HEADER TRANSFERASE 19-MAR-09 3A0I TITLE HUMAN GLUCOKINASE IN COMPLEX WITH A SYNTHETIC ACTIVATOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLUCOKINASE; COMPND 3 CHAIN: X; COMPND 4 FRAGMENT: ENZYME, UNP RESIDUES 12-466; COMPND 5 SYNONYM: HUMAN HEPATIC GLUCOKINASE, HEXOKINASE TYPE IV, HK IV, COMPND 6 HEXOKINASE-4, HK4, HEXOKINASE-D; COMPND 7 EC: 2.7.1.2; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: DH5ALFA; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PFLAG-CTC KEYWDS GLUCOKINASE, DIABETES, ACTIVATOR, ALTERNATIVE SPLICING, ATP-BINDING, KEYWDS 2 DIABETES MELLITUS, DISEASE MUTATION, GLYCOLYSIS, KINASE, NUCLEOTIDE- KEYWDS 3 BINDING, POLYMORPHISM, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR K.KAMATA,M.MITSUYA REVDAT 5 01-NOV-23 3A0I 1 HETSYN REVDAT 4 29-JUL-20 3A0I 1 COMPND REMARK HETNAM SITE REVDAT 3 11-OCT-17 3A0I 1 REMARK REVDAT 2 23-JUN-09 3A0I 1 JRNL REVDAT 1 28-APR-09 3A0I 0 JRNL AUTH M.MITSUYA,K.KAMATA,M.BAMBA,H.WATANABE,Y.SASAKI,K.SASAKI, JRNL AUTH 2 S.OHYAMA,H.HOSAKA,Y.NAGATA,J.EIKI,T.NISHIMURA JRNL TITL DISCOVERY OF NOVEL 3,6-DISUBSTITUTED 2-PYRIDINECARBOXAMIDE JRNL TITL 2 DERIVATIVES AS GK ACTIVATORS JRNL REF BIOORG.MED.CHEM.LETT. V. 19 2718 2009 JRNL REFN ISSN 0960-894X JRNL PMID 19362831 JRNL DOI 10.1016/J.BMCL.2009.03.137 REMARK 2 REMARK 2 RESOLUTION. 2.20 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) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.37 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 94.7 REMARK 3 NUMBER OF REFLECTIONS : 28759 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) : 0.229 REMARK 3 R VALUE (WORKING SET) : 0.226 REMARK 3 FREE R VALUE : 0.277 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1529 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) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.26 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1784 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 82.16 REMARK 3 BIN R VALUE (WORKING SET) : 0.2660 REMARK 3 BIN FREE R VALUE SET COUNT : 100 REMARK 3 BIN FREE R VALUE : 0.3160 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3505 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 43 REMARK 3 SOLVENT ATOMS : 137 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 36.10 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 35.81 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.68000 REMARK 3 B22 (A**2) : 1.68000 REMARK 3 B33 (A**2) : -2.52000 REMARK 3 B12 (A**2) : 0.84000 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): 0.264 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.226 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.156 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.021 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.931 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.887 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3604 ; 0.024 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4848 ; 2.060 ; 1.979 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 447 ; 6.865 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 171 ;39.394 ;24.035 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 659 ;19.340 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 30 ;20.262 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 533 ; 0.146 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2761 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1917 ; 0.239 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2448 ; 0.310 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 144 ; 0.191 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 4 ; 0.142 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 33 ; 0.449 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 3 ; 0.369 ; 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): 2210 ; 1.305 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3546 ; 2.358 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1426 ; 3.511 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1302 ; 5.673 ; 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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 3A0I COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 24-MAR-09. REMARK 100 THE DEPOSITION ID IS D_1000028657. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-APR-02 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : BL-6B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : DIFFRACTOMETER REMARK 200 DETECTOR MANUFACTURER : WEISSENBERG REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : WEIS, HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 30342 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.5 REMARK 200 DATA REDUNDANCY : 5.000 REMARK 200 R MERGE (I) : 0.06400 REMARK 200 R SYM (I) : 0.06400 REMARK 200 FOR THE DATA SET : 16.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.28 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.25400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.860 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: PDB ENTRY 1V4S REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.55 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.90 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30 % PEG 1500, HEPES, PH 6.6, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 298.0K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 2 2 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 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+1/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+5/6 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 214.65000 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 107.32500 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 160.98750 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 53.66250 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 268.31250 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 214.65000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 107.32500 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 53.66250 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 160.98750 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 268.31250 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: X 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 THR X 11 REMARK 465 ALA X 12 REMARK 465 LEU X 13 REMARK 465 MET X 462 REMARK 465 LEU X 463 REMARK 465 GLY X 464 REMARK 465 GLN X 465 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 GLU X 128 OG SER X 131 2.11 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 X 421 OE2 GLU X 421 11655 1.44 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 ASP X 217 CB - CG - OD1 ANGL. DEV. = 6.8 DEGREES REMARK 500 MET X 251 CG - SD - CE ANGL. DEV. = -10.8 DEGREES REMARK 500 ARG X 422 NE - CZ - NH1 ANGL. DEV. = 3.6 DEGREES REMARK 500 ARG X 422 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 GLU X 443 C - N - CA ANGL. DEV. = -15.6 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 X 49 -4.99 -140.14 REMARK 500 THR X 65 66.58 26.65 REMARK 500 GLU X 67 103.41 40.68 REMARK 500 GLU X 112 -44.46 -26.24 REMARK 500 THR X 116 9.08 -63.96 REMARK 500 MET X 121 -75.47 -49.89 REMARK 500 ASP X 132 -56.31 -26.10 REMARK 500 LYS X 142 143.88 -32.32 REMARK 500 LYS X 172 15.64 -162.60 REMARK 500 ASP X 187 -76.82 -45.98 REMARK 500 ARG X 192 -41.67 -152.98 REMARK 500 ASP X 194 -74.99 -13.40 REMARK 500 ALA X 201 118.35 -177.76 REMARK 500 ALA X 460 58.07 -95.86 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1V4S RELATED DB: PDB REMARK 900 HUMAN GLUCOKINASE IN COMPLEX WITH ANOTHER ACTIVATOR REMARK 900 RELATED ID: 1V4T RELATED DB: PDB REMARK 900 APO HUMAN GLUCOKINSE STRUCTURE REMARK 900 RELATED ID: 3FR0 RELATED DB: PDB REMARK 900 HUMAN GLUCOKINASE IN COMPLEX WITH ANOTHER ACTIVATOR REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE SEQUENCE FOR THIS PROTEIN IS BASED ON ISOFORM 2 OF HXK4_HUMAN REMARK 999 (UNIPROTKB/SWISS-PROT P35557). DBREF 3A0I X 11 465 UNP P35557 HXK4_HUMAN 12 466 SEQRES 1 X 455 THR ALA LEU THR LEU VAL GLU GLN ILE LEU ALA GLU PHE SEQRES 2 X 455 GLN LEU GLN GLU GLU ASP LEU LYS LYS VAL MET ARG ARG SEQRES 3 X 455 MET GLN LYS GLU MET ASP ARG GLY LEU ARG LEU GLU THR SEQRES 4 X 455 HIS GLU GLU ALA SER VAL LYS MET LEU PRO THR TYR VAL SEQRES 5 X 455 ARG SER THR PRO GLU GLY SER GLU VAL GLY ASP PHE LEU SEQRES 6 X 455 SER LEU ASP LEU GLY GLY THR ASN PHE ARG VAL MET LEU SEQRES 7 X 455 VAL LYS VAL GLY GLU GLY GLU GLU GLY GLN TRP SER VAL SEQRES 8 X 455 LYS THR LYS HIS GLN MET TYR SER ILE PRO GLU ASP ALA SEQRES 9 X 455 MET THR GLY THR ALA GLU MET LEU PHE ASP TYR ILE SER SEQRES 10 X 455 GLU CYS ILE SER ASP PHE LEU ASP LYS HIS GLN MET LYS SEQRES 11 X 455 HIS LYS LYS LEU PRO LEU GLY PHE THR PHE SER PHE PRO SEQRES 12 X 455 VAL ARG HIS GLU ASP ILE ASP LYS GLY ILE LEU LEU ASN SEQRES 13 X 455 TRP THR LYS GLY PHE LYS ALA SER GLY ALA GLU GLY ASN SEQRES 14 X 455 ASN VAL VAL GLY LEU LEU ARG ASP ALA ILE LYS ARG ARG SEQRES 15 X 455 GLY ASP PHE GLU MET ASP VAL VAL ALA MET VAL ASN ASP SEQRES 16 X 455 THR VAL ALA THR MET ILE SER CYS TYR TYR GLU ASP HIS SEQRES 17 X 455 GLN CYS GLU VAL GLY MET ILE VAL GLY THR GLY CYS ASN SEQRES 18 X 455 ALA CYS TYR MET GLU GLU MET GLN ASN VAL GLU LEU VAL SEQRES 19 X 455 GLU GLY ASP GLU GLY ARG MET CYS VAL ASN THR GLU TRP SEQRES 20 X 455 GLY ALA PHE GLY ASP SER GLY GLU LEU ASP GLU PHE LEU SEQRES 21 X 455 LEU GLU TYR ASP ARG LEU VAL ASP GLU SER SER ALA ASN SEQRES 22 X 455 PRO GLY GLN GLN LEU TYR GLU LYS LEU ILE GLY GLY LYS SEQRES 23 X 455 TYR MET GLY GLU LEU VAL ARG LEU VAL LEU LEU ARG LEU SEQRES 24 X 455 VAL ASP GLU ASN LEU LEU PHE HIS GLY GLU ALA SER GLU SEQRES 25 X 455 GLN LEU ARG THR ARG GLY ALA PHE GLU THR ARG PHE VAL SEQRES 26 X 455 SER GLN VAL GLU SER ASP THR GLY ASP ARG LYS GLN ILE SEQRES 27 X 455 TYR ASN ILE LEU SER THR LEU GLY LEU ARG PRO SER THR SEQRES 28 X 455 THR ASP CYS ASP ILE VAL ARG ARG ALA CYS GLU SER VAL SEQRES 29 X 455 SER THR ARG ALA ALA HIS MET CYS SER ALA GLY LEU ALA SEQRES 30 X 455 GLY VAL ILE ASN ARG MET ARG GLU SER ARG SER GLU ASP SEQRES 31 X 455 VAL MET ARG ILE THR VAL GLY VAL ASP GLY SER VAL TYR SEQRES 32 X 455 LYS LEU HIS PRO SER PHE LYS GLU ARG PHE HIS ALA SER SEQRES 33 X 455 VAL ARG ARG LEU THR PRO SER CYS GLU ILE THR PHE ILE SEQRES 34 X 455 GLU SER GLU GLU GLY SER GLY ARG GLY ALA ALA LEU VAL SEQRES 35 X 455 SER ALA VAL ALA CYS LYS LYS ALA CYS MET LEU GLY GLN HET GLC X 500 12 HET AJI X 501 30 HET NA X 600 1 HETNAM GLC ALPHA-D-GLUCOPYRANOSE HETNAM AJI 3-[(4-FLUOROPHENYL)SULFANYL]-N-(4-METHYL-1,3-THIAZOL-2- HETNAM 2 AJI YL)-6-[(4-METHYL-4H-1,2,4-TRIAZOL-3-YL) HETNAM 3 AJI SULFANYL]PYRIDINE-2-CARBOXAMIDE HETNAM NA SODIUM ION HETSYN GLC ALPHA-D-GLUCOSE; D-GLUCOSE; GLUCOSE HETSYN AJI 3-[(4-FLUOROPHENYL)THIO]-N-(4-METHYL-1,3-THIAZOL-2-YL)- HETSYN 2 AJI 6-[(4-METHYL-4H-1,2,4-TRIAZOL-3-YL)THIO]PYRIDINE-2- HETSYN 3 AJI CARBOXAMIDE FORMUL 2 GLC C6 H12 O6 FORMUL 3 AJI C19 H15 F N6 O S3 FORMUL 4 NA NA 1+ FORMUL 5 HOH *137(H2 O) HELIX 1 1 THR X 14 ALA X 21 1 8 HELIX 2 2 GLU X 22 GLN X 24 5 3 HELIX 3 3 GLN X 26 ARG X 46 1 21 HELIX 4 4 PRO X 111 THR X 116 1 6 HELIX 5 5 THR X 118 HIS X 137 1 20 HELIX 6 6 ASN X 180 ILE X 189 1 10 HELIX 7 7 ASN X 204 CYS X 213 1 10 HELIX 8 8 GLU X 256 PHE X 260 5 5 HELIX 9 9 LEU X 271 SER X 280 1 10 HELIX 10 10 GLN X 287 LEU X 292 1 6 HELIX 11 11 TYR X 297 GLU X 312 1 16 HELIX 12 12 LEU X 315 GLU X 319 5 5 HELIX 13 13 GLU X 331 ASP X 341 1 11 HELIX 14 14 ARG X 345 LEU X 355 1 11 HELIX 15 15 SER X 360 GLU X 395 1 36 HELIX 16 16 GLY X 410 HIS X 416 1 7 HELIX 17 17 SER X 418 THR X 431 1 14 HELIX 18 18 GLU X 443 LYS X 458 1 16 SHEET 1 A 6 LEU X 58 ARG X 63 0 SHEET 2 A 6 ARG X 250 ASN X 254 -1 O CYS X 252 N VAL X 62 SHEET 3 A 6 CYS X 230 GLU X 237 -1 N GLU X 236 O MET X 251 SHEET 4 A 6 CYS X 220 VAL X 226 -1 N ILE X 225 O ASN X 231 SHEET 5 A 6 MET X 402 ASP X 409 1 O GLY X 407 N MET X 224 SHEET 6 A 6 CYS X 434 GLU X 440 1 O ILE X 439 N VAL X 406 SHEET 1 B 5 GLY X 97 SER X 109 0 SHEET 2 B 5 ASN X 83 GLY X 94 -1 N LEU X 88 O THR X 103 SHEET 3 B 5 GLY X 72 LEU X 79 -1 N GLY X 72 O VAL X 91 SHEET 4 B 5 PRO X 145 PHE X 150 1 O GLY X 147 N LEU X 75 SHEET 5 B 5 ASP X 198 VAL X 203 1 O ASP X 198 N LEU X 146 SHEET 1 C 2 VAL X 154 ASP X 158 0 SHEET 2 C 2 LYS X 161 LEU X 164 -1 O LYS X 161 N GLU X 157 CRYST1 79.732 79.732 321.975 90.00 90.00 120.00 P 65 2 2 12 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 0.012542 0.007241 0.000000 0.00000 SCALE2 0.000000 0.014482 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003106 0.00000