HEADER ISOMERASE 26-MAY-15 5BNK TITLE CRYSTAL STRUCTURE OF T75C MUTANT OF TRIOSEPHOSPHATE ISOMERASE FROM TITLE 2 PLASMODIUM FALCIPARUM COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRIOSEPHOSPHATE ISOMERASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: TIM,TRIOSE-PHOSPHATE ISOMERASE; COMPND 5 EC: 5.3.1.1; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PLASMODIUM FALCIPARUM; SOURCE 3 ORGANISM_TAXID: 5833; SOURCE 4 GENE: TPI; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: AA200; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PTRC99A KEYWDS TIM BARREL, ISOMERASE EXPDTA X-RAY DIFFRACTION AUTHOR D.BANDYOPADHYAY,M.R.N.MURTHY,H.BALARAM,P.BALARAM REVDAT 4 08-NOV-23 5BNK 1 REMARK LINK REVDAT 3 28-OCT-15 5BNK 1 JRNL REVDAT 2 05-AUG-15 5BNK 1 JRNL REVDAT 1 29-JUL-15 5BNK 0 JRNL AUTH D.BANDYOPADHYAY,M.R.MURTHY,H.BALARAM,P.BALARAM JRNL TITL PROBING THE ROLE OF HIGHLY CONSERVED RESIDUES IN JRNL TITL 2 TRIOSEPHOSPHATE ISOMERASE - ANALYSIS OF SITE SPECIFIC JRNL TITL 3 MUTANTS AT POSITIONS 64 AND 75 IN THE PLASMODIAL ENZYME JRNL REF FEBS J. V. 282 3863 2015 JRNL REFN ISSN 1742-464X JRNL PMID 26206206 JRNL DOI 10.1111/FEBS.13384 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0103 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 73.79 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 38709 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) : 0.209 REMARK 3 R VALUE (WORKING SET) : 0.206 REMARK 3 FREE R VALUE : 0.258 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2041 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) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2804 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.97 REMARK 3 BIN R VALUE (WORKING SET) : 0.3200 REMARK 3 BIN FREE R VALUE SET COUNT : 166 REMARK 3 BIN FREE R VALUE : 0.3610 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3526 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 10 REMARK 3 SOLVENT ATOMS : 273 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.87 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.19000 REMARK 3 B22 (A**2) : -0.35000 REMARK 3 B33 (A**2) : -0.87000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.26000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.153 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.149 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.126 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.221 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.951 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.926 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3600 ; 0.018 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3343 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4883 ; 1.850 ; 1.942 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7611 ; 1.054 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 476 ; 6.784 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 149 ;39.120 ;25.034 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 565 ;13.210 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 15 ;12.102 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 583 ; 0.107 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4183 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 824 ; 0.002 ; 0.020 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): 1913 ; 2.972 ; 3.055 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1912 ; 2.972 ; 3.054 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2380 ; 3.878 ; 4.566 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 5BNK COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 27-MAY-15. REMARK 100 THE DEPOSITION ID IS D_1000210086. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-NOV-14 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : BM14 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.95372 REMARK 200 MONOCHROMATOR : SI (111) MONOCHROMATOR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : IMOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.21 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 40771 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 73.792 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 4.100 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.05800 REMARK 200 FOR THE DATA SET : 12.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 4.10 REMARK 200 R MERGE FOR SHELL (I) : 0.59300 REMARK 200 R SYM FOR SHELL (I) : 0.59300 REMARK 200 FOR SHELL : 1.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.1.4 REMARK 200 STARTING MODEL: 1O5X REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 38.75 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.01 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 16% PEG 1450, 100MM HEPES, 10 MM REMARK 280 CALCIUM CHLORIDE, 0.5 MM EDTA, 0.5 MM DTT, 0.5 MM SODIUM AZIDE, REMARK 280 PH 7.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 296.0K 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 38.44000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2830 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18550 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -39.0 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 1 REMARK 465 ALA A 2 REMARK 465 SER A 73 REMARK 465 TYR A 74 REMARK 465 MET B 1 REMARK 465 ALA B 2 REMARK 465 GLY B 70 REMARK 465 ASN B 71 REMARK 465 GLY B 72 REMARK 465 SER B 73 REMARK 465 TYR B 74 REMARK 465 CYS B 75 REMARK 465 TYR B 101 REMARK 465 GLU B 135 REMARK 465 ALA B 169 REMARK 465 ILE B 170 REMARK 465 GLY B 171 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 LYS A 12 CE NZ REMARK 470 LEU A 17 CD1 CD2 REMARK 470 GLU A 18 CG CD OE1 OE2 REMARK 470 LYS A 21 CG CD CE NZ REMARK 470 PHE A 69 CG CD1 CD2 CE1 CE2 CZ REMARK 470 GLU A 77 CD OE1 OE2 REMARK 470 LEU A 86 CG CD1 CD2 REMARK 470 PHE A 96 CG CD1 CD2 CE1 CE2 CZ REMARK 470 GLU A 97 CG CD OE1 OE2 REMARK 470 LYS A 100 CG CD CE NZ REMARK 470 TYR A 101 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 HIS A 103 CB CG ND1 CD2 CE1 NE2 REMARK 470 GLU A 104 CG CD OE1 OE2 REMARK 470 GLU A 107 CG CD OE1 OE2 REMARK 470 GLN A 114 CG CD OE1 NE2 REMARK 470 ASN A 120 CB CG OD1 ND2 REMARK 470 LYS A 174 CE NZ REMARK 470 THR A 175 CB OG1 CG2 REMARK 470 GLU A 179 CG CD OE1 OE2 REMARK 470 LEU A 183 CB CG CD1 CD2 REMARK 470 LYS A 186 CD CE NZ REMARK 470 LYS A 190 CG CD CE NZ REMARK 470 LYS A 193 CG CD CE NZ REMARK 470 ASP A 194 CG OD1 OD2 REMARK 470 GLU A 198 CG CD OE1 OE2 REMARK 470 LYS A 199 CG CD CE NZ REMARK 470 ASN A 213 CG OD1 ND2 REMARK 470 GLU A 215 CG CD OE1 OE2 REMARK 470 GLN A 222 CB CG CD OE1 NE2 REMARK 470 GLU A 224 CG CD OE1 OE2 REMARK 470 ASN A 233 CB CG OD1 ND2 REMARK 470 GLU A 238 CG CD OE1 OE2 REMARK 470 LYS A 245 CG CD CE NZ REMARK 470 GLU B 18 CG CD OE1 OE2 REMARK 470 LYS B 21 CG CD CE NZ REMARK 470 ASP B 31 CG OD1 OD2 REMARK 470 LYS B 36 CG CD CE NZ REMARK 470 LYS B 53 CG CD CE NZ REMARK 470 LYS B 68 CE NZ REMARK 470 GLU B 77 CG CD OE1 OE2 REMARK 470 GLU B 81 CG CD OE1 OE2 REMARK 470 LYS B 84 CD CE NZ REMARK 470 ASN B 87 CG OD1 ND2 REMARK 470 PHE B 96 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ARG B 98 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 100 CB CG CD CE NZ REMARK 470 PHE B 102 CG CD1 CD2 CE1 CE2 CZ REMARK 470 HIS B 103 CG ND1 CD2 CE1 NE2 REMARK 470 LYS B 118 CG CD CE NZ REMARK 470 ASN B 120 CG OD1 ND2 REMARK 470 LEU B 131 CB CG CD1 CD2 REMARK 470 GLU B 132 CG CD OE1 OE2 REMARK 470 GLN B 136 CG CD OE1 NE2 REMARK 470 LYS B 138 CG CD CE NZ REMARK 470 ILE B 140 CG1 CG2 CD1 REMARK 470 GLU B 141 CG CD OE1 OE2 REMARK 470 THR B 144 CB OG1 CG2 REMARK 470 LYS B 145 CG CD CE NZ REMARK 470 LYS B 148 CG CD CE NZ REMARK 470 ASP B 155 CB CG OD1 OD2 REMARK 470 LYS B 174 CG CD CE NZ REMARK 470 THR B 175 OG1 CG2 REMARK 470 LEU B 183 CG CD1 CD2 REMARK 470 LYS B 186 CD CE NZ REMARK 470 LYS B 190 CG CD CE NZ REMARK 470 LYS B 193 CG CD CE NZ REMARK 470 THR B 195 OG1 CG2 REMARK 470 GLU B 198 CB CG CD OE1 OE2 REMARK 470 LYS B 199 CG CD CE NZ REMARK 470 ASN B 202 CB CG OD1 ND2 REMARK 470 GLN B 203 CD OE1 NE2 REMARK 470 GLN B 222 CG CD OE1 NE2 REMARK 470 GLU B 224 CG CD OE1 OE2 REMARK 470 LYS B 237 CE NZ REMARK 470 GLU B 238 CG CD OE1 OE2 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 SER A 246 O HOH A 401 2.18 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 3 NE - CZ - NH2 ANGL. DEV. = 3.4 DEGREES REMARK 500 ARG B 205 NE - CZ - NH1 ANGL. DEV. = 3.1 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 LYS A 12 -151.05 53.63 REMARK 500 ASP A 155 -76.55 -94.75 REMARK 500 LYS B 12 -147.17 50.21 REMARK 500 LYS B 186 -58.55 -28.72 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 NA A 302 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 TYR A 5 OH REMARK 620 2 ILE A 221 O 94.1 REMARK 620 3 GLN A 223 O 157.7 91.6 REMARK 620 4 ILE A 226 O 112.0 102.8 87.6 REMARK 620 5 HOH A 432 O 85.7 171.4 91.8 69.5 REMARK 620 6 HOH B 422 O 76.2 97.7 81.7 157.1 90.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B 302 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 TYR B 5 OH REMARK 620 2 ILE B 221 O 86.1 REMARK 620 3 GLN B 223 O 157.2 92.0 REMARK 620 4 ILE B 226 O 118.2 99.5 84.6 REMARK 620 5 HOH B 432 O 92.2 172.7 92.4 75.1 REMARK 620 6 HOH B 463 O 72.3 93.9 85.2 163.4 92.4 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA B 302 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1O5X RELATED DB: PDB REMARK 900 CONTAINS THE NATIVE PROTEIN COMPLEXED WITH 2-PHOSPHOGLYCERATE REMARK 900 RELATED ID: 1YDV RELATED DB: PDB REMARK 900 CONTAINS THE UNLIGANDED NATIVE PROTEIN REMARK 900 RELATED ID: 4ZZ9 RELATED DB: PDB REMARK 900 RELATED ID: 5BMW RELATED DB: PDB REMARK 900 RELATED ID: 5BMX RELATED DB: PDB DBREF 5BNK A 1 248 UNP Q07412 TPIS_PLAFA 1 248 DBREF 5BNK B 1 248 UNP Q07412 TPIS_PLAFA 1 248 SEQADV 5BNK CYS A 75 UNP Q07412 THR 75 ENGINEERED MUTATION SEQADV 5BNK VAL A 163 UNP Q07412 ALA 163 ENGINEERED MUTATION SEQADV 5BNK CYS B 75 UNP Q07412 THR 75 ENGINEERED MUTATION SEQADV 5BNK VAL B 163 UNP Q07412 ALA 163 ENGINEERED MUTATION SEQRES 1 A 248 MET ALA ARG LYS TYR PHE VAL ALA ALA ASN TRP LYS CYS SEQRES 2 A 248 ASN GLY THR LEU GLU SER ILE LYS SER LEU THR ASN SER SEQRES 3 A 248 PHE ASN ASN LEU ASP PHE ASP PRO SER LYS LEU ASP VAL SEQRES 4 A 248 VAL VAL PHE PRO VAL SER VAL HIS TYR ASP HIS THR ARG SEQRES 5 A 248 LYS LEU LEU GLN SER LYS PHE SER THR GLY ILE GLN ASN SEQRES 6 A 248 VAL SER LYS PHE GLY ASN GLY SER TYR CYS GLY GLU VAL SEQRES 7 A 248 SER ALA GLU ILE ALA LYS ASP LEU ASN ILE GLU TYR VAL SEQRES 8 A 248 ILE ILE GLY HIS PHE GLU ARG ARG LYS TYR PHE HIS GLU SEQRES 9 A 248 THR ASP GLU ASP VAL ARG GLU LYS LEU GLN ALA SER LEU SEQRES 10 A 248 LYS ASN ASN LEU LYS ALA VAL VAL CYS PHE GLY GLU SER SEQRES 11 A 248 LEU GLU GLN ARG GLU GLN ASN LYS THR ILE GLU VAL ILE SEQRES 12 A 248 THR LYS GLN VAL LYS ALA PHE VAL ASP LEU ILE ASP ASN SEQRES 13 A 248 PHE ASP ASN VAL ILE LEU VAL TYR GLU PRO LEU TRP ALA SEQRES 14 A 248 ILE GLY THR GLY LYS THR ALA THR PRO GLU GLN ALA GLN SEQRES 15 A 248 LEU VAL HIS LYS GLU ILE ARG LYS ILE VAL LYS ASP THR SEQRES 16 A 248 CYS GLY GLU LYS GLN ALA ASN GLN ILE ARG ILE LEU TYR SEQRES 17 A 248 GLY GLY SER VAL ASN THR GLU ASN CYS SER SER LEU ILE SEQRES 18 A 248 GLN GLN GLU ASP ILE ASP GLY PHE LEU VAL GLY ASN ALA SEQRES 19 A 248 SER LEU LYS GLU SER PHE VAL ASP ILE ILE LYS SER ALA SEQRES 20 A 248 MET SEQRES 1 B 248 MET ALA ARG LYS TYR PHE VAL ALA ALA ASN TRP LYS CYS SEQRES 2 B 248 ASN GLY THR LEU GLU SER ILE LYS SER LEU THR ASN SER SEQRES 3 B 248 PHE ASN ASN LEU ASP PHE ASP PRO SER LYS LEU ASP VAL SEQRES 4 B 248 VAL VAL PHE PRO VAL SER VAL HIS TYR ASP HIS THR ARG SEQRES 5 B 248 LYS LEU LEU GLN SER LYS PHE SER THR GLY ILE GLN ASN SEQRES 6 B 248 VAL SER LYS PHE GLY ASN GLY SER TYR CYS GLY GLU VAL SEQRES 7 B 248 SER ALA GLU ILE ALA LYS ASP LEU ASN ILE GLU TYR VAL SEQRES 8 B 248 ILE ILE GLY HIS PHE GLU ARG ARG LYS TYR PHE HIS GLU SEQRES 9 B 248 THR ASP GLU ASP VAL ARG GLU LYS LEU GLN ALA SER LEU SEQRES 10 B 248 LYS ASN ASN LEU LYS ALA VAL VAL CYS PHE GLY GLU SER SEQRES 11 B 248 LEU GLU GLN ARG GLU GLN ASN LYS THR ILE GLU VAL ILE SEQRES 12 B 248 THR LYS GLN VAL LYS ALA PHE VAL ASP LEU ILE ASP ASN SEQRES 13 B 248 PHE ASP ASN VAL ILE LEU VAL TYR GLU PRO LEU TRP ALA SEQRES 14 B 248 ILE GLY THR GLY LYS THR ALA THR PRO GLU GLN ALA GLN SEQRES 15 B 248 LEU VAL HIS LYS GLU ILE ARG LYS ILE VAL LYS ASP THR SEQRES 16 B 248 CYS GLY GLU LYS GLN ALA ASN GLN ILE ARG ILE LEU TYR SEQRES 17 B 248 GLY GLY SER VAL ASN THR GLU ASN CYS SER SER LEU ILE SEQRES 18 B 248 GLN GLN GLU ASP ILE ASP GLY PHE LEU VAL GLY ASN ALA SEQRES 19 B 248 SER LEU LYS GLU SER PHE VAL ASP ILE ILE LYS SER ALA SEQRES 20 B 248 MET HET EDO A 301 4 HET NA A 302 1 HET EDO B 301 4 HET NA B 302 1 HETNAM EDO 1,2-ETHANEDIOL HETNAM NA SODIUM ION HETSYN EDO ETHYLENE GLYCOL FORMUL 3 EDO 2(C2 H6 O2) FORMUL 4 NA 2(NA 1+) FORMUL 7 HOH *273(H2 O) HELIX 1 AA1 THR A 16 ASN A 29 1 14 HELIX 2 AA2 VAL A 44 VAL A 46 5 3 HELIX 3 AA3 HIS A 47 LEU A 55 1 9 HELIX 4 AA4 SER A 79 LEU A 86 1 8 HELIX 5 AA5 HIS A 95 PHE A 102 1 8 HELIX 6 AA6 THR A 105 ASN A 119 1 15 HELIX 7 AA7 SER A 130 GLN A 136 1 7 HELIX 8 AA8 LYS A 138 ALA A 149 1 12 HELIX 9 AA9 PHE A 150 ILE A 154 5 5 HELIX 10 AB1 PRO A 166 ILE A 170 5 5 HELIX 11 AB2 THR A 177 GLY A 197 1 21 HELIX 12 AB3 GLY A 197 ILE A 204 1 8 HELIX 13 AB4 ASN A 216 GLN A 223 1 8 HELIX 14 AB5 GLY A 232 LEU A 236 5 5 HELIX 15 AB6 LYS A 237 GLU A 238 5 2 HELIX 16 AB7 SER A 239 MET A 248 1 10 HELIX 17 AB8 THR B 16 ASN B 29 1 14 HELIX 18 AB9 VAL B 44 VAL B 46 5 3 HELIX 19 AC1 HIS B 47 LEU B 55 1 9 HELIX 20 AC2 SER B 79 LEU B 86 1 8 HELIX 21 AC3 HIS B 95 LYS B 100 1 6 HELIX 22 AC4 THR B 105 ASN B 119 1 15 HELIX 23 AC5 LYS B 138 ASP B 152 1 15 HELIX 24 AC6 THR B 177 GLY B 197 1 21 HELIX 25 AC7 GLY B 197 ILE B 204 1 8 HELIX 26 AC8 ASN B 216 GLN B 222 1 7 HELIX 27 AC9 GLY B 232 GLU B 238 5 7 HELIX 28 AD1 SER B 239 ALA B 247 1 9 SHEET 1 AA1 9 TYR A 5 ASN A 10 0 SHEET 2 AA1 9 LEU A 37 PHE A 42 1 O PHE A 42 N ALA A 9 SHEET 3 AA1 9 SER A 60 ILE A 63 1 O SER A 60 N VAL A 41 SHEET 4 AA1 9 TYR A 90 ILE A 93 1 O TYR A 90 N ILE A 63 SHEET 5 AA1 9 LYS A 122 PHE A 127 1 O VAL A 124 N VAL A 91 SHEET 6 AA1 9 VAL A 160 TYR A 164 1 O ILE A 161 N VAL A 125 SHEET 7 AA1 9 ARG A 205 TYR A 208 1 O LEU A 207 N LEU A 162 SHEET 8 AA1 9 GLY A 228 VAL A 231 1 O GLY A 228 N TYR A 208 SHEET 9 AA1 9 TYR A 5 ASN A 10 1 N ALA A 8 O PHE A 229 SHEET 1 AA2 9 TYR B 5 ASN B 10 0 SHEET 2 AA2 9 LEU B 37 PHE B 42 1 O ASP B 38 N TYR B 5 SHEET 3 AA2 9 SER B 60 ILE B 63 1 O SER B 60 N VAL B 39 SHEET 4 AA2 9 TYR B 90 ILE B 93 1 O TYR B 90 N ILE B 63 SHEET 5 AA2 9 LYS B 122 PHE B 127 1 O VAL B 124 N VAL B 91 SHEET 6 AA2 9 VAL B 160 TYR B 164 1 O ILE B 161 N ALA B 123 SHEET 7 AA2 9 ARG B 205 TYR B 208 1 O LEU B 207 N LEU B 162 SHEET 8 AA2 9 GLY B 228 VAL B 231 1 O GLY B 228 N TYR B 208 SHEET 9 AA2 9 TYR B 5 ASN B 10 1 N ALA B 8 O VAL B 231 LINK OH TYR A 5 NA NA A 302 1555 1555 2.43 LINK O ILE A 221 NA NA A 302 1555 1555 2.38 LINK O GLN A 223 NA NA A 302 1555 1555 2.49 LINK O ILE A 226 NA NA A 302 1555 1555 2.45 LINK NA NA A 302 O HOH A 432 1555 1555 2.31 LINK NA NA A 302 O HOH B 422 1555 1554 2.48 LINK OH TYR B 5 NA NA B 302 1555 1555 2.49 LINK O ILE B 221 NA NA B 302 1555 1555 2.47 LINK O GLN B 223 NA NA B 302 1555 1555 2.44 LINK O ILE B 226 NA NA B 302 1555 1555 2.45 LINK NA NA B 302 O HOH B 432 1555 1555 2.35 LINK NA NA B 302 O HOH B 463 1555 1555 2.58 SITE 1 AC1 8 ILE A 221 SER A 246 HOH A 401 HOH A 414 SITE 2 AC1 8 HOH A 526 GLU B 179 GLN B 182 GLN B 223 SITE 1 AC2 6 TYR A 5 ILE A 221 GLN A 223 ILE A 226 SITE 2 AC2 6 HOH A 432 HOH B 422 SITE 1 AC3 6 ASN B 10 LYS B 12 HIS B 95 LEU B 230 SITE 2 AC3 6 GLY B 232 HOH B 402 SITE 1 AC4 6 TYR B 5 ILE B 221 GLN B 223 ILE B 226 SITE 2 AC4 6 HOH B 432 HOH B 463 CRYST1 39.360 76.880 74.480 90.00 97.79 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 0.025407 0.000000 0.003476 0.00000 SCALE2 0.000000 0.013007 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013552 0.00000