HEADER OXIDOREDUCTASE 30-DEC-12 3ZHX TITLE STRUCTURE OF MYCOBACTERIUM TUBERCULOSIS DXR IN COMPLEX WITH TITLE 2 A FOSMIDOMYCIN ANALOGUE COMPND MOL_ID: 1; COMPND 2 MOLECULE: 1-DEOXY-D-XYLULOSE 5-PHOSPHATE REDUCTOISOMERASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: DXP REDUCTOISOMERASE, 1-DEOXYXYLULOSE-5-PHOSPHATE COMPND 5 REDUCTOISOMERASE, 2-C-METHYL-D-ERYTHRITOL 4-PHOSPHATE SYNTHASE; COMPND 6 EC: 1.1.1.267; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM TUBERCULOSIS; SOURCE 3 ORGANISM_TAXID: 83332; SOURCE 4 STRAIN: H37RV; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VARIANT: STAR; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_VECTOR: PET101D-TOPO KEYWDS OXIDOREDUCTASE, RV2870C, DOXP/MEP PATHWAY, ISPC EXPDTA X-RAY DIFFRACTION AUTHOR C.BJORKELID,A.M.JANSSON,T.BERGFORS,T.UNGE,S.L.MOWBRAY,T.A.JONES REVDAT 1 09-OCT-13 3ZHX 0 JRNL AUTH A.M.JANSSON,A.WIECKOWSKA,C.BJORKELID,S.YAHIAOUI, JRNL AUTH 2 S.SOORIYAARACHCHI,M.LINDH,T.BERGFORS,S.DHARAVATH,M.DESROSES, JRNL AUTH 3 S.SURESH,M.ANDALOUSSI,R.NIKHIL,S.SREEVALLI,B.R.SRINIVASA, JRNL AUTH 4 M.LARHED,T.A.JONES,A.KARLEN,S.L.MOWBRAY JRNL TITL DXR INHIBITION BY POTENT MONO- AND DISUBSTITUTED JRNL TITL 2 FOSMIDOMYCIN ANALOGUES. JRNL REF J.MED.CHEM. V. 56 6190 2013 JRNL REFN ISSN 0022-2623 JRNL PMID 23819803 JRNL DOI 10.1021/JM4006498 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH L.M.HENRIKSSON,C.BJORKELID,S.L.MOWBRAY,T.UNGE REMARK 1 TITL THE 1.9 A RESOLUTION STRUCTURE OF MYCOBACTERIUM REMARK 1 TITL 2 TUBERCULOSIS 1-DEOXY-D-XYLULOSE 5-PHOSPHATE REMARK 1 TITL 3 REDUCTOISOMERASE, A POTENTIAL DRUG TARGET. REMARK 1 REF ACTA CRYSTALLOGR.,SECT.D V. 62 807 2006 REMARK 1 REFN ISSN 0907-4449 REMARK 1 PMID 16790937 REMARK 1 DOI 10.1107/S0907444906019196 REMARK 1 REFERENCE 2 REMARK 1 AUTH L.M.HENRIKSSON,T.UNGE,J.CARLSSON,J.AQVIST,S.L.MOWBRAY, REMARK 1 AUTH 2 T.A.JONES REMARK 1 TITL STRUCTURES OF MYCOBACTERIUM TUBERCULOSIS REMARK 1 TITL 2 1-DEOXY-D-XYLULOSE- 5-PHOSPHATE REDUCTOISOMERASE PROVIDE REMARK 1 TITL 3 NEW INSIGHTS INTO CATALYSIS. REMARK 1 REF J.BIOL.CHEM. V. 282 19905 2007 REMARK 1 REFN ISSN 0021-9258 REMARK 1 PMID 17491006 REMARK 1 DOI 10.1074/JBC.M701935200 REMARK 1 REFERENCE 3 REMARK 1 AUTH M.ANDALOUSSI,L.M.HENRIKSSON,A.WIECKOWSKA,M.LINDH, REMARK 1 AUTH 2 C.BJORKELID,A.M.LARSSON,S.SURESH,H.IYER,B.R.SRINIVASA, REMARK 1 AUTH 3 T.BERGFORS,T.UNGE,S.L.MOWBRAY,M.LARHED,T.A.JONES,A.KARLEN REMARK 1 TITL DESIGN, SYNTHESIS, AND X-RAY CRYSTALLOGRAPHIC STUDIES OF REMARK 1 TITL 2 ALPHA-ARYL SUBSTITUTED FOSMIDOMYCIN ANALOGUES AS INHIBITORS REMARK 1 TITL 3 OF MYCOBACTERIUM TUBERCULOSIS 1-DEOXY-D-XYLULOSE REMARK 1 TITL 4 5-PHOSPHATE REDUCTOISOMERASE. REMARK 1 REF J.MED.CHEM. V. 54 4964 2011 REMARK 1 REFN ISSN 0022-2623 REMARK 1 PMID 21678907 REMARK 1 DOI 10.1021/JM2000085 REMARK 1 REFERENCE 4 REMARK 1 AUTH C.BJORKELID,T.BERGFORS,T.UNGE,S.L.MOWBRAY,T.A.JONES REMARK 1 TITL STRUCTURAL STUDIES ON MYCOBACTERIUM TUBERCULOSIS DXR IN REMARK 1 TITL 2 COMPLEX WITH THE ANTIBIOTIC FR-900098. REMARK 1 REF ACTA CRYSTALLOGR.,SECT.D V. 68 134 2012 REMARK 1 REFN ISSN 0907-4449 REMARK 1 PMID 22281742 REMARK 1 DOI 10.1107/S0907444911052231 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0060 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON 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) : 80.51 REMARK 3 DATA CUTOFF (SIGMA(F)) : NONE REMARK 3 COMPLETENESS FOR RANGE (%) : 99.89 REMARK 3 NUMBER OF REFLECTIONS : 47714 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) : 0.18627 REMARK 3 R VALUE (WORKING SET) : 0.18394 REMARK 3 FREE R VALUE : 0.23043 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.1 REMARK 3 FREE R VALUE TEST SET COUNT : 2551 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) : 2.000 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.052 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3496 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.51 REMARK 3 BIN R VALUE (WORKING SET) : 0.257 REMARK 3 BIN FREE R VALUE SET COUNT : 189 REMARK 3 BIN FREE R VALUE : 0.330 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5506 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 27 REMARK 3 SOLVENT ATOMS : 531 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.762 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.76 REMARK 3 B22 (A**2) : 0.94 REMARK 3 B33 (A**2) : -0.82 REMARK 3 B12 (A**2) : 0.00 REMARK 3 B13 (A**2) : -1.03 REMARK 3 B23 (A**2) : 0.00 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.190 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.167 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.113 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.044 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.948 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.922 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5643 ; 0.009 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7696 ; 1.155 ; 1.956 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 748 ; 5.254 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 228 ;34.622 ;23.684 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 833 ;13.973 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 44 ;18.371 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 907 ; 0.072 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4308 ; 0.005 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 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 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED 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 : 1.20 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 REMARK 3 RIDING POSITIONS. HYDROGENS HAVE BEEN USED IF PRESENT IN THE INPUT. REMARK 3 U VALUES REFINED INDIVIDUALLY REMARK 4 REMARK 4 3ZHX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 02-MAY-12. REMARK 100 THE PDBE ID CODE IS EBI-52348. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-FEB-10 REMARK 200 TEMPERATURE (KELVIN) : 110 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9330 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD (QUANTUM 4) REMARK 200 DETECTOR MANUFACTURER : ADSC REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 50282 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.00 REMARK 200 RESOLUTION RANGE LOW (A) : 30.93 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.3 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 3.7 REMARK 200 R MERGE (I) : 0.10 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.60 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) : 2.11 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.6 REMARK 200 DATA REDUNDANCY IN SHELL : 3.6 REMARK 200 R MERGE FOR SHELL (I) : 0.54 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.30 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: NULL REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.56 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.26 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 33.49500 REMARK 290 SMTRY3 2 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: 3610 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28940 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -21.2 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 -7 REMARK 465 ALA A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 HIS A -1 REMARK 465 HIS A 0 REMARK 465 VAL A 1 REMARK 465 THR A 2 REMARK 465 ASN A 3 REMARK 465 SER A 4 REMARK 465 THR A 5 REMARK 465 ASP A 6 REMARK 465 GLY A 7 REMARK 465 ARG A 8 REMARK 465 ALA A 9 REMARK 465 ASP A 10 REMARK 465 HIS A 200 REMARK 465 PRO A 201 REMARK 465 THR A 202 REMARK 465 TRP A 203 REMARK 465 SER A 204 REMARK 465 MET A 205 REMARK 465 GLY A 206 REMARK 465 MET B -7 REMARK 465 ALA B -6 REMARK 465 HIS B -5 REMARK 465 HIS B -4 REMARK 465 HIS B -3 REMARK 465 HIS B -2 REMARK 465 HIS B -1 REMARK 465 HIS B 0 REMARK 465 VAL B 1 REMARK 465 THR B 2 REMARK 465 ASN B 3 REMARK 465 SER B 4 REMARK 465 THR B 5 REMARK 465 ASP B 6 REMARK 465 GLY B 7 REMARK 465 ARG B 8 REMARK 465 ALA B 9 REMARK 465 ASP B 10 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 OD2 ASP A 151 MN MN A 401 2.16 REMARK 500 OE1 GLU A 153 MN MN A 401 2.14 REMARK 500 OE2 GLU A 222 MN MN A 401 2.14 REMARK 500 OD1 ASP B 151 MN MN B 401 2.19 REMARK 500 OE1 GLU B 153 MN MN B 401 2.16 REMARK 500 OE2 GLU B 222 MN MN B 401 2.15 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 HIS A 50 59.46 -111.50 REMARK 500 SER A 249 171.18 163.74 REMARK 500 ASP A 266 109.31 -169.91 REMARK 500 THR B 202 132.25 173.19 REMARK 500 SER B 249 172.37 169.74 REMARK 500 ASP B 266 109.39 -174.09 REMARK 500 PHE B 306 74.49 -119.88 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 MN A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FM6 A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN B 401 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3ZHY RELATED DB: PDB REMARK 900 STRUCTURE OF MYCOBACTERIUM TUBERCULOSIS DXR IN COMPLEX REMARK 900 WITH A DI-SUBSTITUTED FOSMIDOMYCIN ANALOGUE REMARK 900 RELATED ID: 3ZHZ RELATED DB: PDB REMARK 900 STRUCTURE OF MYCOBACTERIUM TUBERCULOSIS DXR IN COMPLEX REMARK 900 WITH A FOSMIDOMYCIN ANALOGUE REMARK 900 RELATED ID: 3ZI0 RELATED DB: PDB REMARK 900 STRUCTURE OF MYCOBACTERIUM TUBERCULOSIS DXR IN COMPLEX REMARK 900 WITH A FOSMIDOMYCIN ANALOGUE DBREF 3ZHX A 2 389 UNP P64012 DXR_MYCTU 2 389 DBREF 3ZHX B 2 389 UNP P64012 DXR_MYCTU 2 389 SEQADV 3ZHX MET A -7 UNP P64012 EXPRESSION TAG SEQADV 3ZHX ALA A -6 UNP P64012 EXPRESSION TAG SEQADV 3ZHX HIS A -5 UNP P64012 EXPRESSION TAG SEQADV 3ZHX HIS A -4 UNP P64012 EXPRESSION TAG SEQADV 3ZHX HIS A -3 UNP P64012 EXPRESSION TAG SEQADV 3ZHX HIS A -2 UNP P64012 EXPRESSION TAG SEQADV 3ZHX HIS A -1 UNP P64012 EXPRESSION TAG SEQADV 3ZHX HIS A 0 UNP P64012 EXPRESSION TAG SEQADV 3ZHX VAL A 1 UNP P64012 EXPRESSION TAG SEQADV 3ZHX MET B -7 UNP P64012 EXPRESSION TAG SEQADV 3ZHX ALA B -6 UNP P64012 EXPRESSION TAG SEQADV 3ZHX HIS B -5 UNP P64012 EXPRESSION TAG SEQADV 3ZHX HIS B -4 UNP P64012 EXPRESSION TAG SEQADV 3ZHX HIS B -3 UNP P64012 EXPRESSION TAG SEQADV 3ZHX HIS B -2 UNP P64012 EXPRESSION TAG SEQADV 3ZHX HIS B -1 UNP P64012 EXPRESSION TAG SEQADV 3ZHX HIS B 0 UNP P64012 EXPRESSION TAG SEQADV 3ZHX VAL B 1 UNP P64012 EXPRESSION TAG SEQRES 1 A 397 MET ALA HIS HIS HIS HIS HIS HIS VAL THR ASN SER THR SEQRES 2 A 397 ASP GLY ARG ALA ASP GLY ARG LEU ARG VAL VAL VAL LEU SEQRES 3 A 397 GLY SER THR GLY SER ILE GLY THR GLN ALA LEU GLN VAL SEQRES 4 A 397 ILE ALA ASP ASN PRO ASP ARG PHE GLU VAL VAL GLY LEU SEQRES 5 A 397 ALA ALA GLY GLY ALA HIS LEU ASP THR LEU LEU ARG GLN SEQRES 6 A 397 ARG ALA GLN THR GLY VAL THR ASN ILE ALA VAL ALA ASP SEQRES 7 A 397 GLU HIS ALA ALA GLN ARG VAL GLY ASP ILE PRO TYR HIS SEQRES 8 A 397 GLY SER ASP ALA ALA THR ARG LEU VAL GLU GLN THR GLU SEQRES 9 A 397 ALA ASP VAL VAL LEU ASN ALA LEU VAL GLY ALA LEU GLY SEQRES 10 A 397 LEU ARG PRO THR LEU ALA ALA LEU LYS THR GLY ALA ARG SEQRES 11 A 397 LEU ALA LEU ALA ASN LYS GLU SER LEU VAL ALA GLY GLY SEQRES 12 A 397 SER LEU VAL LEU ARG ALA ALA ARG PRO GLY GLN ILE VAL SEQRES 13 A 397 PRO VAL ASP SER GLU HIS SER ALA LEU ALA GLN CYS LEU SEQRES 14 A 397 ARG GLY GLY THR PRO ASP GLU VAL ALA LYS LEU VAL LEU SEQRES 15 A 397 THR ALA SER GLY GLY PRO PHE ARG GLY TRP SER ALA ALA SEQRES 16 A 397 ASP LEU GLU HIS VAL THR PRO GLU GLN ALA GLY ALA HIS SEQRES 17 A 397 PRO THR TRP SER MET GLY PRO MET ASN THR LEU ASN SER SEQRES 18 A 397 ALA SER LEU VAL ASN LYS GLY LEU GLU VAL ILE GLU THR SEQRES 19 A 397 HIS LEU LEU PHE GLY ILE PRO TYR ASP ARG ILE ASP VAL SEQRES 20 A 397 VAL VAL HIS PRO GLN SER ILE ILE HIS SER MET VAL THR SEQRES 21 A 397 PHE ILE ASP GLY SER THR ILE ALA GLN ALA SER PRO PRO SEQRES 22 A 397 ASP MET LYS LEU PRO ILE SER LEU ALA LEU GLY TRP PRO SEQRES 23 A 397 ARG ARG VAL SER GLY ALA ALA ALA ALA CYS ASP PHE HIS SEQRES 24 A 397 THR ALA SER SER TRP GLU PHE GLU PRO LEU ASP THR ASP SEQRES 25 A 397 VAL PHE PRO ALA VAL GLU LEU ALA ARG GLN ALA GLY VAL SEQRES 26 A 397 ALA GLY GLY CYS MET THR ALA VAL TYR ASN ALA ALA ASN SEQRES 27 A 397 GLU GLU ALA ALA ALA ALA PHE LEU ALA GLY ARG ILE GLY SEQRES 28 A 397 PHE PRO ALA ILE VAL GLY ILE ILE ALA ASP VAL LEU HIS SEQRES 29 A 397 ALA ALA ASP GLN TRP ALA VAL GLU PRO ALA THR VAL ASP SEQRES 30 A 397 ASP VAL LEU ASP ALA GLN ARG TRP ALA ARG GLU ARG ALA SEQRES 31 A 397 GLN ARG ALA VAL SER GLY MET SEQRES 1 B 397 MET ALA HIS HIS HIS HIS HIS HIS VAL THR ASN SER THR SEQRES 2 B 397 ASP GLY ARG ALA ASP GLY ARG LEU ARG VAL VAL VAL LEU SEQRES 3 B 397 GLY SER THR GLY SER ILE GLY THR GLN ALA LEU GLN VAL SEQRES 4 B 397 ILE ALA ASP ASN PRO ASP ARG PHE GLU VAL VAL GLY LEU SEQRES 5 B 397 ALA ALA GLY GLY ALA HIS LEU ASP THR LEU LEU ARG GLN SEQRES 6 B 397 ARG ALA GLN THR GLY VAL THR ASN ILE ALA VAL ALA ASP SEQRES 7 B 397 GLU HIS ALA ALA GLN ARG VAL GLY ASP ILE PRO TYR HIS SEQRES 8 B 397 GLY SER ASP ALA ALA THR ARG LEU VAL GLU GLN THR GLU SEQRES 9 B 397 ALA ASP VAL VAL LEU ASN ALA LEU VAL GLY ALA LEU GLY SEQRES 10 B 397 LEU ARG PRO THR LEU ALA ALA LEU LYS THR GLY ALA ARG SEQRES 11 B 397 LEU ALA LEU ALA ASN LYS GLU SER LEU VAL ALA GLY GLY SEQRES 12 B 397 SER LEU VAL LEU ARG ALA ALA ARG PRO GLY GLN ILE VAL SEQRES 13 B 397 PRO VAL ASP SER GLU HIS SER ALA LEU ALA GLN CYS LEU SEQRES 14 B 397 ARG GLY GLY THR PRO ASP GLU VAL ALA LYS LEU VAL LEU SEQRES 15 B 397 THR ALA SER GLY GLY PRO PHE ARG GLY TRP SER ALA ALA SEQRES 16 B 397 ASP LEU GLU HIS VAL THR PRO GLU GLN ALA GLY ALA HIS SEQRES 17 B 397 PRO THR TRP SER MET GLY PRO MET ASN THR LEU ASN SER SEQRES 18 B 397 ALA SER LEU VAL ASN LYS GLY LEU GLU VAL ILE GLU THR SEQRES 19 B 397 HIS LEU LEU PHE GLY ILE PRO TYR ASP ARG ILE ASP VAL SEQRES 20 B 397 VAL VAL HIS PRO GLN SER ILE ILE HIS SER MET VAL THR SEQRES 21 B 397 PHE ILE ASP GLY SER THR ILE ALA GLN ALA SER PRO PRO SEQRES 22 B 397 ASP MET LYS LEU PRO ILE SER LEU ALA LEU GLY TRP PRO SEQRES 23 B 397 ARG ARG VAL SER GLY ALA ALA ALA ALA CYS ASP PHE HIS SEQRES 24 B 397 THR ALA SER SER TRP GLU PHE GLU PRO LEU ASP THR ASP SEQRES 25 B 397 VAL PHE PRO ALA VAL GLU LEU ALA ARG GLN ALA GLY VAL SEQRES 26 B 397 ALA GLY GLY CYS MET THR ALA VAL TYR ASN ALA ALA ASN SEQRES 27 B 397 GLU GLU ALA ALA ALA ALA PHE LEU ALA GLY ARG ILE GLY SEQRES 28 B 397 PHE PRO ALA ILE VAL GLY ILE ILE ALA ASP VAL LEU HIS SEQRES 29 B 397 ALA ALA ASP GLN TRP ALA VAL GLU PRO ALA THR VAL ASP SEQRES 30 B 397 ASP VAL LEU ASP ALA GLN ARG TRP ALA ARG GLU ARG ALA SEQRES 31 B 397 GLN ARG ALA VAL SER GLY MET HET MN A 401 1 HET FM6 A 501 25 HET MN B 401 1 HETNAM MN MANGANESE (II) ION HETNAM FM6 [(1S)-1-(3,4-DICHLOROPHENYL)-3- HETNAM 2 FM6 [OXIDANYL(PHENYLCARBONYL)AMINO]PROPYL]PHOSPHONIC HETNAM 3 FM6 ACID HETSYN FM6 [3-[BENZOYL(HYDROXY)AMINO]-1-(3,4- HETSYN 2 FM6 DICHLOROPHENYL)PROPYL]PHOSPHONIC ACID FORMUL 2 MN 2(MN 2+) FORMUL 3 FM6 C16 H16 CL2 N O5 P FORMUL 4 HOH *531(H2 O) HELIX 1 1 GLY A 22 ASN A 35 1 14 HELIX 2 2 HIS A 50 GLY A 62 1 13 HELIX 3 3 ASP A 70 GLY A 78 1 9 HELIX 4 4 ASP A 86 THR A 95 1 10 HELIX 5 5 VAL A 105 LEU A 108 5 4 HELIX 6 6 GLY A 109 GLY A 120 1 12 HELIX 7 7 ASN A 127 ALA A 142 1 16 HELIX 8 8 ASP A 151 LEU A 161 1 11 HELIX 9 9 ARG A 162 GLY A 164 5 3 HELIX 10 10 THR A 165 ASP A 167 5 3 HELIX 11 11 SER A 185 GLU A 190 1 6 HELIX 12 12 PRO A 207 LEU A 216 1 10 HELIX 13 13 LEU A 216 GLY A 231 1 16 HELIX 14 14 PRO A 233 ASP A 235 5 3 HELIX 15 15 MET A 267 TRP A 277 1 11 HELIX 16 16 PRO A 307 GLY A 319 1 13 HELIX 17 17 CYS A 321 ALA A 339 1 19 HELIX 18 18 PRO A 345 ALA A 357 1 13 HELIX 19 19 ALA A 358 ALA A 362 5 5 HELIX 20 20 THR A 367 SER A 387 1 21 HELIX 21 21 GLY B 22 ASN B 35 1 14 HELIX 22 22 GLY B 47 ALA B 49 5 3 HELIX 23 23 HIS B 50 GLY B 62 1 13 HELIX 24 24 ASP B 86 THR B 95 1 10 HELIX 25 25 VAL B 105 LEU B 108 5 4 HELIX 26 26 GLY B 109 GLY B 120 1 12 HELIX 27 27 ASN B 127 ALA B 133 1 7 HELIX 28 28 GLY B 135 ALA B 141 1 7 HELIX 29 29 ASP B 151 LEU B 161 1 11 HELIX 30 30 ARG B 162 GLY B 164 5 3 HELIX 31 31 THR B 165 ASP B 167 5 3 HELIX 32 32 SER B 185 GLU B 190 1 6 HELIX 33 33 MET B 205 LEU B 216 1 12 HELIX 34 34 LEU B 216 GLY B 231 1 16 HELIX 35 35 PRO B 233 ASP B 235 5 3 HELIX 36 36 MET B 267 TRP B 277 1 11 HELIX 37 37 PRO B 307 GLY B 319 1 13 HELIX 38 38 CYS B 321 ALA B 339 1 19 HELIX 39 39 PRO B 345 ALA B 357 1 13 HELIX 40 40 ALA B 358 ALA B 362 5 5 HELIX 41 41 THR B 367 GLY B 388 1 22 SHEET 1 AA 7 TYR A 82 HIS A 83 0 SHEET 2 AA 7 ILE A 66 VAL A 68 1 O ILE A 66 N TYR A 82 SHEET 3 AA 7 PHE A 39 ALA A 46 1 O LEU A 44 N ALA A 67 SHEET 4 AA 7 LEU A 13 LEU A 18 1 O LEU A 13 N GLU A 40 SHEET 5 AA 7 VAL A 99 ASN A 102 1 O VAL A 99 N VAL A 16 SHEET 6 AA 7 ARG A 122 LEU A 125 1 O ARG A 122 N VAL A 100 SHEET 7 AA 7 ILE A 147 PRO A 149 1 O VAL A 148 N LEU A 125 SHEET 1 AB10 ILE A 237 VAL A 241 0 SHEET 2 AB10 VAL A 169 ALA A 176 1 O LEU A 172 N ASP A 238 SHEET 3 AB10 ILE A 247 PHE A 253 -1 O HIS A 248 N THR A 175 SHEET 4 AB10 THR A 258 ALA A 262 -1 O ILE A 259 N VAL A 251 SHEET 5 AB10 THR B 258 ALA B 262 -1 O THR B 258 N ALA A 262 SHEET 6 AB10 ILE B 247 PHE B 253 -1 N HIS B 248 O GLN B 261 SHEET 7 AB10 VAL B 169 ALA B 176 -1 N ALA B 170 O THR B 252 SHEET 8 AB10 ILE B 237 VAL B 241 1 O ASP B 238 N LEU B 174 SHEET 9 AB10 SER B 294 PRO B 300 -1 O GLU B 299 N VAL B 241 SHEET 10 AB10 SER A 294 PHE A 298 -1 O SER A 294 N PHE B 298 SHEET 1 BA 7 TYR B 82 HIS B 83 0 SHEET 2 BA 7 ILE B 66 VAL B 68 1 O ILE B 66 N TYR B 82 SHEET 3 BA 7 PHE B 39 ALA B 46 1 O LEU B 44 N ALA B 67 SHEET 4 BA 7 LEU B 13 LEU B 18 1 O LEU B 13 N GLU B 40 SHEET 5 BA 7 VAL B 99 ASN B 102 1 O VAL B 99 N VAL B 16 SHEET 6 BA 7 ARG B 122 LEU B 125 1 O ARG B 122 N VAL B 100 SHEET 7 BA 7 ILE B 147 PRO B 149 1 O VAL B 148 N LEU B 125 LINK O2 FM6 A 501 MN MN A 401 1555 1555 2.15 LINK O1 FM6 A 501 MN MN A 401 1555 1555 2.19 CISPEP 1 TRP A 277 PRO A 278 0 5.09 CISPEP 2 TRP B 277 PRO B 278 0 2.03 CISPEP 3 GLY B 388 MET B 389 0 -14.39 SITE 1 AC1 4 ASP A 151 GLU A 153 GLU A 222 FM6 A 501 SITE 1 AC2 16 ASP A 151 SER A 152 GLU A 153 ALA A 176 SITE 2 AC2 16 SER A 177 SER A 213 ASN A 218 LYS A 219 SITE 3 AC2 16 GLU A 222 SER A 245 MN A 401 HOH A2086 SITE 4 AC2 16 HOH A2088 HOH A2108 HOH A2111 HOH A2136 SITE 1 AC3 4 ASP B 151 GLU B 153 GLU B 222 HOH B2188 CRYST1 69.710 66.990 84.610 90.00 107.90 90.00 P 1 21 1 4 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.014345 0.000000 0.004633 0.00000 SCALE2 0.000000 0.014928 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012420 0.00000