HEADER ISOMERASE 24-OCT-07 2VEL TITLE STRUCTURE-BASED ENZYME ENGINEERING EFFORTS WITH AN INACTIVE MONOMERIC TITLE 2 TIM VARIANT: THE IMPORTANCE OF A SINGLE POINT MUTATION FOR GENERATING TITLE 3 AN ACTIVE SITE WITH SUITABLE BINDING PROPERTIES. COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLYCOSOMAL TRIOSEPHOSPHATE ISOMERASE; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: RESIDUES 2-13,15-72,80-234,238-250; COMPND 5 SYNONYM: TIM, TRIOSE-PHOSPHATE ISOMERASE, TRIOSEPHOSPHATE ISOMERASE; COMPND 6 EC: 5.3.1.1; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: TRYPANOSOMA BRUCEI BRUCEI; SOURCE 3 ORGANISM_TAXID: 5702; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: PET3A KEYWDS ISOMERASE, TRIOSEPHOSPHATE ISOMERASE, TIM BARREL, GLYCOLYSIS, KEYWDS 2 ENGINEERING, PENTOSE SHUNT, BINDING POCKET, GLUCONEOGENESIS, LIPID KEYWDS 3 SYNTHESIS, SUBSTRATE SPECIFICITY, FATTY ACID BIOSYNTHESIS, TIM, KEYWDS 4 ENZYME, MONOMERIC, GLYCOSOME EXPDTA X-RAY DIFFRACTION AUTHOR M.ALAHUHTA,M.SALIN,M.G.CASTELEIJN,C.KEMMER,I.EL-SAYED,K.AUGUSTYNS, AUTHOR 2 P.NEUBAUER,R.K.WIERENGA REVDAT 6 01-MAY-24 2VEL 1 TITLE REVDAT 5 13-DEC-23 2VEL 1 REMARK REVDAT 4 24-JUL-19 2VEL 1 REMARK REVDAT 3 24-FEB-09 2VEL 1 VERSN REVDAT 2 08-JUL-08 2VEL 1 JRNL REMARK REVDAT 1 19-FEB-08 2VEL 0 JRNL AUTH M.ALAHUHTA,M.SALIN,M.G.CASTELEIJN,C.KEMMER,I.EL-SAYED, JRNL AUTH 2 K.AUGUSTYNS,P.NEUBAUER,R.K.WIERENGA JRNL TITL STRUCTURE-BASED PROTEIN ENGINEERING EFFORTS WITH A MONOMERIC JRNL TITL 2 TIM VARIANT: THE IMPORTANCE OF A SINGLE POINT MUTATION FOR JRNL TITL 3 GENERATING AN ACTIVE SITE WITH SUITABLE BINDING PROPERTIES. JRNL REF PROTEIN ENG.DES.SEL. V. 21 257 2008 JRNL REFN ISSN 1741-0126 JRNL PMID 18239072 JRNL DOI 10.1093/PROTEIN/GZN002 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.3.0028 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.93 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 17455 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) : 0.184 REMARK 3 R VALUE (WORKING SET) : 0.180 REMARK 3 FREE R VALUE : 0.257 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 919 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) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.36 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1280 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2000 REMARK 3 BIN FREE R VALUE SET COUNT : 67 REMARK 3 BIN FREE R VALUE : 0.3110 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3618 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 20 REMARK 3 SOLVENT ATOMS : 356 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.66 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.55000 REMARK 3 B22 (A**2) : 0.96000 REMARK 3 B33 (A**2) : -0.29000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.42000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.795 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.290 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.216 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.802 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.932 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.866 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3788 ; 0.012 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5162 ; 1.427 ; 1.941 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 497 ; 6.463 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 156 ;39.941 ;24.615 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 636 ;18.045 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 19 ;14.539 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 591 ; 0.096 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2849 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2241 ; 0.217 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2652 ; 0.304 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 409 ; 0.175 ; 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): 76 ; 0.234 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 20 ; 0.176 ; 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): 2447 ; 0.528 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3874 ; 0.919 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1512 ; 1.462 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1280 ; 2.268 ; 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 : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 16 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 7 A 11 1 REMARK 3 1 B 7 B 11 1 REMARK 3 2 A 38 A 42 1 REMARK 3 2 B 38 B 42 1 REMARK 3 3 A 61 A 64 1 REMARK 3 3 B 61 B 64 1 REMARK 3 4 A 90 A 93 1 REMARK 3 4 B 90 B 93 1 REMARK 3 5 A 122 A 127 1 REMARK 3 5 B 122 B 127 1 REMARK 3 6 A 163 A 166 1 REMARK 3 6 B 163 B 166 1 REMARK 3 7 A 207 A 210 1 REMARK 3 7 B 207 B 210 1 REMARK 3 8 A 230 A 233 1 REMARK 3 8 B 230 B 233 1 REMARK 3 9 A 18 A 31 1 REMARK 3 9 B 18 B 31 1 REMARK 3 10 A 47 A 54 1 REMARK 3 10 B 47 B 54 1 REMARK 3 11 A 79 A 87 1 REMARK 3 11 B 79 B 87 1 REMARK 3 12 A 105 A 120 1 REMARK 3 12 B 105 B 120 1 REMARK 3 13 A 140 A 151 1 REMARK 3 13 B 140 B 151 1 REMARK 3 14 A 179 A 196 1 REMARK 3 14 B 179 B 196 1 REMARK 3 15 A 219 A 224 1 REMARK 3 15 B 219 B 224 1 REMARK 3 16 A 241 A 249 1 REMARK 3 16 B 241 B 249 1 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT POSITIONAL 1 A (A): 947 ; 0.08 ; 0.05 REMARK 3 TIGHT THERMAL 1 A (A**2): 947 ; 0.14 ; 0.50 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: NULL REMARK 4 REMARK 4 2VEL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 24-OCT-07. REMARK 100 THE DEPOSITION ID IS D_1290034215. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : EMBL/DESY, HAMBURG REMARK 200 BEAMLINE : X13 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.8063 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18376 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 25.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 4.300 REMARK 200 R MERGE (I) : 0.15000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.7100 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 : 4.30 REMARK 200 R MERGE FOR SHELL (I) : 0.54000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.000 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: PDB ENTRY 1DKW REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.43 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG6000, 2,5% T-BUTANOL, 0.1 M REMARK 280 CITRIC ACID PH 5,5, PH 5.5 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 42.80000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS 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: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS 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 400 REMARK 400 COMPOUND REMARK 400 ENGINEERED RESIDUE IN CHAIN A, VAL 233 TO ALA REMARK 400 ENGINEERED RESIDUE IN CHAIN B, VAL 233 TO ALA 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 OD1 ASP A 26 NH2 ARG A 54 2.12 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 ARG A 54 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES REMARK 500 ARG A 54 NE - CZ - NH2 ANGL. DEV. = -4.9 DEGREES REMARK 500 ARG B 54 NE - CZ - NH1 ANGL. DEV. = -4.8 DEGREES REMARK 500 ARG B 54 NE - CZ - NH2 ANGL. DEV. = 3.7 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 THR A 249 45.89 -85.12 REMARK 500 HIS B 57 126.68 -33.90 REMARK 500 ASN B 66 -6.99 74.69 REMARK 500 TYR B 101 -60.26 -95.35 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A2014 DISTANCE = 7.38 ANGSTROMS REMARK 525 HOH B2022 DISTANCE = 6.52 ANGSTROMS REMARK 700 REMARK 700 SHEET REMARK 700 DETERMINATION METHOD: DSSP REMARK 700 THE SHEETS PRESENTED AS "AA" IN EACH CHAIN ON SHEET RECORDS REMARK 700 BELOW IS ACTUALLY AN 9-STRANDED BARREL THIS IS REPRESENTED BY REMARK 700 A 10-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS REMARK 700 ARE IDENTICAL. REMARK 700 THE SHEETS PRESENTED AS "BA" IN EACH CHAIN ON SHEET RECORDS REMARK 700 BELOW IS ACTUALLY AN 9-STRANDED BARREL THIS IS REPRESENTED BY REMARK 700 A 10-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS REMARK 700 ARE IDENTICAL. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A1251 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B1251 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PGA B1252 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PGA A1252 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1IIH RELATED DB: PDB REMARK 900 STRUCTURE OF TRYPANOSOMA BRUCEI BRUCEI TRIOSEPHOSPHATEISOMERASE REMARK 900 COMPLEXED WITH 3- PHOSPHOGLYCERATE REMARK 900 RELATED ID: 1KV5 RELATED DB: PDB REMARK 900 STRUCTURE OF TRYPANOSOMA BRUCEI BRUCEI TIM WITH THE SALT-BRIDGE- REMARK 900 FORMING RESIDUE ARG191 MUTATED TO SER REMARK 900 RELATED ID: 1TPF RELATED DB: PDB REMARK 900 TRIOSEPHOSPHATE ISOMERASE REMARK 900 RELATED ID: 1TRD RELATED DB: PDB REMARK 900 TRIOSEPHOSPHATE ISOMERASE 1 REMARK 900 RELATED ID: 1TSI RELATED DB: PDB REMARK 900 TRIOSEPHOSPHATE ISOMERASE COMPLEX WITH N- HYDROXY-4-PHOSPHONO- REMARK 900 BUTANAMIDE REMARK 900 RELATED ID: 1TTI RELATED DB: PDB REMARK 900 MOL_ID: 1; MOLECULE: TRIOSEPHOSPHATE ISOMERASE ; CHAIN: NULL; EC: REMARK 900 5.3.1.1; ENGINEERED: YES; MUTATION: I68G, A69N, K70A, S71D, DEL( 73- REMARK 900 79), P81A, A100W; OTHER_DETAILS: MONOTIM WITH A110W MUTATION REMARK 900 RELATED ID: 1TTJ RELATED DB: PDB REMARK 900 MOL_ID: 1; MOLECULE: TRIOSEPHOSPHATE ISOMERASE ; CHAIN: NULL; EC: REMARK 900 5.3.1.1; MUTATION: VARIANT OF MONOTIM WITH PHE 45 REPLACED BY SER REMARK 900 AND VAL 46 REPLACED BY SER (F45S, V46S) AND 73 - 79 DELETED REMARK 900 RELATED ID: 2J24 RELATED DB: PDB REMARK 900 THE FUNCTIONAL ROLE OF THE CONSERVED ACTIVE SITE PROLINE OF REMARK 900 TRIOSEPHOSPHATE ISOMERASE REMARK 900 RELATED ID: 2J27 RELATED DB: PDB REMARK 900 THE FUNCTIONAL ROLE OF THE CONSERVED ACTIVE SITE PROLINE OF REMARK 900 TRIOSEPHOSPHATE ISOMERASE REMARK 900 RELATED ID: 2V2C RELATED DB: PDB REMARK 900 THE A178L MUTATION IN THE C-TERMINAL HINGE OF THE FLEXIBLE LOOP-6 REMARK 900 OF TRIOSEPHOSPHATE ISOMERASE (TIM) INDUCES A MORE CLOSED REMARK 900 CONFORMATION OF THIS HINGE REGION IN DIMERIC AND MONOMERIC TIM REMARK 900 RELATED ID: 2V2D RELATED DB: PDB REMARK 900 THE A178L MUTATION IN THE C-TERMINAL HINGE OF THE FLEXIBLE LOOP-6 REMARK 900 OF TRIOSEPHOSPHATE ISOMERASE (TIM) INDUCES A MORE CLOSED REMARK 900 CONFORMATION OF THIS HINGE REGION IN DIMERIC AND MONOMERIC TIM REMARK 900 RELATED ID: 2V2H RELATED DB: PDB REMARK 900 THE A178L MUTATION IN THE C-TERMINAL HINGE OF THE FLEXIBLE LOOP-6 REMARK 900 OF TRIOSEPHOSPHATE ISOMERASE (TIM) INDUCES A MORE CLOSED REMARK 900 CONFORMATION OF THIS HINGE REGION IN DIMERIC AND MONOMERIC TIM REMARK 900 RELATED ID: 3TIM RELATED DB: PDB REMARK 900 TRIOSEPHOSPHATE ISOMERASE REMARK 900 RELATED ID: 1AG1 RELATED DB: PDB REMARK 900 MONOHYDROGEN PHOSPHATE BINDING TO TRYPANOSOMAL TRIOSEPHOSPHATE REMARK 900 ISOMERASE REMARK 900 RELATED ID: 1DKW RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF TRIOSE-PHOSPHATE ISOMERASE WITH MODIFIED REMARK 900 SUBSTRATE BINDING SITE REMARK 900 RELATED ID: 1IIG RELATED DB: PDB REMARK 900 STRUCTURE OF TRYPANOSOMA BRUCEI BRUCEI TRIOSEPHOSPHATEISOMERASE REMARK 900 COMPLEXED WITH 3- PHOSPHONOPROPIONATE REMARK 900 RELATED ID: 1ML1 RELATED DB: PDB REMARK 900 PROTEIN ENGINEERING WITH MONOMERIC TRIOSEPHOSPHATEISOMERASE: THE REMARK 900 MODELLING AND STRUCTURE VERIFICATION OFA SEVEN RESIDUE LOOP REMARK 900 RELATED ID: 1MSS RELATED DB: PDB REMARK 900 TRIOSEPHOSPHATE ISOMERASE MUTANT WITH PHE 45 REPLACED BY SER, VAL REMARK 900 46 REPLACED BY SER, AND RESIDUES 68 - 82 REPLACED BY THE RESIDUES REMARK 900 GNADALAS (F45S,V46S,68-82:GNADALAS ) REMARK 900 RELATED ID: 1MTM RELATED DB: PDB REMARK 900 LOOP-1 MODELING OF MONOTIM-A100W MUTANT REMARK 900 RELATED ID: 1TPD RELATED DB: PDB REMARK 900 TRIOSEPHOSPHATE ISOMERASE REMARK 900 RELATED ID: 1TPE RELATED DB: PDB REMARK 900 TRIOSEPHOSPHATE ISOMERASE REMARK 900 RELATED ID: 1TRI RELATED DB: PDB REMARK 900 TRIOSEPHOSPHATE ISOMERASE MUTANT WITH 15 RESIDUES (68 - 82) REMARK 900 REPLACED BY 8 RESIDUES REMARK 900 RELATED ID: 2V0T RELATED DB: PDB REMARK 900 THE A178L MUTATION IN THE C-TERMINAL HINGE OF THE FLEXIBLE LOOP-6 REMARK 900 OF TRIOSEPHOSPHATE ISOMERASE (TIM) INDUCES A MORE CLOSED REMARK 900 CONFORMATION OF THIS HINGE REGION IN DIMERIC AND MONOMERIC TIM REMARK 900 RELATED ID: 2V5L RELATED DB: PDB REMARK 900 STRUCTURES OF THE OPEN AND CLOSED STATE OF TRYPANOSOMAL REMARK 900 TRIOSEPHOSPHATE ISOMERASE: AS OBSERVED IN A NEW CRYSTAL FORM: REMARK 900 IMPLICATIONS FOR THE REACTION MECHANISM REMARK 900 RELATED ID: 4TIM RELATED DB: PDB REMARK 900 TRIOSEPHOSPHATE ISOMERASE COMPLEX WITH 2- PHOSPHOGLYCERATE REMARK 900 RELATED ID: 5TIM RELATED DB: PDB REMARK 900 TRIOSEPHOSPHATE ISOMERASE COMPLEX WITH SULFATE REMARK 900 RELATED ID: 6TIM RELATED DB: PDB REMARK 900 TRIOSEPHOSPHATE ISOMERASE COMPLEX WITH GLYCEROL -3-PHOSPHATE REMARK 900 RELATED ID: 2VEI RELATED DB: PDB REMARK 900 STRUCTURE-BASED ENZYME ENGINEERING EFFORTS WITH AN INACTIVE REMARK 900 MONOMERIC TIM VARIANT: THE IMPORTANCE OF A SINGLE POINT MUTATION REMARK 900 FOR GENERATING AN ACTIVE SITE WITH SUITABLE BINDING PROPERTIES REMARK 900 RELATED ID: 2VEK RELATED DB: PDB REMARK 900 STRUCTURE-BASED ENZYME ENGINEERING EFFORTS WITH AN INACTIVE REMARK 900 MONOMERIC TIM VARIANT: THE IMPORTANCE OF A SINGLE POINT MUTATION REMARK 900 FOR GENERATING AN ACTIVE SITE WITH SUITABLE BINDING PROPERTIES DBREF 2VEL A 2 13 UNP P04789 TPIS_TRYBB 2 13 DBREF 2VEL A 15 72 UNP P04789 TPIS_TRYBB 15 72 DBREF 2VEL A 80 234 UNP P04789 TPIS_TRYBB 80 234 DBREF 2VEL A 238 250 UNP P04789 TPIS_TRYBB 238 250 DBREF 2VEL B 2 13 UNP P04789 TPIS_TRYBB 2 13 DBREF 2VEL B 15 72 UNP P04789 TPIS_TRYBB 15 72 DBREF 2VEL B 80 234 UNP P04789 TPIS_TRYBB 80 234 DBREF 2VEL B 238 250 UNP P04789 TPIS_TRYBB 238 250 SEQADV 2VEL SER A 15 UNP P04789 ASN 15 CONFLICT SEQADV 2VEL PRO A 18 UNP P04789 GLN 18 CONFLICT SEQADV 2VEL ASP A 19 UNP P04789 GLN 19 CONFLICT SEQADV 2VEL GLY A 68 UNP P04789 ILE 68 CONFLICT SEQADV 2VEL ASN A 69 UNP P04789 ALA 69 CONFLICT SEQADV 2VEL ALA A 70 UNP P04789 LYS 70 CONFLICT SEQADV 2VEL ASP A 71 UNP P04789 SER 71 CONFLICT SEQADV 2VEL ALA A 72 UNP P04789 GLY 72 CONFLICT SEQADV 2VEL ALA A 81 UNP P04789 PRO 81 CONFLICT SEQADV 2VEL SER A 82 UNP P04789 ILE 82 CONFLICT SEQADV 2VEL TRP A 100 UNP P04789 ALA 100 CONFLICT SEQADV 2VEL ALA A 233 UNP P04789 VAL 233 ENGINEERED MUTATION SEQADV 2VEL SER B 15 UNP P04789 ASN 15 CONFLICT SEQADV 2VEL PRO B 18 UNP P04789 GLN 18 CONFLICT SEQADV 2VEL ASP B 19 UNP P04789 GLN 19 CONFLICT SEQADV 2VEL GLY B 68 UNP P04789 ILE 68 CONFLICT SEQADV 2VEL ASN B 69 UNP P04789 ALA 69 CONFLICT SEQADV 2VEL ALA B 70 UNP P04789 LYS 70 CONFLICT SEQADV 2VEL ASP B 71 UNP P04789 SER 71 CONFLICT SEQADV 2VEL ALA B 72 UNP P04789 GLY 72 CONFLICT SEQADV 2VEL ALA B 81 UNP P04789 PRO 81 CONFLICT SEQADV 2VEL SER B 82 UNP P04789 ILE 82 CONFLICT SEQADV 2VEL TRP B 100 UNP P04789 ALA 100 CONFLICT SEQADV 2VEL ALA B 233 UNP P04789 VAL 233 ENGINEERED MUTATION SEQRES 1 A 238 SER LYS PRO GLN PRO ILE ALA ALA ALA ASN TRP LYS SER SEQRES 2 A 238 GLY SER PRO ASP SER LEU SER GLU LEU ILE ASP LEU PHE SEQRES 3 A 238 ASN SER THR SER ILE ASN HIS ASP VAL GLN CYS VAL VAL SEQRES 4 A 238 ALA SER THR PHE VAL HIS LEU ALA MET THR LYS GLU ARG SEQRES 5 A 238 LEU SER HIS PRO LYS PHE VAL ILE ALA ALA GLN ASN ALA SEQRES 6 A 238 GLY ASN ALA ASP ALA LEU ALA SER LEU LYS ASP PHE GLY SEQRES 7 A 238 VAL ASN TRP ILE VAL LEU GLY HIS SER GLU ARG ARG TRP SEQRES 8 A 238 TYR TYR GLY GLU THR ASN GLU ILE VAL ALA ASP LYS VAL SEQRES 9 A 238 ALA ALA ALA VAL ALA SER GLY PHE MET VAL ILE ALA CYS SEQRES 10 A 238 ILE GLY GLU THR LEU GLN GLU ARG GLU SER GLY ARG THR SEQRES 11 A 238 ALA VAL VAL VAL LEU THR GLN ILE ALA ALA ILE ALA LYS SEQRES 12 A 238 LYS LEU LYS LYS ALA ASP TRP ALA LYS VAL VAL ILE ALA SEQRES 13 A 238 TYR GLU PRO VAL TRP ALA ILE GLY THR GLY LYS VAL ALA SEQRES 14 A 238 THR PRO GLN GLN ALA GLN GLU ALA HIS ALA LEU ILE ARG SEQRES 15 A 238 SER TRP VAL SER SER LYS ILE GLY ALA ASP VAL ALA GLY SEQRES 16 A 238 GLU LEU ARG ILE LEU TYR GLY GLY SER VAL ASN GLY LYS SEQRES 17 A 238 ASN ALA ARG THR LEU TYR GLN GLN ARG ASP VAL ASN GLY SEQRES 18 A 238 PHE LEU ALA GLY LEU LYS PRO GLU PHE VAL ASP ILE ILE SEQRES 19 A 238 LYS ALA THR GLN SEQRES 1 B 238 SER LYS PRO GLN PRO ILE ALA ALA ALA ASN TRP LYS SER SEQRES 2 B 238 GLY SER PRO ASP SER LEU SER GLU LEU ILE ASP LEU PHE SEQRES 3 B 238 ASN SER THR SER ILE ASN HIS ASP VAL GLN CYS VAL VAL SEQRES 4 B 238 ALA SER THR PHE VAL HIS LEU ALA MET THR LYS GLU ARG SEQRES 5 B 238 LEU SER HIS PRO LYS PHE VAL ILE ALA ALA GLN ASN ALA SEQRES 6 B 238 GLY ASN ALA ASP ALA LEU ALA SER LEU LYS ASP PHE GLY SEQRES 7 B 238 VAL ASN TRP ILE VAL LEU GLY HIS SER GLU ARG ARG TRP SEQRES 8 B 238 TYR TYR GLY GLU THR ASN GLU ILE VAL ALA ASP LYS VAL SEQRES 9 B 238 ALA ALA ALA VAL ALA SER GLY PHE MET VAL ILE ALA CYS SEQRES 10 B 238 ILE GLY GLU THR LEU GLN GLU ARG GLU SER GLY ARG THR SEQRES 11 B 238 ALA VAL VAL VAL LEU THR GLN ILE ALA ALA ILE ALA LYS SEQRES 12 B 238 LYS LEU LYS LYS ALA ASP TRP ALA LYS VAL VAL ILE ALA SEQRES 13 B 238 TYR GLU PRO VAL TRP ALA ILE GLY THR GLY LYS VAL ALA SEQRES 14 B 238 THR PRO GLN GLN ALA GLN GLU ALA HIS ALA LEU ILE ARG SEQRES 15 B 238 SER TRP VAL SER SER LYS ILE GLY ALA ASP VAL ALA GLY SEQRES 16 B 238 GLU LEU ARG ILE LEU TYR GLY GLY SER VAL ASN GLY LYS SEQRES 17 B 238 ASN ALA ARG THR LEU TYR GLN GLN ARG ASP VAL ASN GLY SEQRES 18 B 238 PHE LEU ALA GLY LEU LYS PRO GLU PHE VAL ASP ILE ILE SEQRES 19 B 238 LYS ALA THR GLN HET CL A1251 1 HET PGA A1252 9 HET CL B1251 1 HET PGA B1252 9 HETNAM CL CHLORIDE ION HETNAM PGA 2-PHOSPHOGLYCOLIC ACID FORMUL 3 CL 2(CL 1-) FORMUL 4 PGA 2(C2 H5 O6 P) FORMUL 7 HOH *356(H2 O) HELIX 1 1 SER A 20 THR A 31 1 12 HELIX 2 2 THR A 44 VAL A 46 5 3 HELIX 3 3 HIS A 47 LEU A 55 1 9 HELIX 4 4 ASN A 69 PHE A 86 1 11 HELIX 5 5 HIS A 95 TYR A 101 1 7 HELIX 6 6 THR A 105 SER A 119 1 15 HELIX 7 7 THR A 130 SER A 136 1 7 HELIX 8 8 ARG A 138 LYS A 152 1 15 HELIX 9 9 LYS A 155 ALA A 160 5 6 HELIX 10 10 THR A 179 GLY A 199 1 21 HELIX 11 11 GLY A 199 LEU A 206 1 8 HELIX 12 12 ASN A 215 GLN A 225 1 11 HELIX 13 13 GLU A 241 ALA A 248 1 8 HELIX 14 14 SER B 20 THR B 31 1 12 HELIX 15 15 THR B 44 LEU B 55 1 12 HELIX 16 16 ASN B 69 PHE B 86 1 11 HELIX 17 17 HIS B 95 TYR B 101 1 7 HELIX 18 18 THR B 105 SER B 119 1 15 HELIX 19 19 THR B 130 SER B 136 1 7 HELIX 20 20 ARG B 138 LYS B 153 1 16 HELIX 21 21 LYS B 155 ALA B 160 5 6 HELIX 22 22 PRO B 168 ILE B 172 5 5 HELIX 23 23 THR B 179 ILE B 198 1 20 HELIX 24 24 GLY B 199 LEU B 206 1 8 HELIX 25 25 ASN B 218 GLN B 225 1 8 HELIX 26 26 GLU B 241 ALA B 248 1 8 SHEET 1 AA10 ILE A 7 ASN A 11 0 SHEET 2 AA10 GLN A 38 ALA A 42 1 O GLN A 38 N ALA A 8 SHEET 3 AA10 PHE A 60 GLN A 65 1 O VAL A 61 N VAL A 41 SHEET 4 AA10 TRP A 90 LEU A 93 1 O TRP A 90 N ALA A 64 SHEET 5 AA10 MET A 122 ILE A 127 1 O MET A 122 N ILE A 91 SHEET 6 AA10 VAL A 162 TYR A 166 1 O VAL A 163 N ALA A 125 SHEET 7 AA10 ARG A 207 GLY A 211 1 O ARG A 207 N ILE A 164 SHEET 8 AA10 GLY A 230 GLY A 234 1 O GLY A 230 N TYR A 210 SHEET 9 AA10 ILE A 7 ASN A 11 1 O ILE A 7 N PHE A 231 SHEET 10 AA10 ILE A 7 ASN A 11 0 SHEET 1 BA10 ILE B 7 ASN B 11 0 SHEET 2 BA10 GLN B 38 ALA B 42 1 O GLN B 38 N ALA B 8 SHEET 3 BA10 PHE B 60 GLN B 65 1 O VAL B 61 N VAL B 41 SHEET 4 BA10 TRP B 90 LEU B 93 1 O TRP B 90 N ALA B 64 SHEET 5 BA10 MET B 122 ILE B 127 1 O MET B 122 N ILE B 91 SHEET 6 BA10 VAL B 162 TYR B 166 1 O VAL B 163 N ALA B 125 SHEET 7 BA10 ILE B 208 GLY B 211 1 O LEU B 209 N TYR B 166 SHEET 8 BA10 GLY B 230 GLY B 234 1 O GLY B 230 N TYR B 210 SHEET 9 BA10 ILE B 7 ASN B 11 1 O ILE B 7 N PHE B 231 SHEET 10 BA10 ILE B 7 ASN B 11 0 SITE 1 AC1 2 ASN A 34 HIS A 35 SITE 1 AC2 4 ARG A 98 TYR A 102 ARG B 98 TYR B 102 SITE 1 AC3 14 ASN B 11 LYS B 13 HIS B 95 GLU B 167 SITE 2 AC3 14 ALA B 171 ILE B 172 GLY B 173 SER B 213 SITE 3 AC3 14 LEU B 232 ALA B 233 GLY B 234 LYS B 239 SITE 4 AC3 14 HOH B2176 HOH B2192 SITE 1 AC4 12 ASN A 11 LYS A 13 HIS A 95 GLU A 167 SITE 2 AC4 12 ALA A 171 ILE A 172 GLY A 173 GLY A 212 SITE 3 AC4 12 SER A 213 GLY A 234 HOH A2160 HOH A2161 CRYST1 44.820 85.600 55.270 90.00 98.23 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 0.022311 0.000000 0.003227 0.00000 SCALE2 0.000000 0.011682 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018281 0.00000