HEADER LYASE 08-MAY-07 2PTX TITLE CRYSTAL STRUCTURE OF THE T. BRUCEI ENOLASE COMPLEXED WITH SULPHATE IN TITLE 2 CLOSED CONFORMATION COMPND MOL_ID: 1; COMPND 2 MOLECULE: ENOLASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: 2-PHOSPHO-D-GLYCERATE HYDRO-LYASE; COMPND 5 EC: 4.2.1.11; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: TRYPANOSOMA BRUCEI; SOURCE 3 ORGANISM_TAXID: 5691; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)PLYSS; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS LYASE, GLYCOLYSIS, HIS-TAG EXPDTA X-RAY DIFFRACTION AUTHOR M.V.A.S.NAVARRO,D.J.RIGDEN,R.C.GARRATT,S.M.G.DIAS REVDAT 4 30-AUG-23 2PTX 1 REMARK REVDAT 3 20-OCT-21 2PTX 1 REMARK SEQADV REVDAT 2 24-FEB-09 2PTX 1 VERSN REVDAT 1 20-NOV-07 2PTX 0 JRNL AUTH M.V.NAVARRO,S.M.GOMES DIAS,L.V.MELLO,M.T.DA SILVA GIOTTO, JRNL AUTH 2 S.GAVALDA,C.BLONSKI,R.C.GARRATT,D.J.RIGDEN JRNL TITL STRUCTURAL FLEXIBILITY IN TRYPANOSOMA BRUCEI ENOLASE JRNL TITL 2 REVEALED BY X-RAY CRYSTALLOGRAPHY AND MOLECULAR DYNAMICS. JRNL REF FEBS J. V. 274 5077 2007 JRNL REFN ISSN 1742-464X JRNL PMID 17822439 JRNL DOI 10.1111/J.1742-4658.2007.06027.X REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH M.T.DA SILVA GIOTTO,V.HANNAERT,D.VERTOMMEN,M.V.A.S.NAVARRO, REMARK 1 AUTH 2 M.H.RIDER,P.A.M.MICHELS,R.C.GARRATT,D.J.RIGDEN REMARK 1 TITL THE CRYSTAL STRUCTURE OF TRYPANOSOMA BRUCEI ENOLASE: REMARK 1 TITL 2 VISUALISATION OF THE INHIBITORY METAL BINDING SITE III AND REMARK 1 TITL 3 POTENTIAL AS TARGET FOR SELECTIVE, IRREVERSIBLE INHIBITION REMARK 1 REF J.MOL.BIOL. V. 331 653 2003 REMARK 1 REFN ISSN 0022-2836 REMARK 1 PMID 12899835 REMARK 1 DOI 10.1016/S0022-2836(03)00752-6 REMARK 2 REMARK 2 RESOLUTION. 1.90 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) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 26.06 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 3 NUMBER OF REFLECTIONS : 33961 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) : 0.168 REMARK 3 R VALUE (WORKING SET) : 0.166 REMARK 3 FREE R VALUE : 0.207 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4764 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 10 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.00 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4764 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.30 REMARK 3 BIN R VALUE (WORKING SET) : 0.2380 REMARK 3 BIN FREE R VALUE SET COUNT : 231 REMARK 3 BIN FREE R VALUE : 0.3380 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3281 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 23 REMARK 3 SOLVENT ATOMS : 382 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 23.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.64 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : -0.01000 REMARK 3 B33 (A**2) : 0.00000 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): 0.142 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.132 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.086 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.380 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.959 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.939 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3385 ; 0.012 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4572 ; 1.462 ; 1.975 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 440 ; 6.745 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 141 ;39.958 ;24.752 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 603 ;13.027 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 19 ;16.909 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 510 ; 0.089 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2527 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1698 ; 0.193 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2298 ; 0.298 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 333 ; 0.147 ; 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): 59 ; 0.205 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 29 ; 0.190 ; 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): 2229 ; 0.568 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3449 ; 0.868 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1320 ; 1.608 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1118 ; 2.557 ; 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 : 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 -1 A 429 REMARK 3 ORIGIN FOR THE GROUP (A): 23.2113 -20.8964 20.4224 REMARK 3 T TENSOR REMARK 3 T11: -0.1042 T22: -0.0868 REMARK 3 T33: -0.0768 T12: -0.0405 REMARK 3 T13: -0.0086 T23: 0.0121 REMARK 3 L TENSOR REMARK 3 L11: 0.9223 L22: 0.7488 REMARK 3 L33: 1.6520 L12: 0.1829 REMARK 3 L13: -0.2079 L23: -0.4980 REMARK 3 S TENSOR REMARK 3 S11: -0.0484 S12: 0.0600 S13: -0.1192 REMARK 3 S21: -0.0593 S22: 0.0819 S23: 0.0968 REMARK 3 S31: 0.2067 S32: -0.2642 S33: -0.0335 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 : A 704 A 1085 REMARK 3 ORIGIN FOR THE GROUP (A): 23.9906 -18.3112 19.7651 REMARK 3 T TENSOR REMARK 3 T11: -0.0707 T22: -0.0191 REMARK 3 T33: -0.0134 T12: -0.0076 REMARK 3 T13: -0.0152 T23: 0.0082 REMARK 3 L TENSOR REMARK 3 L11: 1.1708 L22: 1.3684 REMARK 3 L33: 1.6032 L12: 0.3940 REMARK 3 L13: -0.2693 L23: -0.4948 REMARK 3 S TENSOR REMARK 3 S11: -0.0391 S12: 0.0789 S13: -0.0052 REMARK 3 S21: -0.0309 S22: 0.0586 S23: 0.1151 REMARK 3 S31: 0.0568 S32: -0.2094 S33: -0.0195 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 2PTX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-MAY-07. REMARK 100 THE DEPOSITION ID IS D_1000042770. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-OCT-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 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 ULTRAX 18 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 345 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 35765 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 26.100 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 4.900 REMARK 200 R MERGE (I) : 0.05700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 4.80 REMARK 200 R MERGE FOR SHELL (I) : 0.49700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 1OEP REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.03 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.41 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10 % (W/V) PEG1000, 0.01 M ZNSO4 OR REMARK 280 ZNCL2, AND 0.1 M MES, PH 6.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 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 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 54.49150 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 54.49150 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 37.38650 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 55.58750 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 37.38650 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 55.58750 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 54.49150 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 37.38650 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 55.58750 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 54.49150 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 37.38650 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 55.58750 REMARK 290 SMTRY3 8 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 300 REMARK: THE BIOLOGICAL ASSEMBLY IS A DIMER GENERATED FROM THE REMARK 300 MONOMER IN THE ASYMMETRIC UNIT BY THE OPERATIONS: -X, Y, -Z+1/2 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 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 74.77300 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 54.49150 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 -2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 880 O HOH A 998 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 OE2 GLU A 27 O HOH A 805 7555 1.92 REMARK 500 REMARK 500 REMARK: NULL 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 A 266 C - N - CA ANGL. DEV. = 33.0 DEGREES REMARK 500 PRO A 266 C - N - CD ANGL. DEV. = -30.8 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 VAL A 58 52.83 37.91 REMARK 500 LEU A 161 109.63 -56.33 REMARK 500 PRO A 266 98.48 49.33 REMARK 500 ASP A 318 -75.15 -122.59 REMARK 500 VAL A 322 44.09 34.70 REMARK 500 ASN A 338 20.94 -140.02 REMARK 500 THR A 395 23.24 -140.83 REMARK 500 ARG A 400 127.65 83.83 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 GLU A 265 PRO A 266 51.62 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 500 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 40 O REMARK 620 2 SER A 40 OG 82.8 REMARK 620 3 SO4 A 600 O2 91.8 93.2 REMARK 620 4 HOH A 754 O 89.7 84.7 177.2 REMARK 620 5 HOH A 804 O 83.5 165.7 91.5 90.9 REMARK 620 6 HOH A1000 O 178.3 95.5 88.3 90.0 98.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 501 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 243 OD2 REMARK 620 2 GLU A 291 OE2 84.1 REMARK 620 3 ASP A 318 OD2 172.3 88.9 REMARK 620 4 HOH A 742 O 86.2 102.3 92.0 REMARK 620 5 HOH A1000 O 95.1 157.1 92.6 100.4 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 ZN A 500 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 600 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 700 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 702 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 703 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1OEP RELATED DB: PDB REMARK 900 FIRST STRUCTURE OF THE T. BRUCEI ENOLASE REMARK 900 RELATED ID: 2PTW RELATED DB: PDB REMARK 900 THE SAME PROTEIN COMPLEXED WITH SULPHATE AND ZN ION IN A METAL REMARK 900 BINDING SITE IV DBREF 2PTX A 1 429 UNP Q38BV6 Q38BV6_9TRYP 1 429 SEQADV 2PTX GLY A -2 UNP Q38BV6 EXPRESSION TAG SEQADV 2PTX SER A -1 UNP Q38BV6 EXPRESSION TAG SEQADV 2PTX HIS A 0 UNP Q38BV6 EXPRESSION TAG SEQADV 2PTX LYS A 28 UNP Q38BV6 ARG 28 ENGINEERED MUTATION SEQRES 1 A 432 GLY SER HIS MET THR ILE GLN LYS VAL HIS GLY ARG GLU SEQRES 2 A 432 VAL LEU ASP SER ARG GLY ASN PRO THR VAL GLU VAL GLU SEQRES 3 A 432 VAL THR THR GLU LYS GLY VAL PHE ARG SER ALA VAL PRO SEQRES 4 A 432 SER GLY ALA SER THR GLY VAL TYR GLU ALA CYS GLU LEU SEQRES 5 A 432 ARG ASP GLY ASP LYS LYS ARG TYR VAL GLY LYS GLY CYS SEQRES 6 A 432 LEU GLN ALA VAL LYS ASN VAL ASN GLU VAL ILE GLY PRO SEQRES 7 A 432 ALA LEU ILE GLY ARG ASP GLU LEU LYS GLN GLU GLU LEU SEQRES 8 A 432 ASP THR LEU MET LEU ARG LEU ASP GLY THR PRO ASN LYS SEQRES 9 A 432 GLY LYS LEU GLY ALA ASN ALA ILE LEU GLY CYS SER MET SEQRES 10 A 432 ALA ILE SER LYS ALA ALA ALA ALA ALA LYS GLY VAL PRO SEQRES 11 A 432 LEU TYR ARG TYR LEU ALA SER LEU ALA GLY THR LYS GLU SEQRES 12 A 432 LEU ARG LEU PRO VAL PRO CYS PHE ASN VAL ILE ASN GLY SEQRES 13 A 432 GLY LYS HIS ALA GLY ASN ALA LEU PRO PHE GLN GLU PHE SEQRES 14 A 432 MET ILE ALA PRO VAL LYS ALA THR SER PHE SER GLU ALA SEQRES 15 A 432 LEU ARG MET GLY SER GLU VAL TYR HIS SER LEU ARG GLY SEQRES 16 A 432 ILE ILE LYS LYS LYS TYR GLY GLN ASP ALA VAL ASN VAL SEQRES 17 A 432 GLY ASP GLU GLY GLY PHE ALA PRO PRO ILE LYS ASP ILE SEQRES 18 A 432 ASN GLU PRO LEU PRO ILE LEU MET GLU ALA ILE GLU GLU SEQRES 19 A 432 ALA GLY HIS ARG GLY LYS PHE ALA ILE CYS MET ASP CYS SEQRES 20 A 432 ALA ALA SER GLU THR TYR ASP GLU LYS LYS GLN GLN TYR SEQRES 21 A 432 ASN LEU THR PHE LYS SER PRO GLU PRO THR TRP VAL THR SEQRES 22 A 432 ALA GLU GLN LEU ARG GLU THR TYR CYS LYS TRP ALA HIS SEQRES 23 A 432 ASP TYR PRO ILE VAL SER ILE GLU ASP PRO TYR ASP GLN SEQRES 24 A 432 ASP ASP PHE ALA GLY PHE ALA GLY ILE THR GLU ALA LEU SEQRES 25 A 432 LYS GLY LYS THR GLN ILE VAL GLY ASP ASP LEU THR VAL SEQRES 26 A 432 THR ASN THR GLU ARG ILE LYS MET ALA ILE GLU LYS LYS SEQRES 27 A 432 ALA CYS ASN SER LEU LEU LEU LYS ILE ASN GLN ILE GLY SEQRES 28 A 432 THR ILE SER GLU ALA ILE ALA SER SER LYS LEU CYS MET SEQRES 29 A 432 GLU ASN GLY TRP SER VAL MET VAL SER HIS ARG SER GLY SEQRES 30 A 432 GLU THR GLU ASP THR TYR ILE ALA ASP LEU VAL VAL ALA SEQRES 31 A 432 LEU GLY SER GLY GLN ILE LYS THR GLY ALA PRO CYS ARG SEQRES 32 A 432 GLY GLU ARG THR ALA LYS LEU ASN GLN LEU LEU ARG ILE SEQRES 33 A 432 GLU GLU GLU LEU GLY ALA HIS ALA LYS PHE GLY PHE PRO SEQRES 34 A 432 GLY TRP SER HET ZN A 500 1 HET ZN A 501 1 HET SO4 A 600 5 HET EDO A 700 4 HET EDO A 701 4 HET EDO A 702 4 HET EDO A 703 4 HETNAM ZN ZINC ION HETNAM SO4 SULFATE ION HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 2 ZN 2(ZN 2+) FORMUL 4 SO4 O4 S 2- FORMUL 5 EDO 4(C2 H6 O2) FORMUL 9 HOH *382(H2 O) HELIX 1 1 ARG A 56 LYS A 60 5 5 HELIX 2 2 CYS A 62 VAL A 72 1 11 HELIX 3 3 VAL A 72 ILE A 78 1 7 HELIX 4 4 LYS A 84 GLY A 97 1 14 HELIX 5 5 GLY A 105 GLY A 125 1 21 HELIX 6 6 PRO A 127 GLY A 137 1 11 HELIX 7 7 GLY A 154 ALA A 157 5 4 HELIX 8 8 SER A 175 GLY A 199 1 25 HELIX 9 9 GLN A 200 VAL A 203 5 4 HELIX 10 10 GLU A 220 ALA A 232 1 13 HELIX 11 11 ALA A 245 GLU A 248 5 4 HELIX 12 12 THR A 270 TYR A 285 1 16 HELIX 13 13 ASP A 298 LEU A 309 1 12 HELIX 14 14 ASN A 324 LYS A 334 1 11 HELIX 15 15 LYS A 343 GLY A 348 1 6 HELIX 16 16 THR A 349 ASN A 363 1 15 HELIX 17 17 THR A 379 GLY A 389 1 11 HELIX 18 18 ARG A 400 GLY A 418 1 19 HELIX 19 19 PHE A 425 SER A 429 5 5 SHEET 1 A 3 LYS A 5 LEU A 12 0 SHEET 2 A 3 PRO A 18 THR A 26 -1 O THR A 25 N LYS A 5 SHEET 3 A 3 GLY A 29 ALA A 34 -1 O PHE A 31 N VAL A 24 SHEET 1 B 2 ARG A 142 LEU A 143 0 SHEET 2 B 2 LYS A 422 PHE A 423 1 O LYS A 422 N LEU A 143 SHEET 1 C 9 VAL A 145 PRO A 146 0 SHEET 2 C 9 GLN A 392 LYS A 394 1 O ILE A 393 N VAL A 145 SHEET 3 C 9 SER A 366 SER A 370 1 N VAL A 369 O LYS A 394 SHEET 4 C 9 SER A 339 LEU A 342 1 N LEU A 340 O MET A 368 SHEET 5 C 9 GLN A 314 GLY A 317 1 N GLY A 317 O LEU A 341 SHEET 6 C 9 ILE A 287 GLU A 291 1 N ILE A 290 O GLN A 314 SHEET 7 C 9 ALA A 239 ASP A 243 1 N MET A 242 O SER A 289 SHEET 8 C 9 GLU A 165 ALA A 169 -1 N MET A 167 O CYS A 241 SHEET 9 C 9 PHE A 148 ASN A 152 -1 N PHE A 148 O ILE A 168 SHEET 1 D 3 TYR A 250 ASP A 251 0 SHEET 2 D 3 GLN A 256 ASN A 258 -1 O GLN A 256 N ASP A 251 SHEET 3 D 3 TRP A 268 VAL A 269 -1 O VAL A 269 N TYR A 257 LINK O SER A 40 ZN ZN A 500 1555 1555 2.10 LINK OG SER A 40 ZN ZN A 500 1555 1555 2.34 LINK OD2 ASP A 243 ZN ZN A 501 1555 1555 2.32 LINK OE2 GLU A 291 ZN ZN A 501 1555 1555 2.03 LINK OD2 ASP A 318 ZN ZN A 501 1555 1555 2.19 LINK ZN ZN A 500 O2 SO4 A 600 1555 1555 2.17 LINK ZN ZN A 500 O HOH A 754 1555 1555 2.10 LINK ZN ZN A 500 O HOH A 804 1555 1555 2.19 LINK ZN ZN A 500 O HOH A1000 1555 1555 2.26 LINK ZN ZN A 501 O HOH A 742 1555 1555 2.14 LINK ZN ZN A 501 O HOH A1000 1555 1555 2.12 SITE 1 AC1 5 SER A 40 SO4 A 600 HOH A 754 HOH A 804 SITE 2 AC1 5 HOH A1000 SITE 1 AC2 6 ASP A 243 GLU A 291 ASP A 318 HOH A 742 SITE 2 AC2 6 HOH A 798 HOH A1000 SITE 1 AC3 11 GLY A 38 ALA A 39 SER A 40 HIS A 156 SITE 2 AC3 11 GLN A 164 LYS A 343 ARG A 372 SER A 373 SITE 3 AC3 11 ZN A 500 HOH A 758 HOH A1000 SITE 1 AC4 5 TYR A 129 GLN A 409 GLU A 416 HOH A 739 SITE 2 AC4 5 HOH A1003 SITE 1 AC5 5 GLU A 10 LEU A 411 GLU A 415 HOH A 807 SITE 2 AC5 5 HOH A 813 SITE 1 AC6 5 ARG A 142 GLY A 389 SER A 390 PHE A 425 SITE 2 AC6 5 PRO A 426 SITE 1 AC7 3 HIS A 188 SER A 189 HOH A 916 CRYST1 74.773 111.175 108.983 90.00 90.00 90.00 C 2 2 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 0.013374 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008995 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009176 0.00000