HEADER TRANSFERASE 28-MAY-08 3DA8 TITLE CRYSTAL STRUCTURE OF PURN FROM MYCOBACTERIUM TUBERCULOSIS COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROBABLE 5'-PHOSPHORIBOSYLGLYCINAMIDE FORMYLTRANSFERASE COMPND 3 PURN; COMPND 4 CHAIN: A, B; COMPND 5 SYNONYM: GART, GAR TRANSFORMYLASE, 5'-PHOSPHORIBOSYLGLYCINAMIDE COMPND 6 TRANSFORMYLASE, PHOSPHORIBOSYLGLYCINAMIDE FORMYLTRANSFERASE; COMPND 7 EC: 2.1.2.2; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM TUBERCULOSIS; SOURCE 3 ORGANISM_TAXID: 1773; SOURCE 4 GENE: PURN, MT0983, RV0956; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PDEST17 KEYWDS GLYCINAMIDE RIBONUCLEOTIDE TRANSFORMYLASE, PURN, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR Z.ZHANG,C.J.SQUIRE,E.N.BAKER REVDAT 6 30-AUG-23 3DA8 1 REMARK SEQADV LINK REVDAT 5 24-JUL-19 3DA8 1 REMARK REVDAT 4 25-OCT-17 3DA8 1 REMARK REVDAT 3 04-AUG-09 3DA8 1 REMARK REVDAT 2 16-JUN-09 3DA8 1 JRNL REVDAT 1 12-MAY-09 3DA8 0 JRNL AUTH Z.ZHANG,T.T.CARADOC-DAVIES,J.M.DICKSON,E.N.BAKER,C.J.SQUIRE JRNL TITL STRUCTURES OF GLYCINAMIDE RIBONUCLEOTIDE TRANSFORMYLASE JRNL TITL 2 (PURN) FROM MYCOBACTERIUM TUBERCULOSIS REVEAL A NOVEL DIMER JRNL TITL 3 WITH RELEVANCE TO DRUG DISCOVERY. JRNL REF J.MOL.BIOL. V. 389 722 2009 JRNL REFN ISSN 0022-2836 JRNL PMID 19394344 JRNL DOI 10.1016/J.JMB.2009.04.044 REMARK 2 REMARK 2 RESOLUTION. 1.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.4.0078 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) : 1.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 36.69 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 102250 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) : 0.165 REMARK 3 R VALUE (WORKING SET) : 0.164 REMARK 3 FREE R VALUE : 0.186 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 5129 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) : 1.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.33 REMARK 3 REFLECTION IN BIN (WORKING SET) : 7171 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.97 REMARK 3 BIN R VALUE (WORKING SET) : 0.1700 REMARK 3 BIN FREE R VALUE SET COUNT : 367 REMARK 3 BIN FREE R VALUE : 0.1940 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3008 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 14 REMARK 3 SOLVENT ATOMS : 449 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 12.08 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.16000 REMARK 3 B22 (A**2) : -0.10000 REMARK 3 B33 (A**2) : -0.05000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.050 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.047 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.025 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.253 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.966 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.961 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3117 ; 0.009 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4277 ; 1.335 ; 1.972 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 425 ; 5.584 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 104 ;28.496 ;21.538 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 443 ;10.863 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 28 ;14.491 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 532 ; 0.076 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2338 ; 0.007 ; 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): 2100 ; 1.115 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3380 ; 1.843 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1017 ; 2.409 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 893 ; 3.625 ; 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): 3117 ; 1.170 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 463 ; 4.353 ; 3.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 3053 ; 4.135 ; 3.000 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 : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 3 A 215 REMARK 3 ORIGIN FOR THE GROUP (A): 41.8410 49.0310 8.7330 REMARK 3 T TENSOR REMARK 3 T11: 0.0033 T22: 0.0431 REMARK 3 T33: 0.0424 T12: 0.0072 REMARK 3 T13: -0.0038 T23: -0.0037 REMARK 3 L TENSOR REMARK 3 L11: 0.2586 L22: 0.3479 REMARK 3 L33: 2.1894 L12: -0.0110 REMARK 3 L13: 0.2027 L23: -0.1002 REMARK 3 S TENSOR REMARK 3 S11: 0.0113 S12: 0.0192 S13: 0.0231 REMARK 3 S21: -0.0082 S22: -0.0204 S23: -0.0022 REMARK 3 S31: -0.0267 S32: 0.0926 S33: 0.0092 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 4 B 210 REMARK 3 ORIGIN FOR THE GROUP (A): 70.8320 25.9280 8.9220 REMARK 3 T TENSOR REMARK 3 T11: 0.0281 T22: 0.0042 REMARK 3 T33: 0.0466 T12: -0.0025 REMARK 3 T13: 0.0068 T23: 0.0104 REMARK 3 L TENSOR REMARK 3 L11: 0.2561 L22: 0.3412 REMARK 3 L33: 2.5272 L12: -0.0207 REMARK 3 L13: -0.0301 L23: -0.1963 REMARK 3 S TENSOR REMARK 3 S11: -0.0321 S12: 0.0169 S13: 0.0083 REMARK 3 S21: -0.0413 S22: 0.0392 S23: 0.0009 REMARK 3 S31: -0.0145 S32: 0.0051 S33: -0.0070 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 RIDING REMARK 3 POSITIONS. U VALUES HAVE BEEN REFINED AS RESIDUAL ONLY. REMARK 4 REMARK 4 3DA8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-JUN-08. REMARK 100 THE DEPOSITION ID IS D_1000047787. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-JUL-07 REMARK 200 TEMPERATURE (KELVIN) : 110 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL9-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97900 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 115083 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.250 REMARK 200 RESOLUTION RANGE LOW (A) : 52.225 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 14.40 REMARK 200 R MERGE (I) : 0.06600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 24.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.25 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.32 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 14.10 REMARK 200 R MERGE FOR SHELL (I) : 0.82200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.600 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 1MEO REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.90 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.32 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG 3350, 0.1 M MG FORMATE, 0.1 M REMARK 280 NAI, PH 7.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 36.63650 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 38.62300 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 36.68300 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 38.62300 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 36.63650 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 36.68300 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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: 1730 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19010 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -10.5 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 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 109.90950 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 73.36600 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 38.62300 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 VAL A 1 REMARK 465 GLN A 2 REMARK 465 VAL B 1 REMARK 465 GLN B 2 REMARK 465 GLU B 3 REMARK 465 GLY B 152 REMARK 465 THR B 153 REMARK 465 LYS B 211 REMARK 465 VAL B 212 REMARK 465 THR B 213 REMARK 465 ILE B 214 REMARK 465 GLY B 215 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 GLU A 3 CB CG CD OE1 OE2 REMARK 470 GLU A 49 CD OE1 OE2 REMARK 470 ARG A 51 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 67 CZ NH1 NH2 REMARK 470 ARG A 109 CD NE CZ NH1 NH2 REMARK 470 ASP A 168 CG OD1 OD2 REMARK 470 GLU A 172 OE1 OE2 REMARK 470 LYS A 180 CD CE NZ REMARK 470 ARG B 51 CD NE CZ NH1 NH2 REMARK 470 ARG B 67 CZ NH1 NH2 REMARK 470 ASP B 75 CG OD1 OD2 REMARK 470 ASP B 154 CG OD1 OD2 REMARK 470 ASP B 168 CG OD1 OD2 REMARK 470 LYS B 180 CD CE NZ REMARK 470 ARG B 185 CZ NH1 NH2 REMARK 470 ARG B 210 CG CD NE CZ NH1 NH2 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 NH2 ARG A 113 O HOH A 852 2.03 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 PRO A 119 46.46 -86.49 REMARK 500 THR A 142 -149.52 -124.40 REMARK 500 ASP A 150 -159.18 -134.97 REMARK 500 PRO B 119 48.76 -87.04 REMARK 500 THR B 142 -149.31 -124.99 REMARK 500 ASP B 150 -155.69 -134.52 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 MG A 601 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 117 O REMARK 620 2 HOH A 618 O 167.1 REMARK 620 3 HOH A 664 O 96.4 96.5 REMARK 620 4 HOH A 677 O 87.4 94.3 85.1 REMARK 620 5 HOH A 711 O 88.3 89.6 96.4 175.6 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 MG A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A 603 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A 606 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A 609 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A 611 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BME A 612 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD B 610 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3DCJ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF GLYCINAMIDE FORMYLTRANSFERASE (PURN) FROM REMARK 900 MYCOBACTERIUM TUBERCULOSIS IN COMPLEX WITH 5-METHYL-5,6,7,8- REMARK 900 TETRAHYDROFOLIC ACID DERIVATIVE DBREF 3DA8 A 2 215 UNP P71554 P71554_MYCTU 2 215 DBREF 3DA8 B 2 215 UNP P71554 P71554_MYCTU 2 215 SEQADV 3DA8 VAL A 1 UNP P71554 EXPRESSION TAG SEQADV 3DA8 VAL B 1 UNP P71554 EXPRESSION TAG SEQRES 1 A 215 VAL GLN GLU PRO LEU ARG VAL PRO PRO SER ALA PRO ALA SEQRES 2 A 215 ARG LEU VAL VAL LEU ALA SER GLY THR GLY SER LEU LEU SEQRES 3 A 215 ARG SER LEU LEU ASP ALA ALA VAL GLY ASP TYR PRO ALA SEQRES 4 A 215 ARG VAL VAL ALA VAL GLY VAL ASP ARG GLU CYS ARG ALA SEQRES 5 A 215 ALA GLU ILE ALA ALA GLU ALA SER VAL PRO VAL PHE THR SEQRES 6 A 215 VAL ARG LEU ALA ASP HIS PRO SER ARG ASP ALA TRP ASP SEQRES 7 A 215 VAL ALA ILE THR ALA ALA THR ALA ALA HIS GLU PRO ASP SEQRES 8 A 215 LEU VAL VAL SER ALA GLY PHE MET ARG ILE LEU GLY PRO SEQRES 9 A 215 GLN PHE LEU SER ARG PHE TYR GLY ARG THR LEU ASN THR SEQRES 10 A 215 HIS PRO ALA LEU LEU PRO ALA PHE PRO GLY THR HIS GLY SEQRES 11 A 215 VAL ALA ASP ALA LEU ALA TYR GLY VAL LYS VAL THR GLY SEQRES 12 A 215 ALA THR VAL HIS LEU VAL ASP ALA GLY THR ASP THR GLY SEQRES 13 A 215 PRO ILE LEU ALA GLN GLN PRO VAL PRO VAL LEU ASP GLY SEQRES 14 A 215 ASP ASP GLU GLU THR LEU HIS GLU ARG ILE LYS VAL THR SEQRES 15 A 215 GLU ARG ARG LEU LEU VAL ALA ALA VAL ALA ALA LEU ALA SEQRES 16 A 215 THR HIS GLY VAL THR VAL VAL GLY ARG THR ALA THR MET SEQRES 17 A 215 GLY ARG LYS VAL THR ILE GLY SEQRES 1 B 215 VAL GLN GLU PRO LEU ARG VAL PRO PRO SER ALA PRO ALA SEQRES 2 B 215 ARG LEU VAL VAL LEU ALA SER GLY THR GLY SER LEU LEU SEQRES 3 B 215 ARG SER LEU LEU ASP ALA ALA VAL GLY ASP TYR PRO ALA SEQRES 4 B 215 ARG VAL VAL ALA VAL GLY VAL ASP ARG GLU CYS ARG ALA SEQRES 5 B 215 ALA GLU ILE ALA ALA GLU ALA SER VAL PRO VAL PHE THR SEQRES 6 B 215 VAL ARG LEU ALA ASP HIS PRO SER ARG ASP ALA TRP ASP SEQRES 7 B 215 VAL ALA ILE THR ALA ALA THR ALA ALA HIS GLU PRO ASP SEQRES 8 B 215 LEU VAL VAL SER ALA GLY PHE MET ARG ILE LEU GLY PRO SEQRES 9 B 215 GLN PHE LEU SER ARG PHE TYR GLY ARG THR LEU ASN THR SEQRES 10 B 215 HIS PRO ALA LEU LEU PRO ALA PHE PRO GLY THR HIS GLY SEQRES 11 B 215 VAL ALA ASP ALA LEU ALA TYR GLY VAL LYS VAL THR GLY SEQRES 12 B 215 ALA THR VAL HIS LEU VAL ASP ALA GLY THR ASP THR GLY SEQRES 13 B 215 PRO ILE LEU ALA GLN GLN PRO VAL PRO VAL LEU ASP GLY SEQRES 14 B 215 ASP ASP GLU GLU THR LEU HIS GLU ARG ILE LYS VAL THR SEQRES 15 B 215 GLU ARG ARG LEU LEU VAL ALA ALA VAL ALA ALA LEU ALA SEQRES 16 B 215 THR HIS GLY VAL THR VAL VAL GLY ARG THR ALA THR MET SEQRES 17 B 215 GLY ARG LYS VAL THR ILE GLY HET MG A 601 1 HET IOD A 602 1 HET IOD A 603 1 HET IOD A 606 1 HET IOD A 609 1 HET IOD A 611 1 HET BME A 612 8 HET IOD B 604 1 HET IOD B 605 1 HET IOD B 608 1 HET IOD B 610 1 HETNAM MG MAGNESIUM ION HETNAM IOD IODIDE ION HETNAM BME BETA-MERCAPTOETHANOL FORMUL 3 MG MG 2+ FORMUL 4 IOD 9(I 1-) FORMUL 9 BME C2 H6 O S FORMUL 14 HOH *449(H2 O) HELIX 1 1 GLY A 23 ALA A 33 1 11 HELIX 2 2 CYS A 50 ALA A 59 1 10 HELIX 3 3 ARG A 67 HIS A 71 5 5 HELIX 4 4 SER A 73 ALA A 87 1 15 HELIX 5 5 GLY A 103 TYR A 111 1 9 HELIX 6 6 HIS A 129 GLY A 138 1 10 HELIX 7 7 ASP A 171 GLY A 198 1 28 HELIX 8 8 GLY B 23 ALA B 33 1 11 HELIX 9 9 CYS B 50 ALA B 59 1 10 HELIX 10 10 ARG B 67 HIS B 71 5 5 HELIX 11 11 SER B 73 ALA B 87 1 15 HELIX 12 12 GLY B 103 TYR B 111 1 9 HELIX 13 13 HIS B 129 GLY B 138 1 10 HELIX 14 14 ASP B 171 GLY B 198 1 28 SHEET 1 A 3 LEU A 5 VAL A 7 0 SHEET 2 A 3 VAL A 199 VAL A 202 -1 O VAL A 199 N VAL A 7 SHEET 3 A 3 THR A 205 MET A 208 -1 O THR A 207 N THR A 200 SHEET 1 B 7 VAL A 63 THR A 65 0 SHEET 2 B 7 ALA A 39 VAL A 46 1 N VAL A 46 O PHE A 64 SHEET 3 B 7 ALA A 13 ALA A 19 1 N ALA A 19 O GLY A 45 SHEET 4 B 7 LEU A 92 GLY A 97 1 O VAL A 94 N LEU A 18 SHEET 5 B 7 THR A 114 HIS A 118 1 O LEU A 115 N VAL A 93 SHEET 6 B 7 VAL A 141 LEU A 148 -1 O HIS A 147 N ASN A 116 SHEET 7 B 7 ILE A 158 PRO A 165 -1 O VAL A 164 N THR A 142 SHEET 1 C 3 LEU B 5 VAL B 7 0 SHEET 2 C 3 VAL B 199 VAL B 202 -1 O VAL B 199 N VAL B 7 SHEET 3 C 3 THR B 205 MET B 208 -1 O THR B 207 N THR B 200 SHEET 1 D 7 VAL B 63 THR B 65 0 SHEET 2 D 7 ALA B 39 VAL B 46 1 N VAL B 46 O PHE B 64 SHEET 3 D 7 ALA B 13 ALA B 19 1 N ALA B 19 O GLY B 45 SHEET 4 D 7 LEU B 92 GLY B 97 1 O VAL B 94 N LEU B 18 SHEET 5 D 7 THR B 114 HIS B 118 1 O LEU B 115 N SER B 95 SHEET 6 D 7 VAL B 141 LEU B 148 -1 O HIS B 147 N ASN B 116 SHEET 7 D 7 ILE B 158 PRO B 165 -1 O VAL B 164 N THR B 142 LINK O THR A 117 MG MG A 601 1555 1555 2.22 LINK MG MG A 601 O HOH A 618 1555 1555 2.30 LINK MG MG A 601 O HOH A 664 1555 1555 2.39 LINK MG MG A 601 O HOH A 677 1555 1555 2.38 LINK MG MG A 601 O HOH A 711 1555 1555 2.36 CISPEP 1 ALA A 11 PRO A 12 0 -5.59 CISPEP 2 LEU A 122 PRO A 123 0 10.99 CISPEP 3 ILE A 214 GLY A 215 0 -2.58 CISPEP 4 ALA B 11 PRO B 12 0 -4.92 CISPEP 5 LEU B 122 PRO B 123 0 10.93 SITE 1 AC1 6 ASN A 116 THR A 117 HOH A 618 HOH A 664 SITE 2 AC1 6 HOH A 677 HOH A 711 SITE 1 AC2 1 LEU A 26 SITE 1 AC3 1 GLU A 177 SITE 1 AC4 4 GLY A 215 HOH A 739 PHE B 125 HOH B 759 SITE 1 AC5 1 HOH A 814 SITE 1 AC6 8 ALA A 124 PHE A 125 VAL A 141 HOH A 625 SITE 2 AC6 8 HOH A 629 LEU B 121 LEU B 122 ALA B 124 SITE 1 AC7 1 ARG B 51 CRYST1 73.273 73.366 77.246 90.00 90.00 90.00 P 21 21 21 8 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 0.013648 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013630 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012946 0.00000