARK 900 POTENTIAL ANTIBACTERIAL TARGET N-ACETYLGLUCOSAMINE-1-PHOSPHATE REMARK 900 URIDYLTRANSFERASE (GLMU) REMARK 900 RELATED ID: 2V0K RELATED DB: PDB REMARK 900 CHARACTERIZATION OF SUBSTRATE BINDING AND CATALYSIS OF THE REMARK 900 POTENTIAL ANTIBACTERIAL TARGET N-ACETYLGLUCOSAMINE-1-PHOSPHATE REMARK 900 URIDYLTRANSFERASE (GLMU) REMARK 900 RELATED ID: 2V0L RELATED DB: PDB REMARK 900 CHARACTERIZATION OF SUBSTRATE BINDING AND CATALYSIS OF THE REMARK 900 POTENTIAL ANTIBACTERIAL TARGET N-ACETYLGLUCOSAMINE-1-PHOSPHATE REMARK 900 URIDYLTRANSFERASE (GLMU) DBREF 2V0J A 1 456 UNP P43889 GLMU_HAEIN 1 456 SEQRES 1 A 456 MET THR LYS LYS ALA LEU SER ALA VAL ILE LEU ALA ALA SEQRES 2 A 456 GLY LYS GLY THR ARG MET TYR SER ASP LEU PRO LYS VAL SEQRES 3 A 456 LEU HIS THR ILE ALA GLY LYS PRO MET VAL LYS HIS VAL SEQRES 4 A 456 ILE ASP THR ALA HIS GLN LEU GLY SER GLU ASN ILE HIS SEQRES 5 A 456 LEU ILE TYR GLY HIS GLY GLY ASP LEU MET ARG THR HIS SEQRES 6 A 456 LEU ALA ASN GLU GLN VAL ASN TRP VAL LEU GLN THR GLU SEQRES 7 A 456 GLN LEU GLY THR ALA HIS ALA VAL GLN GLN ALA ALA PRO SEQRES 8 A 456 PHE PHE LYS ASP ASN GLU ASN ILE VAL VAL LEU TYR GLY SEQRES 9 A 456 ASP ALA PRO LEU ILE THR LYS GLU THR LEU GLU LYS LEU SEQRES 10 A 456 ILE GLU ALA LYS PRO GLU ASN GLY ILE ALA LEU LEU THR SEQRES 11 A 456 VAL ASN LEU ASP ASN PRO THR GLY TYR GLY ARG ILE ILE SEQRES 12 A 456 ARG GLU ASN GLY ASN VAL VAL ALA ILE VAL GLU GLN LYS SEQRES 13 A 456 ASP ALA ASN ALA GLU GLN LEU ASN ILE LYS GLU VAL ASN SEQRES 14 A 456 THR GLY VAL MET VAL SER ASP GLY ALA SER PHE LYS LYS SEQRES 15 A 456 TRP LEU ALA ARG VAL GLY ASN ASN ASN ALA GLN GLY GLU SEQRES 16 A 456 TYR TYR LEU THR ASP LEU ILE ALA LEU ALA ASN GLN ASP SEQRES 17 A 456 ASN CYS GLN VAL VAL ALA VAL GLN ALA THR ASP VAL MET SEQRES 18 A 456 GLU VAL GLU GLY ALA ASN ASN ARG LEU GLN LEU ALA ALA SEQRES 19 A 456 LEU GLU ARG TYR PHE GLN ASN LYS GLN ALA SER LYS LEU SEQRES 20 A 456 LEU LEU GLU GLY VAL MET ILE TYR ASP PRO ALA ARG PHE SEQRES 21 A 456 ASP LEU ARG GLY THR LEU GLU HIS GLY LYS ASP VAL GLU SEQRES 22 A 456 ILE ASP VAL ASN VAL ILE ILE GLU GLY ASN VAL LYS LEU SEQRES 23 A 456 GLY ASP ARG VAL LYS ILE GLY THR GLY CYS VAL LEU LYS SEQRES 24 A 456 ASN VAL VAL ILE GLY ASN ASP VAL GLU ILE LYS PRO TYR SEQRES 25 A 456 SER VAL LEU GLU ASP SER ILE VAL GLY GLU LYS ALA ALA SEQRES 26 A 456 ILE GLY PRO PHE SER ARG LEU ARG PRO GLY ALA GLU LEU SEQRES 27 A 456 ALA ALA GLU THR HIS VAL GLY ASN PHE VAL GLU ILE LYS SEQRES 28 A 456 LYS SER THR VAL GLY LYS GLY SER LYS VAL ASN HIS LEU SEQRES 29 A 456 THR TYR VAL GLY ASP SER GLU ILE GLY SER ASN CYS ASN SEQRES 30 A 456 ILE GLY ALA GLY VAL ILE THR CYS ASN TYR ASP GLY ALA SEQRES 31 A 456 ASN LYS PHE LYS THR ILE ILE GLY ASP ASP VAL PHE VAL SEQRES 32 A 456 GLY SER ASP THR GLN LEU VAL ALA PRO VAL LYS VAL ALA SEQRES 33 A 456 ASN GLY ALA THR ILE GLY ALA GLY THR THR ILE THR ARG SEQRES 34 A 456 ASP VAL GLY GLU ASN GLU LEU VAL ILE THR ARG VAL ALA SEQRES 35 A 456 GLN ARG HIS ILE GLN GLY TRP GLN ARG PRO ILE LYS LYS SEQRES 36 A 456 LYS HET H2U A1453 21 HET MG A1454 1 HET MG A1455 1 HET PG4 A1456 13 HET PGE A1457 10 HET PGE A1458 10 HET SO4 A1459 5 HET SO4 A1460 5 HET SO4 A1461 5 HET SO4 A1462 5 HET SO4 A1463 5 HET SO4 A1464 5 HETNAM H2U 5,6-DIHYDROURIDINE-5'-MONOPHOSPHATE HETNAM MG MAGNESIUM ION HETNAM PG4 TETRAETHYLENE GLYCOL HETNAM PGE TRIETHYLENE GLYCOL HETNAM SO4 SULFATE ION FORMUL 2 H2U C9 H15 N2 O9 P FORMUL 3 MG 2(MG 2+) FORMUL 5 PG4 C8 H18 O5 FORMUL 6 PGE 2(C6 H14 O4) FORMUL 8 SO4 6(O4 S 2-) FORMUL 14 HOH *361(H2 O) HELIX 1 1 GLY A 16 TYR A 20 5 5 HELIX 2 2 PRO A 24 LEU A 27 5 4 HELIX 3 3 MET A 35 LEU A 46 1 12 HELIX 4 4 GLY A 58 LEU A 66 1 9 HELIX 5 5 GLY A 81 ALA A 90 1 10 HELIX 6 6 PRO A 91 PHE A 93 5 3 HELIX 7 7 THR A 110 LYS A 121 1 12 HELIX 8 8 ASN A 159 ASN A 164 1 6 HELIX 9 9 GLY A 177 ALA A 185 1 9 HELIX 10 10 TYR A 197 THR A 199 5 3 HELIX 11 11 ASP A 200 ASP A 208 1 9 HELIX 12 12 ASP A 219 GLU A 224 5 6 HELIX 13 13 ASN A 228 GLU A 250 1 23 HELIX 14 14 ASP A 256 ALA A 258 5 3 SHEET 1 AA 7 ASN A 72 LEU A 75 0 SHEET 2 AA 7 ILE A 51 TYR A 55 1 O ILE A 51 N ASN A 72 SHEET 3 AA 7 LEU A 6 LEU A 11 1 O ALA A 8 N HIS A 52 SHEET 4 AA 7 ASN A 98 TYR A 103 1 O ASN A 98 N SER A 7 SHEET 5 AA 7 GLU A 167 ASP A 176 -1 O MET A 173 N VAL A 101 SHEET 6 AA 7 ILE A 126 ASN A 132 -1 O ALA A 127 N VAL A 174 SHEET 7 AA 7 VAL A 212 GLN A 216 1 O VAL A 213 N LEU A 128 SHEET 1 AB 2 THR A 29 ILE A 30 0 SHEET 2 AB 2 LYS A 33 PRO A 34 -1 O LYS A 33 N ILE A 30 SHEET 1 AC 2 ARG A 141 GLU A 145 0 SHEET 2 AC 2 ASN A 148 VAL A 153 -1 O ASN A 148 N GLU A 145 SHEET 1 AD 8 MET A 253 ILE A 254 0 SHEET 2 AD 8 GLU A 273 ILE A 274 1 N ILE A 274 O MET A 253 SHEET 3 AD 8 LYS A 291 ILE A 292 1 N ILE A 292 O GLU A 273 SHEET 4 AD 8 GLU A 308 ILE A 309 1 N ILE A 309 O LYS A 291 SHEET 5 AD 8 ALA A 325 ILE A 326 1 N ILE A 326 O GLU A 308 SHEET 6 AD 8 HIS A 343 LYS A 351 1 N VAL A 344 O ALA A 325 SHEET 7 AD 8 SER A 330 LEU A 332 1 O ARG A 331 N ILE A 350 SHEET 8 AD 8 VAL A 314 VAL A 320 1 O VAL A 314 N LEU A 332 SHEET 1 AE11 MET A 253 ILE A 254 0 SHEET 2 AE11 GLU A 273 ILE A 274 1 N ILE A 274 O MET A 253 SHEET 3 AE11 LYS A 291 ILE A 292 1 N ILE A 292 O GLU A 273 SHEET 4 AE11 GLU A 308 ILE A 309 1 N ILE A 309 O LYS A 291 SHEET 5 AE11 ALA A 325 ILE A 326 1 N ILE A 326 O GLU A 308 SHEET 6 AE11 HIS A 343 LYS A 351 1 N VAL A 344 O ALA A 325 SHEET 7 AE11 LYS A 360 GLY A 368 1 O VAL A 361 N GLY A 345 SHEET 8 AE11 ASN A 377 ILE A 378 1 O ILE A 378 N ASN A 362 SHEET 9 AE11 PHE A 402 VAL A 403 1 N VAL A 403 O ASN A 377 SHEET 10 AE11 THR A 420 ILE A 421 1 N ILE A 421 O PHE A 402 SHEET 11 AE11 LEU A 436 VAL A 437 1 N VAL A 437 O THR A 420 SHEET 1 AF 3 ILE A 383 ASN A 386 0 SHEET 2 AF 3 GLN A 408 ALA A 411 1 O LEU A 409 N CYS A 385 SHEET 3 AF 3 THR A 426 ILE A 427 1 O ILE A 427 N VAL A 410 LINK OD2 ASP A 406 MG MG A1454 1555 1555 2.11 LINK OD2 ASP A 406 MG MG A1454 2655 1555 2.11 LINK OD2 ASP A 406 MG MG A1454 3665 1555 2.11 LINK OD1 ASP A 406 MG MG A1455 2655 1555 2.10 LINK OD1 ASP A 406 MG MG A1455 3665 1555 2.10 LINK OD1 ASP A 406 MG MG A1455 1555 1555 2.10 LINK MG MG A1454 O HOH A2310 1555 1555 2.17 LINK MG MG A1454 O HOH A2310 1555 2655 2.17 LINK MG MG A1454 O HOH A2310 1555 3665 2.17 LINK MG MG A1455 O HOH A2309 1555 1555 2.08 LINK MG MG A1455 O HOH A2309 1555 2655 2.08 LINK MG MG A1455 O HOH A2309 1555 3665 2.07 CISPEP 1 GLY A 327 PRO A 328 0 -0.74 CISPEP 2 ALA A 411 PRO A 412 0 -2.16 SITE 1 AC1 14 LEU A 11 ALA A 13 GLY A 14 LYS A 25 SITE 2 AC1 14 GLN A 76 GLN A 79 LEU A 80 GLY A 81 SITE 3 AC1 14 THR A 82 TYR A 103 ASP A 105 HOH A2348 SITE 4 AC1 14 HOH A2349 HOH A2350 SITE 1 AC2 2 ASP A 406 HOH A2310 SITE 1 AC3 2 ASP A 406 HOH A2309 SITE 1 AC4 9 ASN A 72 PHE A 92 ASN A 386 ASP A 388 SITE 2 AC4 9 PHE A 402 ALA A 423 HOH A2318 HOH A2351 SITE 3 AC4 9 HOH A2352 SITE 1 AC5 7 ASP A 157 ASN A 159 GLN A 162 ASN A 189 SITE 2 AC5 7 ASN A 191 ALA A 192 GLY A 194 SITE 1 AC6 8 GLU A 49 GLN A 70 VAL A 71 ASN A 72 SITE 2 AC6 8 TYR A 387 PRO A 412 HOH A2041 HOH A2353 SITE 1 AC7 7 LYS A 360 ASN A 362 HIS A 363 LYS A 392 SITE 2 AC7 7 HOH A2256 HOH A2286 HOH A2354 SITE 1 AC8 7 ASN A 377 ARG A 451 HOH A2284 HOH A2285 SITE 2 AC8 7 HOH A2296 HOH A2355 HOH A2356 SITE 1 AC9 4 ARG A 331 ARG A 333 PRO A 334 HOH A2357 SITE 1 BC1 5 GLY A 14 LYS A 15 GLY A 16 THR A 17 SITE 2 BC1 5 HOH A2358 SITE 1 BC2 2 HIS A 57 GLN A 79 SITE 1 BC3 4 HIS A 57 GLY A 58 HOH A2360 HOH A2361 CRYST1 108.720 108.720 326.754 90.00 90.00 120.00 H 3 2 18 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 0.009198 0.005310 0.000000 0.00000 SCALE2 0.000000 0.010621 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003060 0.00000