HEADER OXIDOREDUCTASE/ANTIBIOTIC 31-JAN-14 4OOF TITLE M. TUBERCULOSIS 1-DEOXY-D-XYLULOSE-5-PHOSPHATE REDUCTOISOMERASE W203F TITLE 2 MUTANT BOUND TO FOSMIDOMYCIN AND NADPH COMPND MOL_ID: 1; COMPND 2 MOLECULE: 1-DEOXY-D-XYLULOSE 5-PHOSPHATE REDUCTOISOMERASE; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 1-389; COMPND 5 SYNONYM: DXP REDUCTOISOMERASE, 1-DEOXYXYLULOSE-5-PHOSPHATE COMPND 6 REDUCTOISOMERASE, 2-C-METHYL-D-ERYTHRITOL 4-PHOSPHATE SYNTHASE; COMPND 7 EC: 1.1.1.267; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM TUBERCULOSIS; SOURCE 3 ORGANISM_TAXID: 83332; SOURCE 4 STRAIN: HRV37; SOURCE 5 GENE: DXR, RVBD_2870C; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS REDUCTOISOMERASE, OXIDOREDUCTASE-ANTIBIOTIC COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR C.L.ALLEN,S.A.KHOLODAR,A.S.MURKIN,A.M.GULICK REVDAT 2 20-SEP-23 4OOF 1 REMARK SEQADV LINK REVDAT 1 18-JUN-14 4OOF 0 JRNL AUTH S.A.KHOLODAR,G.TOMBLINE,J.LIU,Z.TAN,C.L.ALLEN,A.M.GULICK, JRNL AUTH 2 A.S.MURKIN JRNL TITL ALTERATION OF THE FLEXIBLE LOOP IN JRNL TITL 2 1-DEOXY-D-XYLULOSE-5-PHOSPHATE REDUCTOISOMERASE BOOSTS JRNL TITL 3 ENTHALPY-DRIVEN INHIBITION BY FOSMIDOMYCIN. JRNL REF BIOCHEMISTRY V. 53 3423 2014 JRNL REFN ISSN 0006-2960 JRNL PMID 24825256 JRNL DOI 10.1021/BI5004074 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.8.1_1168) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.78 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 36380 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.162 REMARK 3 R VALUE (WORKING SET) : 0.159 REMARK 3 FREE R VALUE : 0.212 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.010 REMARK 3 FREE R VALUE TEST SET COUNT : 1821 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 34.7861 - 5.4028 1.00 2875 135 0.1405 0.1551 REMARK 3 2 5.4028 - 4.2909 1.00 2743 129 0.1315 0.1734 REMARK 3 3 4.2909 - 3.7492 1.00 2703 127 0.1400 0.1787 REMARK 3 4 3.7492 - 3.4068 1.00 2643 154 0.1624 0.2083 REMARK 3 5 3.4068 - 3.1628 1.00 2661 129 0.1781 0.2349 REMARK 3 6 3.1628 - 2.9764 1.00 2654 141 0.1800 0.2422 REMARK 3 7 2.9764 - 2.8274 1.00 2611 165 0.1802 0.2493 REMARK 3 8 2.8274 - 2.7044 1.00 2634 137 0.1752 0.2555 REMARK 3 9 2.7044 - 2.6003 1.00 2613 140 0.1763 0.2508 REMARK 3 10 2.6003 - 2.5106 1.00 2616 132 0.1725 0.2572 REMARK 3 11 2.5106 - 2.4321 1.00 2635 134 0.1815 0.2484 REMARK 3 12 2.4321 - 2.3626 1.00 2603 151 0.1794 0.2405 REMARK 3 13 2.3626 - 2.3000 1.00 2568 147 0.2003 0.2720 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.220 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.360 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 32.70 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.007 5703 REMARK 3 ANGLE : 1.136 7814 REMARK 3 CHIRALITY : 0.066 924 REMARK 3 PLANARITY : 0.005 1019 REMARK 3 DIHEDRAL : 15.962 1998 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4OOF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-FEB-14. REMARK 100 THE DEPOSITION ID IS D_1000084748. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-AUG-12 REMARK 200 TEMPERATURE (KELVIN) : 113 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL7-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.127 REMARK 200 MONOCHROMATOR : SIDE SCATTERING I-BEAM BENT REMARK 200 SINGLE CRYSTAL, ASYMMETRIC CUT REMARK 200 4.9650 DEGREES REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 36447 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 84.639 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.09200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.40 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.48800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.700 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: PDB ENTRY 4A03 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.64 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.35 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% PEG8000, 50 MM MES, 200 MM REMARK 280 AMMONIUM ACETATE, PH 6.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+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 68.21900 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 53.95600 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 53.95600 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 102.32850 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 53.95600 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 53.95600 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 34.10950 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 53.95600 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 53.95600 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 102.32850 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 53.95600 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 53.95600 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 34.10950 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 68.21900 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: 7340 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26550 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -49.0 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 -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 HIS A -9 REMARK 465 HIS A -8 REMARK 465 HIS A -7 REMARK 465 LEU A -6 REMARK 465 VAL A -5 REMARK 465 PRO A -4 REMARK 465 ARG A -3 REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 MET 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 MET A 389 REMARK 465 MET B -13 REMARK 465 HIS B -12 REMARK 465 HIS B -11 REMARK 465 HIS B -10 REMARK 465 HIS B -9 REMARK 465 HIS B -8 REMARK 465 HIS B -7 REMARK 465 LEU B -6 REMARK 465 VAL B -5 REMARK 465 PRO B -4 REMARK 465 ARG B -3 REMARK 465 GLY B -2 REMARK 465 SER B -1 REMARK 465 HIS B 0 REMARK 465 MET 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 465 MET B 389 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 ASP A 37 CG OD1 OD2 REMARK 470 GLN A 75 CD OE1 NE2 REMARK 470 LYS A 118 CE NZ REMARK 470 ARG A 140 CD NE CZ NH1 NH2 REMARK 470 ARG A 143 NE CZ NH1 NH2 REMARK 470 GLU A 195 CG CD OE1 OE2 REMARK 470 ARG A 279 CG CD NE CZ NH1 NH2 REMARK 470 HIS A 356 CG ND1 CD2 CE1 NE2 REMARK 470 ASP B 37 CG OD1 OD2 REMARK 470 LEU B 51 CG CD1 CD2 REMARK 470 HIS B 72 CG ND1 CD2 CE1 NE2 REMARK 470 ARG B 76 CG CD NE CZ NH1 NH2 REMARK 470 VAL B 77 CG1 CG2 REMARK 470 ASP B 79 CG OD1 OD2 REMARK 470 LYS B 118 CE NZ REMARK 470 LYS B 171 NZ REMARK 470 GLU B 195 CG CD OE1 OE2 REMARK 470 GLU B 380 CG CD OE1 OE2 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 ASN A 65 84.69 -68.61 REMARK 500 SER A 249 173.29 168.76 REMARK 500 ASP A 266 106.24 -172.38 REMARK 500 PHE A 306 79.86 -119.14 REMARK 500 ALA A 362 41.36 -81.32 REMARK 500 SER B 249 173.30 165.17 REMARK 500 ASP B 266 105.36 -171.13 REMARK 500 ALA B 362 22.55 -77.53 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 MN A 401 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 151 OD1 REMARK 620 2 GLU A 153 OE1 100.8 REMARK 620 3 GLU A 222 OE2 98.9 101.1 REMARK 620 4 FOM A 402 O2 111.8 145.1 86.3 REMARK 620 5 FOM A 402 O1 89.2 94.7 160.5 74.3 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B 401 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 151 OD1 REMARK 620 2 GLU B 153 OE1 98.6 REMARK 620 3 GLU B 222 OE2 104.3 96.0 REMARK 620 4 FOM B 402 O2 117.2 142.5 86.4 REMARK 620 5 FOM B 402 O1 87.6 95.9 161.8 75.8 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NDP A 400 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FOM A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NDP B 400 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FOM B 402 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3ZHX RELATED DB: PDB REMARK 900 DXR REMARK 900 RELATED ID: 4AIC RELATED DB: PDB REMARK 900 DXR REMARK 900 RELATED ID: 4OOE RELATED DB: PDB DBREF 4OOF A 1 389 UNP I6YAH0 I6YAH0_MYCTU 1 389 DBREF 4OOF B 1 389 UNP I6YAH0 I6YAH0_MYCTU 1 389 SEQADV 4OOF MET A -13 UNP I6YAH0 EXPRESSION TAG SEQADV 4OOF HIS A -12 UNP I6YAH0 EXPRESSION TAG SEQADV 4OOF HIS A -11 UNP I6YAH0 EXPRESSION TAG SEQADV 4OOF HIS A -10 UNP I6YAH0 EXPRESSION TAG SEQADV 4OOF HIS A -9 UNP I6YAH0 EXPRESSION TAG SEQADV 4OOF HIS A -8 UNP I6YAH0 EXPRESSION TAG SEQADV 4OOF HIS A -7 UNP I6YAH0 EXPRESSION TAG SEQADV 4OOF LEU A -6 UNP I6YAH0 EXPRESSION TAG SEQADV 4OOF VAL A -5 UNP I6YAH0 EXPRESSION TAG SEQADV 4OOF PRO A -4 UNP I6YAH0 EXPRESSION TAG SEQADV 4OOF ARG A -3 UNP I6YAH0 EXPRESSION TAG SEQADV 4OOF GLY A -2 UNP I6YAH0 EXPRESSION TAG SEQADV 4OOF SER A -1 UNP I6YAH0 EXPRESSION TAG SEQADV 4OOF HIS A 0 UNP I6YAH0 EXPRESSION TAG SEQADV 4OOF PHE A 203 UNP I6YAH0 TRP 203 ENGINEERED MUTATION SEQADV 4OOF MET B -13 UNP I6YAH0 EXPRESSION TAG SEQADV 4OOF HIS B -12 UNP I6YAH0 EXPRESSION TAG SEQADV 4OOF HIS B -11 UNP I6YAH0 EXPRESSION TAG SEQADV 4OOF HIS B -10 UNP I6YAH0 EXPRESSION TAG SEQADV 4OOF HIS B -9 UNP I6YAH0 EXPRESSION TAG SEQADV 4OOF HIS B -8 UNP I6YAH0 EXPRESSION TAG SEQADV 4OOF HIS B -7 UNP I6YAH0 EXPRESSION TAG SEQADV 4OOF LEU B -6 UNP I6YAH0 EXPRESSION TAG SEQADV 4OOF VAL B -5 UNP I6YAH0 EXPRESSION TAG SEQADV 4OOF PRO B -4 UNP I6YAH0 EXPRESSION TAG SEQADV 4OOF ARG B -3 UNP I6YAH0 EXPRESSION TAG SEQADV 4OOF GLY B -2 UNP I6YAH0 EXPRESSION TAG SEQADV 4OOF SER B -1 UNP I6YAH0 EXPRESSION TAG SEQADV 4OOF HIS B 0 UNP I6YAH0 EXPRESSION TAG SEQADV 4OOF PHE B 203 UNP I6YAH0 TRP 203 ENGINEERED MUTATION SEQRES 1 A 403 MET HIS HIS HIS HIS HIS HIS LEU VAL PRO ARG GLY SER SEQRES 2 A 403 HIS MET THR ASN SER THR ASP GLY ARG ALA ASP GLY ARG SEQRES 3 A 403 LEU ARG VAL VAL VAL LEU GLY SER THR GLY SER ILE GLY SEQRES 4 A 403 THR GLN ALA LEU GLN VAL ILE ALA ASP ASN PRO ASP ARG SEQRES 5 A 403 PHE GLU VAL VAL GLY LEU ALA ALA GLY GLY ALA HIS LEU SEQRES 6 A 403 ASP THR LEU LEU ARG GLN ARG ALA GLN THR GLY VAL THR SEQRES 7 A 403 ASN ILE ALA VAL ALA ASP GLU HIS ALA ALA GLN ARG VAL SEQRES 8 A 403 GLY ASP ILE PRO TYR HIS GLY SER ASP ALA ALA THR ARG SEQRES 9 A 403 LEU VAL GLU GLN THR GLU ALA ASP VAL VAL LEU ASN ALA SEQRES 10 A 403 LEU VAL GLY ALA LEU GLY LEU ARG PRO THR LEU ALA ALA SEQRES 11 A 403 LEU LYS THR GLY ALA ARG LEU ALA LEU ALA ASN LYS GLU SEQRES 12 A 403 SER LEU VAL ALA GLY GLY SER LEU VAL LEU ARG ALA ALA SEQRES 13 A 403 ARG PRO GLY GLN ILE VAL PRO VAL ASP SER GLU HIS SER SEQRES 14 A 403 ALA LEU ALA GLN CYS LEU ARG GLY GLY THR PRO ASP GLU SEQRES 15 A 403 VAL ALA LYS LEU VAL LEU THR ALA SER GLY GLY PRO PHE SEQRES 16 A 403 ARG GLY TRP SER ALA ALA ASP LEU GLU HIS VAL THR PRO SEQRES 17 A 403 GLU GLN ALA GLY ALA HIS PRO THR PHE SER MET GLY PRO SEQRES 18 A 403 MET ASN THR LEU ASN SER ALA SER LEU VAL ASN LYS GLY SEQRES 19 A 403 LEU GLU VAL ILE GLU THR HIS LEU LEU PHE GLY ILE PRO SEQRES 20 A 403 TYR ASP ARG ILE ASP VAL VAL VAL HIS PRO GLN SER ILE SEQRES 21 A 403 ILE HIS SER MET VAL THR PHE ILE ASP GLY SER THR ILE SEQRES 22 A 403 ALA GLN ALA SER PRO PRO ASP MET LYS LEU PRO ILE SER SEQRES 23 A 403 LEU ALA LEU GLY TRP PRO ARG ARG VAL SER GLY ALA ALA SEQRES 24 A 403 ALA ALA CYS ASP PHE HIS THR ALA SER SER TRP GLU PHE SEQRES 25 A 403 GLU PRO LEU ASP THR ASP VAL PHE PRO ALA VAL GLU LEU SEQRES 26 A 403 ALA ARG GLN ALA GLY VAL ALA GLY GLY CYS MET THR ALA SEQRES 27 A 403 VAL TYR ASN ALA ALA ASN GLU GLU ALA ALA ALA ALA PHE SEQRES 28 A 403 LEU ALA GLY ARG ILE GLY PHE PRO ALA ILE VAL GLY ILE SEQRES 29 A 403 ILE ALA ASP VAL LEU HIS ALA ALA ASP GLN TRP ALA VAL SEQRES 30 A 403 GLU PRO ALA THR VAL ASP ASP VAL LEU ASP ALA GLN ARG SEQRES 31 A 403 TRP ALA ARG GLU ARG ALA GLN ARG ALA VAL SER GLY MET SEQRES 1 B 403 MET HIS HIS HIS HIS HIS HIS LEU VAL PRO ARG GLY SER SEQRES 2 B 403 HIS MET THR ASN SER THR ASP GLY ARG ALA ASP GLY ARG SEQRES 3 B 403 LEU ARG VAL VAL VAL LEU GLY SER THR GLY SER ILE GLY SEQRES 4 B 403 THR GLN ALA LEU GLN VAL ILE ALA ASP ASN PRO ASP ARG SEQRES 5 B 403 PHE GLU VAL VAL GLY LEU ALA ALA GLY GLY ALA HIS LEU SEQRES 6 B 403 ASP THR LEU LEU ARG GLN ARG ALA GLN THR GLY VAL THR SEQRES 7 B 403 ASN ILE ALA VAL ALA ASP GLU HIS ALA ALA GLN ARG VAL SEQRES 8 B 403 GLY ASP ILE PRO TYR HIS GLY SER ASP ALA ALA THR ARG SEQRES 9 B 403 LEU VAL GLU GLN THR GLU ALA ASP VAL VAL LEU ASN ALA SEQRES 10 B 403 LEU VAL GLY ALA LEU GLY LEU ARG PRO THR LEU ALA ALA SEQRES 11 B 403 LEU LYS THR GLY ALA ARG LEU ALA LEU ALA ASN LYS GLU SEQRES 12 B 403 SER LEU VAL ALA GLY GLY SER LEU VAL LEU ARG ALA ALA SEQRES 13 B 403 ARG PRO GLY GLN ILE VAL PRO VAL ASP SER GLU HIS SER SEQRES 14 B 403 ALA LEU ALA GLN CYS LEU ARG GLY GLY THR PRO ASP GLU SEQRES 15 B 403 VAL ALA LYS LEU VAL LEU THR ALA SER GLY GLY PRO PHE SEQRES 16 B 403 ARG GLY TRP SER ALA ALA ASP LEU GLU HIS VAL THR PRO SEQRES 17 B 403 GLU GLN ALA GLY ALA HIS PRO THR PHE SER MET GLY PRO SEQRES 18 B 403 MET ASN THR LEU ASN SER ALA SER LEU VAL ASN LYS GLY SEQRES 19 B 403 LEU GLU VAL ILE GLU THR HIS LEU LEU PHE GLY ILE PRO SEQRES 20 B 403 TYR ASP ARG ILE ASP VAL VAL VAL HIS PRO GLN SER ILE SEQRES 21 B 403 ILE HIS SER MET VAL THR PHE ILE ASP GLY SER THR ILE SEQRES 22 B 403 ALA GLN ALA SER PRO PRO ASP MET LYS LEU PRO ILE SER SEQRES 23 B 403 LEU ALA LEU GLY TRP PRO ARG ARG VAL SER GLY ALA ALA SEQRES 24 B 403 ALA ALA CYS ASP PHE HIS THR ALA SER SER TRP GLU PHE SEQRES 25 B 403 GLU PRO LEU ASP THR ASP VAL PHE PRO ALA VAL GLU LEU SEQRES 26 B 403 ALA ARG GLN ALA GLY VAL ALA GLY GLY CYS MET THR ALA SEQRES 27 B 403 VAL TYR ASN ALA ALA ASN GLU GLU ALA ALA ALA ALA PHE SEQRES 28 B 403 LEU ALA GLY ARG ILE GLY PHE PRO ALA ILE VAL GLY ILE SEQRES 29 B 403 ILE ALA ASP VAL LEU HIS ALA ALA ASP GLN TRP ALA VAL SEQRES 30 B 403 GLU PRO ALA THR VAL ASP ASP VAL LEU ASP ALA GLN ARG SEQRES 31 B 403 TRP ALA ARG GLU ARG ALA GLN ARG ALA VAL SER GLY MET HET NDP A 400 48 HET MN A 401 1 HET FOM A 402 11 HET NDP B 400 48 HET MN B 401 1 HET FOM B 402 11 HETNAM NDP NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE HETNAM 2 NDP PHOSPHATE HETNAM MN MANGANESE (II) ION HETNAM FOM 3-[FORMYL(HYDROXY)AMINO]PROPYLPHOSPHONIC ACID HETSYN FOM FOSMIDOMYCIN FORMUL 3 NDP 2(C21 H30 N7 O17 P3) FORMUL 4 MN 2(MN 2+) FORMUL 5 FOM 2(C4 H10 N O5 P) FORMUL 9 HOH *394(H2 O) HELIX 1 1 GLY A 22 ASP A 34 1 13 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 GLN A 94 1 9 HELIX 5 5 GLY A 106 LEU A 108 5 3 HELIX 6 6 GLY A 109 GLY A 120 1 12 HELIX 7 7 ASN A 127 GLY A 135 1 9 HELIX 8 8 GLY A 135 ALA A 142 1 8 HELIX 9 9 ASP A 151 ARG A 162 1 12 HELIX 10 10 GLY A 163 GLY A 164 5 2 HELIX 11 11 THR A 165 ASP A 167 5 3 HELIX 12 12 SER A 185 HIS A 191 1 7 HELIX 13 13 THR A 193 GLY A 198 1 6 HELIX 14 14 GLY A 206 LEU A 216 1 11 HELIX 15 15 LEU A 216 GLY A 231 1 16 HELIX 16 16 PRO A 233 ASP A 235 5 3 HELIX 17 17 MET A 267 TRP A 277 1 11 HELIX 18 18 PRO A 307 GLY A 319 1 13 HELIX 19 19 CYS A 321 ALA A 339 1 19 HELIX 20 20 PRO A 345 ALA A 357 1 13 HELIX 21 21 ALA A 358 ALA A 362 5 5 HELIX 22 22 THR A 367 SER A 387 1 21 HELIX 23 23 GLY B 22 ASN B 35 1 14 HELIX 24 24 HIS B 50 GLY B 62 1 13 HELIX 25 25 ASP B 70 GLY B 78 1 9 HELIX 26 26 ASP B 86 THR B 95 1 10 HELIX 27 27 GLY B 106 LEU B 108 5 3 HELIX 28 28 GLY B 109 THR B 119 1 11 HELIX 29 29 ASN B 127 GLY B 135 1 9 HELIX 30 30 GLY B 135 ALA B 141 1 7 HELIX 31 31 ASP B 151 LEU B 161 1 11 HELIX 32 32 ARG B 162 GLY B 164 5 3 HELIX 33 33 THR B 165 ASP B 167 5 3 HELIX 34 34 SER B 185 GLU B 190 1 6 HELIX 35 35 THR B 193 GLY B 198 1 6 HELIX 36 36 GLY B 206 LEU B 216 1 11 HELIX 37 37 LEU B 216 GLY B 231 1 16 HELIX 38 38 PRO B 233 ASP B 235 5 3 HELIX 39 39 MET B 267 TRP B 277 1 11 HELIX 40 40 PRO B 307 GLY B 319 1 13 HELIX 41 41 CYS B 321 ALA B 339 1 19 HELIX 42 42 PRO B 345 HIS B 356 1 12 HELIX 43 43 ALA B 357 ALA B 362 5 6 HELIX 44 44 THR B 367 GLY B 388 1 22 SHEET 1 A 7 TYR A 82 HIS A 83 0 SHEET 2 A 7 ILE A 66 VAL A 68 1 N VAL A 68 O TYR A 82 SHEET 3 A 7 PHE A 39 ALA A 46 1 N LEU A 44 O ALA A 67 SHEET 4 A 7 LEU A 13 LEU A 18 1 N VAL A 15 O GLU A 40 SHEET 5 A 7 VAL A 99 ASN A 102 1 O LEU A 101 N VAL A 16 SHEET 6 A 7 ARG A 122 LEU A 125 1 O ARG A 122 N VAL A 100 SHEET 7 A 7 ILE A 147 PRO A 149 1 O VAL A 148 N LEU A 123 SHEET 1 B 8 ILE A 237 VAL A 241 0 SHEET 2 B 8 VAL A 169 ALA A 176 1 N LEU A 174 O ASP A 238 SHEET 3 B 8 ILE A 247 PHE A 253 -1 O MET A 250 N VAL A 173 SHEET 4 B 8 THR A 258 ALA A 262 -1 O ILE A 259 N VAL A 251 SHEET 5 B 8 THR B 258 ALA B 262 -1 O THR B 258 N ALA A 262 SHEET 6 B 8 ILE B 247 PHE B 253 -1 N VAL B 251 O ILE B 259 SHEET 7 B 8 VAL B 169 ALA B 176 -1 N VAL B 173 O MET B 250 SHEET 8 B 8 ILE B 237 VAL B 241 1 O ASP B 238 N LEU B 172 SHEET 1 C 2 SER A 294 PHE A 298 0 SHEET 2 C 2 SER B 294 PHE B 298 -1 O TRP B 296 N TRP A 296 SHEET 1 D 7 TYR B 82 HIS B 83 0 SHEET 2 D 7 ILE B 66 VAL B 68 1 N VAL B 68 O TYR B 82 SHEET 3 D 7 PHE B 39 ALA B 46 1 N LEU B 44 O ALA B 67 SHEET 4 D 7 LEU B 13 LEU B 18 1 N VAL B 15 O GLU B 40 SHEET 5 D 7 VAL B 99 ASN B 102 1 O LEU B 101 N VAL B 16 SHEET 6 D 7 ARG B 122 LEU B 125 1 O ARG B 122 N VAL B 100 SHEET 7 D 7 ILE B 147 PRO B 149 1 O VAL B 148 N LEU B 123 LINK OD1 ASP A 151 MN MN A 401 1555 1555 2.06 LINK OE1 GLU A 153 MN MN A 401 1555 1555 2.01 LINK OE2 GLU A 222 MN MN A 401 1555 1555 2.10 LINK MN MN A 401 O2 FOM A 402 1555 1555 1.97 LINK MN MN A 401 O1 FOM A 402 1555 1555 2.23 LINK OD1 ASP B 151 MN MN B 401 1555 1555 1.97 LINK OE1 GLU B 153 MN MN B 401 1555 1555 2.08 LINK OE2 GLU B 222 MN MN B 401 1555 1555 2.02 LINK MN MN B 401 O2 FOM B 402 1555 1555 2.01 LINK MN MN B 401 O1 FOM B 402 1555 1555 2.18 CISPEP 1 TRP A 277 PRO A 278 0 4.57 CISPEP 2 TRP B 277 PRO B 278 0 4.78 SITE 1 AC1 35 GLY A 19 THR A 21 GLY A 22 SER A 23 SITE 2 AC1 35 ILE A 24 ALA A 46 GLY A 47 GLY A 48 SITE 3 AC1 35 ALA A 49 HIS A 50 ALA A 69 ALA A 103 SITE 4 AC1 35 LEU A 104 VAL A 105 LEU A 108 ALA A 126 SITE 5 AC1 35 ASN A 127 LYS A 128 GLU A 129 ASP A 151 SITE 6 AC1 35 MET A 205 GLY A 206 PRO A 207 ASN A 209 SITE 7 AC1 35 MET A 267 FOM A 402 HOH A 501 HOH A 511 SITE 8 AC1 35 HOH A 532 HOH A 541 HOH A 560 HOH A 579 SITE 9 AC1 35 HOH A 583 HOH A 621 HOH A 636 SITE 1 AC2 5 LYS A 128 ASP A 151 GLU A 153 GLU A 222 SITE 2 AC2 5 FOM A 402 SITE 1 AC3 18 LYS A 128 ASP A 151 SER A 152 GLU A 153 SITE 2 AC3 18 ALA A 176 SER A 177 HIS A 200 PHE A 203 SITE 3 AC3 18 MET A 205 SER A 213 ASN A 218 LYS A 219 SITE 4 AC3 18 GLU A 222 NDP A 400 MN A 401 HOH A 506 SITE 5 AC3 18 HOH A 509 HOH A 530 SITE 1 AC4 34 GLY B 19 THR B 21 GLY B 22 SER B 23 SITE 2 AC4 34 ILE B 24 ALA B 46 GLY B 47 GLY B 48 SITE 3 AC4 34 ALA B 49 HIS B 50 ALA B 69 ALA B 103 SITE 4 AC4 34 LEU B 104 VAL B 105 LEU B 108 ALA B 126 SITE 5 AC4 34 ASN B 127 LYS B 128 GLU B 129 ASP B 151 SITE 6 AC4 34 MET B 205 GLY B 206 ASN B 209 MET B 267 SITE 7 AC4 34 FOM B 402 HOH B 504 HOH B 506 HOH B 531 SITE 8 AC4 34 HOH B 565 HOH B 570 HOH B 600 HOH B 640 SITE 9 AC4 34 HOH B 656 HOH B 663 SITE 1 AC5 4 ASP B 151 GLU B 153 GLU B 222 FOM B 402 SITE 1 AC6 17 ASP B 151 SER B 152 GLU B 153 ALA B 176 SITE 2 AC6 17 SER B 177 HIS B 200 PHE B 203 MET B 205 SITE 3 AC6 17 SER B 213 ASN B 218 LYS B 219 GLU B 222 SITE 4 AC6 17 NDP B 400 MN B 401 HOH B 503 HOH B 514 SITE 5 AC6 17 HOH B 517 CRYST1 107.912 107.912 136.438 90.00 90.00 90.00 P 43 21 2 16 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 0.009267 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009267 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007329 0.00000