PDB Short entry for 3Q7I HEADER ISOMERASE 04-JAN-11 3Q7I TITLE GLUCOSE-6-PHOSPHATE ISOMERASE FROM FRANCISELLA TULARENSIS COMPLEXED TITLE 2 WITH 6-PHOSPHOGLUCONIC ACID. COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLUCOSE-6-PHOSPHATE ISOMERASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: GPI, PHOSPHOGLUCOSE ISOMERASE, PGI, PHOSPHOHEXOSE ISOMERASE, COMPND 5 PHI; COMPND 6 EC: 5.3.1.9; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: FRANCISELLA TULARENSIS SUBSP. TULARENSIS; SOURCE 3 ORGANISM_TAXID: 177416; SOURCE 4 STRAIN: SCHU S4; SOURCE 5 GENE: FTT_1315C, PGI; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PMCSG7 KEYWDS STRUCTURAL GENOMICS, GLUCOSE-6-PHOSPHATE, ISOMERASE, FRUCTOSE-6- KEYWDS 2 PHOSPHATE, GLUCONEOGENESIS, GLYCOLYSIS, CENTER FOR STRUCTURAL KEYWDS 3 GENOMICS OF INFECTIOUS DISEASES, CSGID EXPDTA X-RAY DIFFRACTION AUTHOR J.OSIPIUK,N.MALTSEVA,J.HASSEMAN,W.F.ANDERSON,A.JOACHIMIAK,CENTER FOR AUTHOR 2 STRUCTURAL GENOMICS OF INFECTIOUS DISEASES (CSGID) REVDAT 3 13-SEP-23 3Q7I 1 REMARK SEQADV LINK REVDAT 2 08-NOV-17 3Q7I 1 REMARK REVDAT 1 02-FEB-11 3Q7I 0 JRNL AUTH J.OSIPIUK,N.MALTSEVA,J.HASSEMAN,W.F.ANDERSON,A.JOACHIMIAK JRNL TITL GLUCOSE-6-PHOSPHATE ISOMERASE FROM FRANCISELLA TULARENSIS. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.54 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 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) : 1.54 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.46 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 93350 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) : 0.146 REMARK 3 R VALUE (WORKING SET) : 0.145 REMARK 3 FREE R VALUE : 0.171 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4684 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) : 1.54 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.58 REMARK 3 REFLECTION IN BIN (WORKING SET) : 6267 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.33 REMARK 3 BIN R VALUE (WORKING SET) : 0.3090 REMARK 3 BIN FREE R VALUE SET COUNT : 343 REMARK 3 BIN FREE R VALUE : 0.3130 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4312 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 51 REMARK 3 SOLVENT ATOMS : 528 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 28.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.14 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.72000 REMARK 3 B22 (A**2) : -0.72000 REMARK 3 B33 (A**2) : 1.09000 REMARK 3 B12 (A**2) : -0.36000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.065 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.036 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.228 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.976 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.969 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4869 ; 0.019 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 3325 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6650 ; 1.853 ; 1.966 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8249 ; 1.018 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 648 ; 5.885 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 237 ;37.194 ;25.781 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 936 ;13.926 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;17.804 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 733 ; 0.115 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5467 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 931 ; 0.001 ; 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): 2898 ; 0.993 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1182 ; 0.321 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4724 ; 1.698 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1971 ; 2.720 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1875 ; 4.422 ; 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 : 1 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 -10 A 9999 REMARK 3 ORIGIN FOR THE GROUP (A): 47.0016 57.0068 2.6093 REMARK 3 T TENSOR REMARK 3 T11: 0.0091 T22: 0.0279 REMARK 3 T33: 0.0189 T12: -0.0124 REMARK 3 T13: -0.0121 T23: 0.0144 REMARK 3 L TENSOR REMARK 3 L11: 0.7219 L22: 0.5051 REMARK 3 L33: 0.3829 L12: -0.2347 REMARK 3 L13: 0.2500 L23: -0.1715 REMARK 3 S TENSOR REMARK 3 S11: -0.0094 S12: 0.0163 S13: 0.0387 REMARK 3 S21: 0.0362 S22: -0.0411 S23: -0.0630 REMARK 3 S31: -0.0289 S32: 0.0795 S33: 0.0504 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 U VALUES : RESIDUAL ONLY REMARK 4 REMARK 4 3Q7I COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 05-JAN-11. REMARK 100 THE DEPOSITION ID IS D_1000063291. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-MAR-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9792 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL MONOCHROMATOR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-3000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 93541 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.540 REMARK 200 RESOLUTION RANGE LOW (A) : 37.500 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 10.00 REMARK 200 R MERGE (I) : 0.06700 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 11.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.54 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.57 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.60 REMARK 200 R MERGE FOR SHELL (I) : 0.79400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.150 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP, HKL-3000 REMARK 200 STARTING MODEL: PDB ENTRY 3LJK REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.57 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.59 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M CA(OAC)2, 0.1 M MES BUFFER, 10% REMARK 280 2-PROPANOL, 0.01 M 6-PHOSPHOGLUCONIC ACID., PH 6.0, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 56.21267 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 28.10633 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 28.10633 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 56.21267 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: 14060 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 38470 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -84.0 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 BIOMT1 2 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 SER A -2 REMARK 465 LYS A 540 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 OD2 ASP A 338 O HOH A 782 1.47 REMARK 500 O HOH A 571 O HOH A 713 1.95 REMARK 500 O HOH A 875 O HOH A 1019 1.99 REMARK 500 O HOH A 835 O HOH A 1036 2.02 REMARK 500 O HOH A 812 O HOH A 1038 2.14 REMARK 500 CG1 VAL A 501 O HOH A 978 2.16 REMARK 500 O HOH A 568 O HOH A 650 2.17 REMARK 500 O HOH A 580 O HOH A 806 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 CYS A 251 CB CYS A 251 SG -0.111 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 116 NE - CZ - NH2 ANGL. DEV. = -4.5 DEGREES REMARK 500 ASP A 188 CB - CG - OD1 ANGL. DEV. = 5.5 DEGREES REMARK 500 ALA A 378 CB - CA - C ANGL. DEV. = -10.4 DEGREES REMARK 500 ALA A 378 N - CA - C ANGL. DEV. = 18.2 DEGREES REMARK 500 ASP A 466 CB - CG - OD1 ANGL. DEV. = 8.3 DEGREES REMARK 500 ASP A 466 CB - CG - OD2 ANGL. DEV. = -8.2 DEGREES REMARK 500 LEU A 507 CA - CB - CG ANGL. DEV. = 14.6 DEGREES REMARK 500 LEU A 507 CB - CG - CD1 ANGL. DEV. = -26.3 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 GLN A 37 -122.00 50.53 REMARK 500 ASP A 149 -57.26 -134.25 REMARK 500 CYS A 164 12.36 -156.70 REMARK 500 SER A 173 -67.28 -143.17 REMARK 500 LYS A 237 73.46 -115.83 REMARK 500 THR A 363 -130.06 -109.82 REMARK 500 ALA A 378 -108.30 -142.49 REMARK 500 ALA A 378 -47.26 -148.32 REMARK 500 SER A 400 -159.09 -98.08 REMARK 500 GLN A 498 62.99 -159.13 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 CA A 606 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 61 O REMARK 620 2 HOH A 573 O 89.0 REMARK 620 3 HOH A 574 O 75.5 155.8 REMARK 620 4 HOH A 592 O 77.0 77.2 81.3 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 6PG A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MES A 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MES A 603 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 604 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA A 605 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 606 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3LJK RELATED DB: PDB REMARK 900 GLUCOSE-6-PHOSPHATE ISOMERASE FROM FRANCISELLA TULARENSIS. REMARK 900 RELATED ID: 3M5P RELATED DB: PDB REMARK 900 GLUCOSE-6-PHOSPHATE ISOMERASE FROM FRANCISELLA TULARENSIS COMPLEXED REMARK 900 WITH FRUCTOSE-6-PHOSPHATE. REMARK 900 RELATED ID: IDP02733 RELATED DB: TARGETDB DBREF 3Q7I A 1 540 UNP Q5NFC4 G6PI_FRATT 1 540 SEQADV 3Q7I SER A -2 UNP Q5NFC4 EXPRESSION TAG SEQADV 3Q7I ASN A -1 UNP Q5NFC4 EXPRESSION TAG SEQADV 3Q7I ALA A 0 UNP Q5NFC4 EXPRESSION TAG SEQADV 3Q7I LEU A 194 UNP Q5NFC4 PHE 194 ENGINEERED MUTATION SEQRES 1 A 543 SER ASN ALA MET LEU PHE CYS ASP ASP SER LYS LYS TYR SEQRES 2 A 543 LEU LYS GLU GLN ASN ILE ASN LEU LYS ASN GLU PHE ASP SEQRES 3 A 543 LYS ASP ASP LYS ARG VAL GLU LYS PHE SER LEU LYS HIS SEQRES 4 A 543 GLN ASN ILE TYR PHE ASP TYR SER LYS ASN LEU ILE ASN SEQRES 5 A 543 ASP TYR ILE LEU LYS SER LEU LEU GLU SER ALA GLU LYS SEQRES 6 A 543 SER SER LEU LYS ASP LYS ILE LYS GLN MET PHE ASN GLY SEQRES 7 A 543 ALA LYS ILE ASN SER THR GLU HIS ARG ALA VAL LEU HIS SEQRES 8 A 543 THR ALA LEU ARG ASP LEU SER SER THR PRO LEU ILE VAL SEQRES 9 A 543 ASP GLY GLN ASP ILE ARG GLN GLU VAL THR LYS GLU LYS SEQRES 10 A 543 GLN ARG VAL LYS GLU LEU VAL GLU LYS VAL VAL SER GLY SEQRES 11 A 543 ARG TRP ARG GLY PHE SER GLY LYS LYS ILE THR ASP ILE SEQRES 12 A 543 VAL ASN ILE GLY ILE GLY GLY SER ASP LEU GLY PRO LYS SEQRES 13 A 543 MET VAL VAL ARG ALA LEU GLN PRO TYR HIS CYS THR ASP SEQRES 14 A 543 LEU LYS VAL HIS PHE VAL SER ASN VAL ASP ALA ASP SER SEQRES 15 A 543 LEU LEU GLN ALA LEU HIS VAL VAL ASP PRO GLU THR THR SEQRES 16 A 543 LEU LEU ILE ILE ALA SER LYS SER PHE SER THR GLU GLU SEQRES 17 A 543 THR LEU LEU ASN SER ILE SER ALA ARG GLU TRP LEU LEU SEQRES 18 A 543 ASP HIS TYR GLU ASP GLU LYS ALA VAL ALA ASN HIS PHE SEQRES 19 A 543 VAL ALA ILE SER SER LYS LEU ASP LYS VAL LYS GLU PHE SEQRES 20 A 543 GLY ILE ASP LEU GLU HIS CYS TYR LYS MET TRP ASP TRP SEQRES 21 A 543 VAL GLY GLY ARG TYR SER LEU TRP SER SER ILE GLY MET SEQRES 22 A 543 SER ILE ALA PHE ALA ILE GLY TYR ASP ASN PHE GLU LYS SEQRES 23 A 543 LEU LEU ALA GLY ALA TYR SER VAL ASP LYS HIS PHE LYS SEQRES 24 A 543 GLU THR GLU PHE SER LYS ASN ILE PRO VAL ILE MET ALA SEQRES 25 A 543 LEU LEU ALA SER TYR TYR SER CYS THR TYR ASN SER GLN SEQRES 26 A 543 SER GLN ALA LEU LEU PRO TYR ASP GLU ARG LEU CYS TYR SEQRES 27 A 543 PHE VAL ASP TYR LEU GLN GLN ALA ASP MET GLU SER ASN SEQRES 28 A 543 GLY LYS SER VAL ASN ILE ALA GLY GLU THR VAL ASN TYR SEQRES 29 A 543 GLN THR GLY VAL VAL LEU TRP GLY GLY VAL GLY THR ASN SEQRES 30 A 543 GLY GLN HIS ALA PHE HIS GLN LEU LEU HIS GLN GLY ASN SEQRES 31 A 543 ILE PHE ILE PRO VAL ASP PHE ILE ALA ILE ALA THR SER SEQRES 32 A 543 HIS HIS ASN TYR ASP ASN HIS GLN GLN ALA LEU LEU ALA SEQRES 33 A 543 ASN CYS PHE ALA GLN SER GLN ALA LEU MET PHE GLY GLN SEQRES 34 A 543 SER TYR ASP MET VAL TYR ASN GLU LEU LEU LYS SER GLY SEQRES 35 A 543 LEU ASN GLU THR GLN ALA LYS GLU LEU ALA ALA HIS LYS SEQRES 36 A 543 VAL ILE PRO GLY ASN ARG PRO SER THR THR ILE LEU LEU SEQRES 37 A 543 ASP GLU LEU SER PRO TYR SER LEU GLY ALA LEU ILE ALA SEQRES 38 A 543 LEU TYR GLU HIS LYS ILE PHE VAL GLN GLY VAL LEU TRP SEQRES 39 A 543 ASP ILE ASN SER TYR ASP GLN TRP GLY VAL GLU LEU GLY SEQRES 40 A 543 LYS LYS LEU GLY LYS ASN ILE LEU LYS ALA MET ASN ASP SEQRES 41 A 543 ASP SER SER ASP GLU TYR GLN ASN LEU ASP ASP SER THR SEQRES 42 A 543 ARG GLN LEU ILE ALA LYS VAL LYS ASN LYS HET 6PG A 601 17 HET MES A 602 12 HET MES A 603 12 HET PO4 A 604 5 HET IPA A 605 4 HET CA A 606 1 HETNAM 6PG 6-PHOSPHOGLUCONIC ACID HETNAM MES 2-(N-MORPHOLINO)-ETHANESULFONIC ACID HETNAM PO4 PHOSPHATE ION HETNAM IPA ISOPROPYL ALCOHOL HETNAM CA CALCIUM ION HETSYN IPA 2-PROPANOL FORMUL 2 6PG C6 H13 O10 P FORMUL 3 MES 2(C6 H13 N O4 S) FORMUL 5 PO4 O4 P 3- FORMUL 6 IPA C3 H8 O FORMUL 7 CA CA 2+ FORMUL 8 HOH *528(H2 O) HELIX 1 1 ASP A 5 TYR A 10 1 6 HELIX 2 2 LEU A 11 ASN A 15 5 5 HELIX 3 3 ASN A 17 ASP A 25 1 9 HELIX 4 4 LYS A 27 PHE A 32 1 6 HELIX 5 5 ASN A 49 SER A 63 1 15 HELIX 6 6 SER A 64 GLY A 75 1 12 HELIX 7 7 LEU A 87 ARG A 92 1 6 HELIX 8 8 ILE A 106 SER A 126 1 21 HELIX 9 9 ILE A 145 SER A 148 5 4 HELIX 10 10 ASP A 149 LEU A 159 1 11 HELIX 11 11 GLN A 160 HIS A 163 5 4 HELIX 12 12 ASP A 176 HIS A 185 1 10 HELIX 13 13 VAL A 186 VAL A 187 5 2 HELIX 14 14 ASP A 188 GLU A 190 5 3 HELIX 15 15 THR A 203 GLU A 222 1 20 HELIX 16 16 ASP A 223 LYS A 225 5 3 HELIX 17 17 ALA A 226 HIS A 230 1 5 HELIX 18 18 LYS A 237 GLY A 245 1 9 HELIX 19 19 ASP A 247 GLU A 249 5 3 HELIX 20 20 GLY A 259 SER A 263 5 5 HELIX 21 21 SER A 266 ILE A 268 5 3 HELIX 22 22 GLY A 269 GLY A 277 1 9 HELIX 23 23 GLY A 277 THR A 298 1 22 HELIX 24 24 GLU A 299 LYS A 302 5 4 HELIX 25 25 ASN A 303 TYR A 319 1 17 HELIX 26 26 ASP A 330 CYS A 334 5 5 HELIX 27 27 TYR A 335 GLY A 349 1 15 HELIX 28 28 THR A 373 ALA A 378 5 6 HELIX 29 29 PHE A 379 GLY A 386 1 8 HELIX 30 30 TYR A 404 GLY A 425 1 22 HELIX 31 31 SER A 427 SER A 438 1 12 HELIX 32 32 ASN A 441 VAL A 453 1 13 HELIX 33 33 SER A 469 ASP A 492 1 24 HELIX 34 34 GLN A 498 LYS A 505 1 8 HELIX 35 35 GLY A 508 ASP A 517 1 10 HELIX 36 36 SER A 520 ASN A 525 1 6 HELIX 37 37 ASP A 527 VAL A 537 1 11 SHEET 1 A 6 SER A 33 HIS A 36 0 SHEET 2 A 6 ILE A 39 LYS A 45 -1 O PHE A 41 N LEU A 34 SHEET 3 A 6 SER A 460 LEU A 465 -1 O LEU A 464 N TYR A 40 SHEET 4 A 6 VAL A 392 ILE A 397 1 N PHE A 394 O ILE A 463 SHEET 5 A 6 SER A 323 PRO A 328 1 N LEU A 327 O ASP A 393 SHEET 6 A 6 VAL A 366 GLY A 369 1 O VAL A 366 N GLN A 324 SHEET 1 B 2 ILE A 100 VAL A 101 0 SHEET 2 B 2 GLN A 104 ASP A 105 -1 O GLN A 104 N VAL A 101 SHEET 1 C 5 LYS A 168 VAL A 172 0 SHEET 2 C 5 ASP A 139 ILE A 143 1 N ASN A 142 O HIS A 170 SHEET 3 C 5 THR A 192 ALA A 197 1 O ILE A 195 N VAL A 141 SHEET 4 C 5 PHE A 231 SER A 235 1 O VAL A 232 N ILE A 196 SHEET 5 C 5 CYS A 251 LYS A 253 1 O TYR A 252 N ALA A 233 SSBOND 1 CYS A 4 CYS A 317 1555 1555 2.10 LINK O GLU A 61 CA CA A 606 1555 1555 2.29 LINK O HOH A 573 CA CA A 606 1555 1555 2.43 LINK O HOH A 574 CA CA A 606 1555 1555 2.39 LINK O HOH A 592 CA CA A 606 1555 1555 2.47 CISPEP 1 GLY A 372 THR A 373 0 12.22 SITE 1 AC1 22 ILE A 145 GLY A 146 GLY A 147 SER A 148 SITE 2 AC1 22 SER A 198 LYS A 199 SER A 200 THR A 203 SITE 3 AC1 22 GLY A 260 ARG A 261 GLN A 342 GLU A 346 SITE 4 AC1 22 HIS A 377 GLN A 498 LYS A 505 HOH A 567 SITE 5 AC1 22 HOH A 626 HOH A 661 HOH A 816 HOH A 922 SITE 6 AC1 22 HOH A 923 HOH A 978 SITE 1 AC2 8 ASN A 74 PRO A 98 LEU A 99 ILE A 100 SITE 2 AC2 8 HIS A 401 HIS A 402 ASN A 403 HOH A 998 SITE 1 AC3 8 GLN A 160 PRO A 161 HIS A 163 GLN A 182 SITE 2 AC3 8 HIS A 185 HIS A 401 HOH A 621 HOH A 874 SITE 1 AC4 6 ASN A 38 TYR A 40 LEU A 464 ASP A 466 SITE 2 AC4 6 LYS A 536 HOH A1032 SITE 1 AC5 7 HIS A 36 GLN A 37 ASN A 38 TYR A 471 SITE 2 AC5 7 SER A 472 ALA A 475 HOH A 800 SITE 1 AC6 6 GLU A 61 GLU A 222 HOH A 573 HOH A 574 SITE 2 AC6 6 HOH A 592 HOH A 982 CRYST1 114.439 114.439 84.319 90.00 90.00 120.00 P 32 2 1 6 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 0.008738 0.005045 0.000000 0.00000 SCALE2 0.000000 0.010090 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011860 0.00000