HEADER LYASE 22-SEP-08 3ELC TITLE CRYSTAL STRUCTURE OF 2C-METHYL-D-ERYTHRITOL 2,4-CLYCODIPHOSPHATE TITLE 2 SYNTHASE COMPLEXED WITH LIGAND COMPND MOL_ID: 1; COMPND 2 MOLECULE: 2-C-METHYL-D-ERYTHRITOL 2,4-CYCLODIPHOSPHATE SYNTHASE; COMPND 3 CHAIN: A, B, C; COMPND 4 SYNONYM: MECPS, MECDP-SYNTHASE; COMPND 5 EC: 4.6.1.12; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI K-12; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K12; SOURCE 5 GENE: ISPF; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET15B KEYWDS MECDP-SYNTHASE, ISOPRENE BIOSYNTHESIS, LYASE, MAGNESIUM, MANGANESE, KEYWDS 2 METAL-BINDING EXPDTA X-RAY DIFFRACTION AUTHOR W.N.HUNTER,N.L.RAMSDEN,V.ULAGANATHAN REVDAT 3 01-NOV-23 3ELC 1 REMARK SEQADV REVDAT 2 25-OCT-17 3ELC 1 REMARK REVDAT 1 25-AUG-09 3ELC 0 JRNL AUTH N.L.RAMSDEN,L.BUETOW,A.DAWSON,L.A.KEMP,V.ULAGANATHAN, JRNL AUTH 2 R.BRENK,G.KLEBE,W.N.HUNTER JRNL TITL A STRUCTURE-BASED APPROACH TO LIGAND DISCOVERY FOR JRNL TITL 2 2C-METHYL-D-ERYTHRITOL-2,4-CYCLODIPHOSPHATE SYNTHASE: A JRNL TITL 3 TARGET FOR ANTIMICROBIAL THERAPY JRNL REF J.MED.CHEM. V. 52 2531 2009 JRNL REFN ISSN 0022-2623 JRNL PMID 19320487 JRNL DOI 10.1021/JM801475N REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.200 REMARK 3 COMPLETENESS FOR RANGE (%) : 91.8 REMARK 3 NUMBER OF REFLECTIONS : 15127 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) : 0.213 REMARK 3 R VALUE (WORKING SET) : 0.208 REMARK 3 FREE R VALUE : 0.291 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 814 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) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.57 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1033 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 83.37 REMARK 3 BIN R VALUE (WORKING SET) : 0.2820 REMARK 3 BIN FREE R VALUE SET COUNT : 45 REMARK 3 BIN FREE R VALUE : 0.4320 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3525 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 76 REMARK 3 SOLVENT ATOMS : 113 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 48.54 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 7.45000 REMARK 3 B22 (A**2) : -3.00000 REMARK 3 B33 (A**2) : -4.75000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.88000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 1.648 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.375 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.286 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 12.945 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.945 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.886 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3637 ; 0.012 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4939 ; 1.378 ; 1.993 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 474 ; 5.776 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 142 ;36.257 ;23.380 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 569 ;18.536 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 24 ;18.384 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 566 ; 0.085 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2734 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1718 ; 0.221 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2478 ; 0.303 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 193 ; 0.156 ; 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): 24 ; 0.215 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 1 ; 0.093 ; 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): 2385 ; 0.687 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3680 ; 1.086 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1404 ; 1.347 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1256 ; 2.182 ; 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 : BABINET MODEL WITH MASK 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: THE FILE CONTAINS FRIEDEL PAIRS. REMARK 4 REMARK 4 3ELC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 30-SEP-08. REMARK 100 THE DEPOSITION ID IS D_1000049466. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-MAR-03 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV++ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM, DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 15989 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.200 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 47.6 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.57 REMARK 200 COMPLETENESS FOR SHELL (%) : 91.4 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: 1GX1 REMARK 200 REMARK 200 REMARK: THE FILE CONTAINS FRIEDEL PAIRS. REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.20 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.37 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10% GLYCEROL, MAGNESIUM SULPHATE, 20% REMARK 280 PEG 4000, PH 5.6, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 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+1/2,Y+1/2,Z REMARK 290 4555 -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 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 52.33800 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 27.41650 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 52.33800 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 27.41650 REMARK 290 SMTRY3 4 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7100 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17520 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -136.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 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 -5 REMARK 465 SER A -4 REMARK 465 HIS A -3 REMARK 465 MET A -2 REMARK 465 LEU A -1 REMARK 465 ALA A 157 REMARK 465 THR A 158 REMARK 465 LYS A 159 REMARK 465 GLY B -5 REMARK 465 SER B -4 REMARK 465 HIS B -3 REMARK 465 MET B -2 REMARK 465 LEU B -1 REMARK 465 ALA B 157 REMARK 465 THR B 158 REMARK 465 LYS B 159 REMARK 465 GLY C -5 REMARK 465 SER C -4 REMARK 465 HIS C -3 REMARK 465 MET C -2 REMARK 465 LEU C -1 REMARK 465 ALA C 157 REMARK 465 THR C 158 REMARK 465 LYS C 159 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 GLU A 15 CG CD OE1 OE2 REMARK 480 GLU A 28 CG CD OE1 OE2 REMARK 480 LYS A 29 CG CD CE NZ REMARK 480 HIS A 34 CG ND1 CD2 CE1 NE2 REMARK 480 LYS A 69 CG CD CE NZ REMARK 480 LYS A 156 CG CD CE NZ REMARK 480 GLU B 15 CG CD OE1 OE2 REMARK 480 GLU B 28 CG CD OE1 OE2 REMARK 480 HIS B 34 CG ND1 CD2 CE1 NE2 REMARK 480 LYS B 69 CG CD CE NZ REMARK 480 GLU C 15 CG CD OE1 OE2 REMARK 480 GLU C 28 CG CD OE1 OE2 REMARK 480 LYS C 69 CG CD CE NZ 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 PRO B 62 C - N - CD ANGL. DEV. = -16.5 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 ASP A 38 91.40 -62.61 REMARK 500 LYS A 136 -5.47 78.23 REMARK 500 SER B 35 -159.72 -161.55 REMARK 500 ASP B 63 21.86 -74.70 REMARK 500 THR B 64 -61.16 -120.26 REMARK 500 ASP B 65 129.91 -39.80 REMARK 500 LYS B 136 4.68 88.46 REMARK 500 PRO C 26 132.64 -38.40 REMARK 500 ASP C 63 -17.88 -48.28 REMARK 500 REMARK 500 REMARK: NULL 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 ZN A 801 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 8 OD2 REMARK 620 2 HIS A 10 NE2 113.0 REMARK 620 3 HIS A 42 ND1 78.5 110.2 REMARK 620 4 HIS A 42 ND1 83.2 148.4 44.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 802 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 10 NE2 REMARK 620 2 HIS B 42 ND1 102.2 REMARK 620 3 HIS B 42 ND1 155.0 54.1 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN C 803 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS C 10 NE2 REMARK 620 2 HIS C 42 ND1 118.6 REMARK 620 3 HIS C 42 ND1 167.8 50.4 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE F01 A 901 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 802 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE F01 B 902 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN C 803 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE F01 C 903 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GPP C 904 DBREF 3ELC A 1 159 UNP P62617 ISPF_ECOLI 1 159 DBREF 3ELC B 1 159 UNP P62617 ISPF_ECOLI 1 159 DBREF 3ELC C 1 159 UNP P62617 ISPF_ECOLI 1 159 SEQADV 3ELC GLY A -5 UNP P62617 EXPRESSION TAG SEQADV 3ELC SER A -4 UNP P62617 EXPRESSION TAG SEQADV 3ELC HIS A -3 UNP P62617 EXPRESSION TAG SEQADV 3ELC MET A -2 UNP P62617 EXPRESSION TAG SEQADV 3ELC LEU A -1 UNP P62617 EXPRESSION TAG SEQADV 3ELC GLU A 0 UNP P62617 EXPRESSION TAG SEQADV 3ELC GLY B -5 UNP P62617 EXPRESSION TAG SEQADV 3ELC SER B -4 UNP P62617 EXPRESSION TAG SEQADV 3ELC HIS B -3 UNP P62617 EXPRESSION TAG SEQADV 3ELC MET B -2 UNP P62617 EXPRESSION TAG SEQADV 3ELC LEU B -1 UNP P62617 EXPRESSION TAG SEQADV 3ELC GLU B 0 UNP P62617 EXPRESSION TAG SEQADV 3ELC GLY C -5 UNP P62617 EXPRESSION TAG SEQADV 3ELC SER C -4 UNP P62617 EXPRESSION TAG SEQADV 3ELC HIS C -3 UNP P62617 EXPRESSION TAG SEQADV 3ELC MET C -2 UNP P62617 EXPRESSION TAG SEQADV 3ELC LEU C -1 UNP P62617 EXPRESSION TAG SEQADV 3ELC GLU C 0 UNP P62617 EXPRESSION TAG SEQRES 1 A 165 GLY SER HIS MET LEU GLU MET ARG ILE GLY HIS GLY PHE SEQRES 2 A 165 ASP VAL HIS ALA PHE GLY GLY GLU GLY PRO ILE ILE ILE SEQRES 3 A 165 GLY GLY VAL ARG ILE PRO TYR GLU LYS GLY LEU LEU ALA SEQRES 4 A 165 HIS SER ASP GLY ASP VAL ALA LEU HIS ALA LEU THR ASP SEQRES 5 A 165 ALA LEU LEU GLY ALA ALA ALA LEU GLY ASP ILE GLY LYS SEQRES 6 A 165 LEU PHE PRO ASP THR ASP PRO ALA PHE LYS GLY ALA ASP SEQRES 7 A 165 SER ARG GLU LEU LEU ARG GLU ALA TRP ARG ARG ILE GLN SEQRES 8 A 165 ALA LYS GLY TYR THR LEU GLY ASN VAL ASP VAL THR ILE SEQRES 9 A 165 ILE ALA GLN ALA PRO LYS MET LEU PRO HIS ILE PRO GLN SEQRES 10 A 165 MET ARG VAL PHE ILE ALA GLU ASP LEU GLY CYS HIS MET SEQRES 11 A 165 ASP ASP VAL ASN VAL LYS ALA THR THR THR GLU LYS LEU SEQRES 12 A 165 GLY PHE THR GLY ARG GLY GLU GLY ILE ALA CYS GLU ALA SEQRES 13 A 165 VAL ALA LEU LEU ILE LYS ALA THR LYS SEQRES 1 B 165 GLY SER HIS MET LEU GLU MET ARG ILE GLY HIS GLY PHE SEQRES 2 B 165 ASP VAL HIS ALA PHE GLY GLY GLU GLY PRO ILE ILE ILE SEQRES 3 B 165 GLY GLY VAL ARG ILE PRO TYR GLU LYS GLY LEU LEU ALA SEQRES 4 B 165 HIS SER ASP GLY ASP VAL ALA LEU HIS ALA LEU THR ASP SEQRES 5 B 165 ALA LEU LEU GLY ALA ALA ALA LEU GLY ASP ILE GLY LYS SEQRES 6 B 165 LEU PHE PRO ASP THR ASP PRO ALA PHE LYS GLY ALA ASP SEQRES 7 B 165 SER ARG GLU LEU LEU ARG GLU ALA TRP ARG ARG ILE GLN SEQRES 8 B 165 ALA LYS GLY TYR THR LEU GLY ASN VAL ASP VAL THR ILE SEQRES 9 B 165 ILE ALA GLN ALA PRO LYS MET LEU PRO HIS ILE PRO GLN SEQRES 10 B 165 MET ARG VAL PHE ILE ALA GLU ASP LEU GLY CYS HIS MET SEQRES 11 B 165 ASP ASP VAL ASN VAL LYS ALA THR THR THR GLU LYS LEU SEQRES 12 B 165 GLY PHE THR GLY ARG GLY GLU GLY ILE ALA CYS GLU ALA SEQRES 13 B 165 VAL ALA LEU LEU ILE LYS ALA THR LYS SEQRES 1 C 165 GLY SER HIS MET LEU GLU MET ARG ILE GLY HIS GLY PHE SEQRES 2 C 165 ASP VAL HIS ALA PHE GLY GLY GLU GLY PRO ILE ILE ILE SEQRES 3 C 165 GLY GLY VAL ARG ILE PRO TYR GLU LYS GLY LEU LEU ALA SEQRES 4 C 165 HIS SER ASP GLY ASP VAL ALA LEU HIS ALA LEU THR ASP SEQRES 5 C 165 ALA LEU LEU GLY ALA ALA ALA LEU GLY ASP ILE GLY LYS SEQRES 6 C 165 LEU PHE PRO ASP THR ASP PRO ALA PHE LYS GLY ALA ASP SEQRES 7 C 165 SER ARG GLU LEU LEU ARG GLU ALA TRP ARG ARG ILE GLN SEQRES 8 C 165 ALA LYS GLY TYR THR LEU GLY ASN VAL ASP VAL THR ILE SEQRES 9 C 165 ILE ALA GLN ALA PRO LYS MET LEU PRO HIS ILE PRO GLN SEQRES 10 C 165 MET ARG VAL PHE ILE ALA GLU ASP LEU GLY CYS HIS MET SEQRES 11 C 165 ASP ASP VAL ASN VAL LYS ALA THR THR THR GLU LYS LEU SEQRES 12 C 165 GLY PHE THR GLY ARG GLY GLU GLY ILE ALA CYS GLU ALA SEQRES 13 C 165 VAL ALA LEU LEU ILE LYS ALA THR LYS HET ZN A 801 1 HET F01 A 901 18 HET ZN B 802 1 HET F01 B 902 18 HET ZN C 803 1 HET F01 C 903 18 HET GPP C 904 19 HETNAM ZN ZINC ION HETNAM F01 4-AMINO-1-[(2R,3R,4S,5R)-3,4-DIHYDROXY-5- HETNAM 2 F01 (HYDROXYMETHYL)OXOLAN-2-YL]-5-FLUORO-PYRIMIDIN-2-ONE HETNAM GPP GERANYL DIPHOSPHATE HETSYN F01 4-AMINO-5-FLUORO-1-((2R,3S,4R,5R)-TETRAHYDRO-3,4- HETSYN 2 F01 DIHYDROXY-5-(HYDROXYMETHYL)FURAN-2-YL)PYRIMIDIN-2(1H)- HETSYN 3 F01 ONE FORMUL 4 ZN 3(ZN 2+) FORMUL 5 F01 3(C9 H12 F N3 O5) FORMUL 10 GPP C10 H20 O7 P2 FORMUL 11 HOH *113(H2 O) HELIX 1 1 ASP A 38 ALA A 52 1 15 HELIX 2 2 ASP A 56 PHE A 61 1 6 HELIX 3 3 ASP A 65 LYS A 69 5 5 HELIX 4 4 ASP A 72 LYS A 87 1 16 HELIX 5 5 HIS A 108 LEU A 120 1 13 HELIX 6 6 HIS A 123 ASP A 125 5 3 HELIX 7 7 LEU A 137 ARG A 142 1 6 HELIX 8 8 ASP B 38 ALA B 52 1 15 HELIX 9 9 ASP B 56 PHE B 61 1 6 HELIX 10 10 ASP B 72 LYS B 87 1 16 HELIX 11 11 MET B 105 PRO B 107 5 3 HELIX 12 12 HIS B 108 LEU B 120 1 13 HELIX 13 13 HIS B 123 ASP B 125 5 3 HELIX 14 14 LEU B 137 ARG B 142 1 6 HELIX 15 15 ASP C 38 ALA C 52 1 15 HELIX 16 16 ASP C 56 PHE C 61 1 6 HELIX 17 17 ASP C 72 ALA C 86 1 15 HELIX 18 18 MET C 105 PRO C 107 5 3 HELIX 19 19 HIS C 108 GLY C 121 1 14 HELIX 20 20 HIS C 123 ASP C 125 5 3 HELIX 21 21 LEU C 137 ARG C 142 1 6 SHEET 1 A 5 LEU A 31 LEU A 32 0 SHEET 2 A 5 MET A 1 PHE A 12 -1 N ALA A 11 O LEU A 32 SHEET 3 A 5 GLY A 145 ILE A 155 -1 O ALA A 150 N GLY A 6 SHEET 4 A 5 THR A 90 ILE A 99 -1 N ASP A 95 O VAL A 151 SHEET 5 A 5 VAL A 127 THR A 132 1 O LYS A 130 N VAL A 96 SHEET 1 B 2 ILE A 18 ILE A 20 0 SHEET 2 B 2 VAL A 23 ILE A 25 -1 O ILE A 25 N ILE A 18 SHEET 1 C 5 LYS B 29 LEU B 31 0 SHEET 2 C 5 MET B 1 GLU B 15 -1 N GLY B 13 O GLY B 30 SHEET 3 C 5 GLY B 145 ILE B 155 -1 O LEU B 154 N ARG B 2 SHEET 4 C 5 THR B 90 ILE B 99 -1 N THR B 97 O GLU B 149 SHEET 5 C 5 VAL B 127 THR B 132 1 O LYS B 130 N ILE B 98 SHEET 1 D 2 ILE B 18 ILE B 20 0 SHEET 2 D 2 VAL B 23 ILE B 25 -1 O ILE B 25 N ILE B 18 SHEET 1 E 5 LYS C 29 LEU C 31 0 SHEET 2 E 5 MET C 1 GLU C 15 -1 N GLY C 13 O GLY C 30 SHEET 3 E 5 GLY C 145 ILE C 155 -1 O ALA C 150 N GLY C 6 SHEET 4 E 5 THR C 90 ILE C 99 -1 N THR C 97 O GLU C 149 SHEET 5 E 5 VAL C 127 THR C 132 1 O LYS C 130 N ILE C 98 SHEET 1 F 2 ILE C 18 ILE C 20 0 SHEET 2 F 2 VAL C 23 ILE C 25 -1 O ILE C 25 N ILE C 18 LINK OD2 ASP A 8 ZN ZN A 801 1555 1555 2.30 LINK NE2 HIS A 10 ZN ZN A 801 1555 1555 2.23 LINK ND1AHIS A 42 ZN ZN A 801 1555 1555 2.32 LINK ND1BHIS A 42 ZN ZN A 801 1555 1555 2.22 LINK NE2 HIS B 10 ZN ZN B 802 1555 1555 2.22 LINK ND1AHIS B 42 ZN ZN B 802 1555 1555 2.40 LINK ND1BHIS B 42 ZN ZN B 802 1555 1555 2.20 LINK NE2 HIS C 10 ZN ZN C 803 1555 1555 2.22 LINK ND1AHIS C 42 ZN ZN C 803 1555 1555 2.28 LINK ND1BHIS C 42 ZN ZN C 803 1555 1555 2.22 CISPEP 1 GLY A 16 PRO A 17 0 17.88 CISPEP 2 ALA A 102 PRO A 103 0 -1.56 CISPEP 3 GLY B 16 PRO B 17 0 10.79 CISPEP 4 ALA B 102 PRO B 103 0 -6.27 CISPEP 5 GLY C 16 PRO C 17 0 5.37 CISPEP 6 ALA C 102 PRO C 103 0 5.73 SITE 1 AC1 3 ASP A 8 HIS A 10 HIS A 42 SITE 1 AC2 10 ALA A 100 PRO A 103 LYS A 104 MET A 105 SITE 2 AC2 10 LEU A 106 ALA A 131 THR A 132 THR A 133 SITE 3 AC2 10 ASP C 56 GLY C 58 SITE 1 AC3 3 ASP B 8 HIS B 10 HIS B 42 SITE 1 AC4 11 ASP A 56 GLY A 58 ALA B 100 PRO B 103 SITE 2 AC4 11 LYS B 104 MET B 105 LEU B 106 ALA B 131 SITE 3 AC4 11 THR B 132 THR B 133 HOH B 929 SITE 1 AC5 3 ASP C 8 HIS C 10 HIS C 42 SITE 1 AC6 10 ASP B 56 GLY B 58 ALA C 100 PRO C 103 SITE 2 AC6 10 LYS C 104 MET C 105 LEU C 106 ALA C 131 SITE 3 AC6 10 THR C 132 THR C 133 SITE 1 AC7 11 GLY A 138 PHE A 139 ARG A 142 GLY B 138 SITE 2 AC7 11 PHE B 139 ARG B 142 THR C 134 GLY C 138 SITE 3 AC7 11 PHE C 139 ARG C 142 HOH C 928 CRYST1 104.676 54.833 88.506 90.00 99.66 90.00 C 1 2 1 12 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 0.009553 0.000000 0.001626 0.00000 SCALE2 0.000000 0.018237 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011461 0.00000