HEADER TRANSFERASE 02-MAR-20 6W0N
TITLE STRUCTURE OF KHK IN COMPLEX WITH COMPOUND 2
COMPND MOL_ID: 1;
COMPND 2 MOLECULE: KETOHEXOKINASE;
COMPND 3 CHAIN: A, B;
COMPND 4 SYNONYM: HEPATIC FRUCTOKINASE;
COMPND 5 EC: 2.7.1.3;
COMPND 6 ENGINEERED: YES
SOURCE MOL_ID: 1;
SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS;
SOURCE 3 ORGANISM_COMMON: HUMAN;
SOURCE 4 ORGANISM_TAXID: 9606;
SOURCE 5 GENE: KHK;
SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI;
SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562
KEYWDS KETOHEXOKINASE, TRANSFERASE
EXPDTA X-RAY DIFFRACTION
AUTHOR J.JASTI
REVDAT 4 11-OCT-23 6W0N 1 REMARK
REVDAT 3 09-DEC-20 6W0N 1 JRNL
REVDAT 2 30-SEP-20 6W0N 1 JRNL
REVDAT 1 23-SEP-20 6W0N 0
JRNL AUTH K.FUTATSUGI,A.C.SMITH,M.TU,B.RAYMER,K.AHN,S.B.COFFEY,
JRNL AUTH 2 M.S.DOWLING,D.P.FERNANDO,J.A.GUTIERREZ,K.HUARD,J.JASTI,
JRNL AUTH 3 A.S.KALGUTKAR,J.D.KNAFELS,J.PANDIT,K.D.PARRIS,S.PEREZ,
JRNL AUTH 4 J.A.PFEFFERKORN,D.A.PRICE,T.RYDER,A.SHAVNYA,I.A.STOCK,
JRNL AUTH 5 A.S.TSAI,G.J.TESZ,B.A.THUMA,Y.WENG,H.M.WISNIEWSKA,G.XING,
JRNL AUTH 6 J.ZHOU,T.V.MAGEE
JRNL TITL DISCOVERY OF PF-06835919: A POTENT INHIBITOR OF
JRNL TITL 2 KETOHEXOKINASE (KHK) FOR THE TREATMENT OF METABOLIC
JRNL TITL 3 DISORDERS DRIVEN BY THE OVERCONSUMPTION OF FRUCTOSE.
JRNL REF J.MED.CHEM. V. 63 13546 2020
JRNL REFN ISSN 0022-2623
JRNL PMID 32910646
JRNL DOI 10.1021/ACS.JMEDCHEM.0C00944
REMARK 2
REMARK 2 RESOLUTION. 2.41 ANGSTROMS.
REMARK 3
REMARK 3 REFINEMENT.
REMARK 3 PROGRAM : BUSTER 2.11.7
REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER,
REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN,
REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD
REMARK 3
REMARK 3 DATA USED IN REFINEMENT.
REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.41
REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.28
REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000
REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5
REMARK 3 NUMBER OF REFLECTIONS : 38590
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) : 0.185
REMARK 3 R VALUE (WORKING SET) : 0.184
REMARK 3 FREE R VALUE : 0.204
REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.020
REMARK 3 FREE R VALUE TEST SET COUNT : 1936
REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL
REMARK 3
REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN.
REMARK 3 TOTAL NUMBER OF BINS USED : 50
REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 2.41
REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 2.42
REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 85.99
REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 772
REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2310
REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 721
REMARK 3 BIN R VALUE (WORKING SET) : 0.2316
REMARK 3 BIN FREE R VALUE : 0.2234
REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 6.61
REMARK 3 BIN FREE R VALUE TEST SET COUNT : 51
REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.000
REMARK 3
REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT.
REMARK 3 PROTEIN ATOMS : 4547
REMARK 3 NUCLEIC ACID ATOMS : 0
REMARK 3 HETEROGEN ATOMS : 93
REMARK 3 SOLVENT ATOMS : 178
REMARK 3
REMARK 3 B VALUES.
REMARK 3 FROM WILSON PLOT (A**2) : NULL
REMARK 3 MEAN B VALUE (OVERALL, A**2) : 63.69
REMARK 3 OVERALL ANISOTROPIC B VALUE.
REMARK 3 B11 (A**2) : 2.53650
REMARK 3 B22 (A**2) : 2.41480
REMARK 3 B33 (A**2) : -4.95140
REMARK 3 B12 (A**2) : 0.00000
REMARK 3 B13 (A**2) : 0.00000
REMARK 3 B23 (A**2) : 0.00000
REMARK 3
REMARK 3 ESTIMATED COORDINATE ERROR.
REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.290
REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 0.226
REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.174
REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.222
REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.174
REMARK 3
REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797
REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601
REMARK 3
REMARK 3 CORRELATION COEFFICIENTS.
REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.950
REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.940
REMARK 3
REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15
REMARK 3 TERM COUNT WEIGHT FUNCTION.
REMARK 3 BOND LENGTHS : 4741 ; 2.000 ; HARMONIC
REMARK 3 BOND ANGLES : 6440 ; 2.000 ; HARMONIC
REMARK 3 TORSION ANGLES : 1659 ; 2.000 ; SINUSOIDAL
REMARK 3 TRIGONAL CARBON PLANES : NULL ; NULL ; NULL
REMARK 3 GENERAL PLANES : 839 ; 5.000 ; HARMONIC
REMARK 3 ISOTROPIC THERMAL FACTORS : 4741 ; 20.000 ; HARMONIC
REMARK 3 BAD NON-BONDED CONTACTS : NULL ; NULL ; NULL
REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL
REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL
REMARK 3 CHIRAL IMPROPER TORSION : 589 ; 5.000 ; SEMIHARMONIC
REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL
REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL
REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL
REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL
REMARK 3 IDEAL-DIST CONTACT TERM : 5339 ; 4.000 ; SEMIHARMONIC
REMARK 3
REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES.
REMARK 3 BOND LENGTHS (A) : 0.010
REMARK 3 BOND ANGLES (DEGREES) : 1.15
REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 3.28
REMARK 3 OTHER TORSION ANGLES (DEGREES) : 18.14
REMARK 3
REMARK 3 TLS DETAILS
REMARK 3 NUMBER OF TLS GROUPS : 2
REMARK 3
REMARK 3 TLS GROUP : 1
REMARK 3 SELECTION: { A|* }
REMARK 3 ORIGIN FOR THE GROUP (A): 0.0372 11.6871 15.8642
REMARK 3 T TENSOR
REMARK 3 T11: 0.0046 T22: -0.1742
REMARK 3 T33: -0.0539 T12: -0.0152
REMARK 3 T13: 0.1132 T23: 0.0152
REMARK 3 L TENSOR
REMARK 3 L11: 1.0561 L22: 1.8227
REMARK 3 L33: 2.5056 L12: -0.5656
REMARK 3 L13: -0.1948 L23: 1.1261
REMARK 3 S TENSOR
REMARK 3 S11: 0.1608 S12: 0.2404 S13: 0.3121
REMARK 3 S21: -0.4072 S22: -0.0456 S23: 0.1263
REMARK 3 S31: -0.7244 S32: -0.0040 S33: -0.1151
REMARK 3
REMARK 3 TLS GROUP : 2
REMARK 3 SELECTION: { B|* }
REMARK 3 ORIGIN FOR THE GROUP (A): -11.4198 19.3852 58.0191
REMARK 3 T TENSOR
REMARK 3 T11: -0.1322 T22: -0.0465
REMARK 3 T33: -0.0459 T12: 0.0458
REMARK 3 T13: 0.0468 T23: 0.0817
REMARK 3 L TENSOR
REMARK 3 L11: 1.4450 L22: 0.9628
REMARK 3 L33: 1.2278 L12: 0.1035
REMARK 3 L13: -0.1775 L23: 0.0097
REMARK 3 S TENSOR
REMARK 3 S11: 0.0238 S12: -0.2205 S13: -0.2819
REMARK 3 S21: -0.0168 S22: -0.0649 S23: -0.0481
REMARK 3 S31: 0.1299 S32: 0.0058 S33: 0.0410
REMARK 3
REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4
REMARK 4 6W0N COMPLIES WITH FORMAT V. 3.30, 13-JUL-11
REMARK 100
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-MAR-20.
REMARK 100 THE DEPOSITION ID IS D_1000247424.
REMARK 200
REMARK 200 EXPERIMENTAL DETAILS
REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION
REMARK 200 DATE OF DATA COLLECTION : 19-OCT-13
REMARK 200 TEMPERATURE (KELVIN) : 100
REMARK 200 PH : 4.5
REMARK 200 NUMBER OF CRYSTALS USED : 1
REMARK 200
REMARK 200 SYNCHROTRON (Y/N) : Y
REMARK 200 RADIATION SOURCE : APS
REMARK 200 BEAMLINE : 17-ID
REMARK 200 X-RAY GENERATOR MODEL : NULL
REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M
REMARK 200 WAVELENGTH OR RANGE (A) : 1
REMARK 200 MONOCHROMATOR : NULL
REMARK 200 OPTICS : NULL
REMARK 200
REMARK 200 DETECTOR TYPE : PIXEL
REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M
REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL
REMARK 200 DATA SCALING SOFTWARE : NULL
REMARK 200
REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 38668
REMARK 200 RESOLUTION RANGE HIGH (A) : 2.406
REMARK 200 RESOLUTION RANGE LOW (A) : 137.130
REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL
REMARK 200
REMARK 200 OVERALL.
REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5
REMARK 200 DATA REDUNDANCY : 6.000
REMARK 200 R MERGE (I) : NULL
REMARK 200 R SYM (I) : NULL
REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 16.5000
REMARK 200
REMARK 200 IN THE HIGHEST RESOLUTION SHELL.
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.41
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.54
REMARK 200 COMPLETENESS FOR SHELL (%) : NULL
REMARK 200 DATA REDUNDANCY IN SHELL : NULL
REMARK 200 R MERGE FOR SHELL (I) : NULL
REMARK 200 R SYM FOR SHELL (I) : NULL
REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL
REMARK 200
REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH
REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT
REMARK 200 SOFTWARE USED: NULL
REMARK 200 STARTING MODEL: 5WBM
REMARK 200
REMARK 200 REMARK: NULL
REMARK 280
REMARK 280 CRYSTAL
REMARK 280 SOLVENT CONTENT, VS (%): 65.73
REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.59
REMARK 280
REMARK 280 CRYSTALLIZATION CONDITIONS: 17% PEG 8000, 100 MM NA CITRATE, PH
REMARK 280 4.5, AND 0.2 M AMMONIUM SULFATE, VAPOR DIFFUSION, SITTING DROP,
REMARK 280 TEMPERATURE 295K
REMARK 290
REMARK 290 CRYSTALLOGRAPHIC SYMMETRY
REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21
REMARK 290
REMARK 290 SYMOP SYMMETRY
REMARK 290 NNNMMM OPERATOR
REMARK 290 1555 X,Y,Z
REMARK 290 2555 -X+1/2,-Y,Z+1/2
REMARK 290 3555 -X,Y+1/2,-Z+1/2
REMARK 290 4555 X+1/2,-Y+1/2,-Z
REMARK 290
REMARK 290 WHERE NNN -> OPERATOR NUMBER
REMARK 290 MMM -> TRANSLATION VECTOR
REMARK 290
REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS
REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM
REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY
REMARK 290 RELATED MOLECULES.
REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000
REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000
REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000
REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 41.40000
REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000
REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 68.56500
REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000
REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 43.08500
REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 68.56500
REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 41.40000
REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 43.08500
REMARK 290 SMTRY3 4 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: 4790 ANGSTROM**2
REMARK 350 SURFACE AREA OF THE COMPLEX: 24270 ANGSTROM**2
REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -64.0 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 -14
REMARK 465 GLY A -13
REMARK 465 SER A -12
REMARK 465 SER A -11
REMARK 465 HIS A -10
REMARK 465 HIS A -9
REMARK 465 HIS A -8
REMARK 465 HIS A -7
REMARK 465 HIS A -6
REMARK 465 HIS A -5
REMARK 465 SER A -4
REMARK 465 SER A -3
REMARK 465 GLY A -2
REMARK 465 LEU A -1
REMARK 465 VAL A 0
REMARK 465 PRO A 1
REMARK 465 ARG A 2
REMARK 465 MET B -14
REMARK 465 GLY B -13
REMARK 465 SER B -12
REMARK 465 SER B -11
REMARK 465 HIS B -10
REMARK 465 HIS B -9
REMARK 465 HIS B -8
REMARK 465 HIS B -7
REMARK 465 HIS B -6
REMARK 465 HIS B -5
REMARK 465 SER B -4
REMARK 465 SER B -3
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 ARG B 249 CG CD NE CZ NH1 NH2
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 ASN A 105 -3.98 -148.54
REMARK 500 ARG A 141 -81.91 -142.64
REMARK 500 ALA A 226 -122.64 48.56
REMARK 500 PHE A 245 67.04 -119.00
REMARK 500 ASP A 252 109.41 -160.81
REMARK 500 ASN B 105 -3.55 -149.16
REMARK 500 ARG B 141 -89.41 -141.23
REMARK 500 ALA B 226 -119.21 45.16
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 B 500 DISTANCE = 7.80 ANGSTROMS
REMARK 800
REMARK 800 SITE
REMARK 800 SITE_IDENTIFIER: AC1
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: binding site for residue RYS A 301
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC2
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 302
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC3
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: binding site for residue CIT A 303
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC4
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: binding site for residue RYS B 301
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC5
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 B 302
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC6
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 B 303
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC7
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: binding site for residue CIT B 304
DBREF 6W0N A 5 298 UNP P50053 KHK_HUMAN 5 298
DBREF 6W0N B 5 298 UNP P50053 KHK_HUMAN 5 298
SEQADV 6W0N MET A -14 UNP P50053 EXPRESSION TAG
SEQADV 6W0N GLY A -13 UNP P50053 EXPRESSION TAG
SEQADV 6W0N SER A -12 UNP P50053 EXPRESSION TAG
SEQADV 6W0N SER A -11 UNP P50053 EXPRESSION TAG
SEQADV 6W0N HIS A -10 UNP P50053 EXPRESSION TAG
SEQADV 6W0N HIS A -9 UNP P50053 EXPRESSION TAG
SEQADV 6W0N HIS A -8 UNP P50053 EXPRESSION TAG
SEQADV 6W0N HIS A -7 UNP P50053 EXPRESSION TAG
SEQADV 6W0N HIS A -6 UNP P50053 EXPRESSION TAG
SEQADV 6W0N HIS A -5 UNP P50053 EXPRESSION TAG
SEQADV 6W0N SER A -4 UNP P50053 EXPRESSION TAG
SEQADV 6W0N SER A -3 UNP P50053 EXPRESSION TAG
SEQADV 6W0N GLY A -2 UNP P50053 EXPRESSION TAG
SEQADV 6W0N LEU A -1 UNP P50053 EXPRESSION TAG
SEQADV 6W0N VAL A 0 UNP P50053 EXPRESSION TAG
SEQADV 6W0N PRO A 1 UNP P50053 EXPRESSION TAG
SEQADV 6W0N ARG A 2 UNP P50053 EXPRESSION TAG
SEQADV 6W0N GLY A 3 UNP P50053 EXPRESSION TAG
SEQADV 6W0N SER A 4 UNP P50053 EXPRESSION TAG
SEQADV 6W0N MET B -14 UNP P50053 EXPRESSION TAG
SEQADV 6W0N GLY B -13 UNP P50053 EXPRESSION TAG
SEQADV 6W0N SER B -12 UNP P50053 EXPRESSION TAG
SEQADV 6W0N SER B -11 UNP P50053 EXPRESSION TAG
SEQADV 6W0N HIS B -10 UNP P50053 EXPRESSION TAG
SEQADV 6W0N HIS B -9 UNP P50053 EXPRESSION TAG
SEQADV 6W0N HIS B -8 UNP P50053 EXPRESSION TAG
SEQADV 6W0N HIS B -7 UNP P50053 EXPRESSION TAG
SEQADV 6W0N HIS B -6 UNP P50053 EXPRESSION TAG
SEQADV 6W0N HIS B -5 UNP P50053 EXPRESSION TAG
SEQADV 6W0N SER B -4 UNP P50053 EXPRESSION TAG
SEQADV 6W0N SER B -3 UNP P50053 EXPRESSION TAG
SEQADV 6W0N GLY B -2 UNP P50053 EXPRESSION TAG
SEQADV 6W0N LEU B -1 UNP P50053 EXPRESSION TAG
SEQADV 6W0N VAL B 0 UNP P50053 EXPRESSION TAG
SEQADV 6W0N PRO B 1 UNP P50053 EXPRESSION TAG
SEQADV 6W0N ARG B 2 UNP P50053 EXPRESSION TAG
SEQADV 6W0N GLY B 3 UNP P50053 EXPRESSION TAG
SEQADV 6W0N SER B 4 UNP P50053 EXPRESSION TAG
SEQRES 1 A 313 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY
SEQRES 2 A 313 LEU VAL PRO ARG GLY SER GLN ILE LEU CYS VAL GLY LEU
SEQRES 3 A 313 VAL VAL LEU ASP VAL ILE SER LEU VAL ASP LYS TYR PRO
SEQRES 4 A 313 LYS GLU ASP SER GLU ILE ARG CYS LEU SER GLN ARG TRP
SEQRES 5 A 313 GLN ARG GLY GLY ASN ALA SER ASN SER CYS THR VAL LEU
SEQRES 6 A 313 SER LEU LEU GLY ALA PRO CYS ALA PHE MET GLY SER MET
SEQRES 7 A 313 ALA PRO GLY HIS VAL ALA ASP PHE LEU VAL ALA ASP PHE
SEQRES 8 A 313 ARG ARG ARG GLY VAL ASP VAL SER GLN VAL ALA TRP GLN
SEQRES 9 A 313 SER LYS GLY ASP THR PRO SER SER CYS CYS ILE ILE ASN
SEQRES 10 A 313 ASN SER ASN GLY ASN ARG THR ILE VAL LEU HIS ASP THR
SEQRES 11 A 313 SER LEU PRO ASP VAL SER ALA THR ASP PHE GLU LYS VAL
SEQRES 12 A 313 ASP LEU THR GLN PHE LYS TRP ILE HIS ILE GLU GLY ARG
SEQRES 13 A 313 ASN ALA SER GLU GLN VAL LYS MET LEU GLN ARG ILE ASP
SEQRES 14 A 313 ALA HIS ASN THR ARG GLN PRO PRO GLU GLN LYS ILE ARG
SEQRES 15 A 313 VAL SER VAL GLU VAL GLU LYS PRO ARG GLU GLU LEU PHE
SEQRES 16 A 313 GLN LEU PHE GLY TYR GLY ASP VAL VAL PHE VAL SER LYS
SEQRES 17 A 313 ASP VAL ALA LYS HIS LEU GLY PHE GLN SER ALA GLU GLU
SEQRES 18 A 313 ALA LEU ARG GLY LEU TYR GLY ARG VAL ARG LYS GLY ALA
SEQRES 19 A 313 VAL LEU VAL CYS ALA TRP ALA GLU GLU GLY ALA ASP ALA
SEQRES 20 A 313 LEU GLY PRO ASP GLY LYS LEU LEU HIS SER ASP ALA PHE
SEQRES 21 A 313 PRO PRO PRO ARG VAL VAL ASP THR LEU GLY ALA GLY ASP
SEQRES 22 A 313 THR PHE ASN ALA SER VAL ILE PHE SER LEU SER GLN GLY
SEQRES 23 A 313 ARG SER VAL GLN GLU ALA LEU ARG PHE GLY CYS GLN VAL
SEQRES 24 A 313 ALA GLY LYS LYS CYS GLY LEU GLN GLY PHE ASP GLY ILE
SEQRES 25 A 313 VAL
SEQRES 1 B 313 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY
SEQRES 2 B 313 LEU VAL PRO ARG GLY SER GLN ILE LEU CYS VAL GLY LEU
SEQRES 3 B 313 VAL VAL LEU ASP VAL ILE SER LEU VAL ASP LYS TYR PRO
SEQRES 4 B 313 LYS GLU ASP SER GLU ILE ARG CYS LEU SER GLN ARG TRP
SEQRES 5 B 313 GLN ARG GLY GLY ASN ALA SER ASN SER CYS THR VAL LEU
SEQRES 6 B 313 SER LEU LEU GLY ALA PRO CYS ALA PHE MET GLY SER MET
SEQRES 7 B 313 ALA PRO GLY HIS VAL ALA ASP PHE LEU VAL ALA ASP PHE
SEQRES 8 B 313 ARG ARG ARG GLY VAL ASP VAL SER GLN VAL ALA TRP GLN
SEQRES 9 B 313 SER LYS GLY ASP THR PRO SER SER CYS CYS ILE ILE ASN
SEQRES 10 B 313 ASN SER ASN GLY ASN ARG THR ILE VAL LEU HIS ASP THR
SEQRES 11 B 313 SER LEU PRO ASP VAL SER ALA THR ASP PHE GLU LYS VAL
SEQRES 12 B 313 ASP LEU THR GLN PHE LYS TRP ILE HIS ILE GLU GLY ARG
SEQRES 13 B 313 ASN ALA SER GLU GLN VAL LYS MET LEU GLN ARG ILE ASP
SEQRES 14 B 313 ALA HIS ASN THR ARG GLN PRO PRO GLU GLN LYS ILE ARG
SEQRES 15 B 313 VAL SER VAL GLU VAL GLU LYS PRO ARG GLU GLU LEU PHE
SEQRES 16 B 313 GLN LEU PHE GLY TYR GLY ASP VAL VAL PHE VAL SER LYS
SEQRES 17 B 313 ASP VAL ALA LYS HIS LEU GLY PHE GLN SER ALA GLU GLU
SEQRES 18 B 313 ALA LEU ARG GLY LEU TYR GLY ARG VAL ARG LYS GLY ALA
SEQRES 19 B 313 VAL LEU VAL CYS ALA TRP ALA GLU GLU GLY ALA ASP ALA
SEQRES 20 B 313 LEU GLY PRO ASP GLY LYS LEU LEU HIS SER ASP ALA PHE
SEQRES 21 B 313 PRO PRO PRO ARG VAL VAL ASP THR LEU GLY ALA GLY ASP
SEQRES 22 B 313 THR PHE ASN ALA SER VAL ILE PHE SER LEU SER GLN GLY
SEQRES 23 B 313 ARG SER VAL GLN GLU ALA LEU ARG PHE GLY CYS GLN VAL
SEQRES 24 B 313 ALA GLY LYS LYS CYS GLY LEU GLN GLY PHE ASP GLY ILE
SEQRES 25 B 313 VAL
HET RYS A 301 26
HET SO4 A 302 5
HET CIT A 303 18
HET RYS B 301 26
HET SO4 B 302 5
HET SO4 B 303 5
HET CIT B 304 18
HETNAM RYS 6-[(3~{S},4~{R})-3,4-BIS(OXIDANYL)PYRROLIDIN-1-YL]-2-
HETNAM 2 RYS [(3~{S})-3-METHYL-3-OXIDANYL-PYRROLIDIN-1-YL]-4-
HETNAM 3 RYS (TRIFLUOROMETHYL)PYRIDINE-3-CARBONITRILE
HETNAM SO4 SULFATE ION
HETNAM CIT CITRIC ACID
FORMUL 3 RYS 2(C16 H19 F3 N4 O3)
FORMUL 4 SO4 3(O4 S 2-)
FORMUL 5 CIT 2(C6 H8 O7)
FORMUL 10 HOH *178(H2 O)
HELIX 1 AA1 GLY A 41 GLY A 54 1 14
HELIX 2 AA2 GLY A 66 ARG A 79 1 14
HELIX 3 AA3 SER A 121 LYS A 127 1 7
HELIX 4 AA4 VAL A 128 THR A 131 5 4
HELIX 5 AA5 ASN A 142 ARG A 159 1 18
HELIX 6 AA6 PRO A 161 LYS A 165 5 5
HELIX 7 AA7 ARG A 176 TYR A 185 5 10
HELIX 8 AA8 SER A 192 LEU A 199 1 8
HELIX 9 AA9 SER A 203 TYR A 212 1 10
HELIX 10 AB1 GLY A 213 VAL A 215 5 3
HELIX 11 AB2 ALA A 226 GLU A 228 5 3
HELIX 12 AB3 GLY A 255 GLN A 270 1 16
HELIX 13 AB4 SER A 273 GLY A 290 1 18
HELIX 14 AB5 GLY B 41 GLY B 54 1 14
HELIX 15 AB6 GLY B 66 ARG B 79 1 14
HELIX 16 AB7 SER B 121 LYS B 127 1 7
HELIX 17 AB8 VAL B 128 THR B 131 5 4
HELIX 18 AB9 ASN B 142 ARG B 159 1 18
HELIX 19 AC1 GLN B 160 LYS B 165 5 6
HELIX 20 AC2 ARG B 176 TYR B 185 5 10
HELIX 21 AC3 SER B 192 LEU B 199 1 8
HELIX 22 AC4 SER B 203 TYR B 212 1 10
HELIX 23 AC5 GLY B 213 VAL B 215 5 3
HELIX 24 AC6 ALA B 226 GLU B 228 5 3
HELIX 25 AC7 GLY B 255 GLN B 270 1 16
HELIX 26 AC8 SER B 273 GLY B 290 1 18
SHEET 1 AA1 8 CYS A 57 MET A 60 0
SHEET 2 AA1 8 GLN A 5 VAL A 9 1 N CYS A 8 O MET A 60
SHEET 3 AA1 8 PHE A 133 GLU A 139 1 O HIS A 137 N LEU A 7
SHEET 4 AA1 8 ARG A 167 VAL A 172 1 O ARG A 167 N ILE A 136
SHEET 5 AA1 8 VAL A 188 VAL A 191 1 O PHE A 190 N VAL A 170
SHEET 6 AA1 8 VAL A 220 ALA A 224 1 O VAL A 222 N VAL A 189
SHEET 7 AA1 8 ALA A 230 LEU A 233 -1 O LEU A 233 N LEU A 221
SHEET 8 AA1 8 LEU A 239 SER A 242 -1 O LEU A 240 N ALA A 232
SHEET 1 AA2 5 SER A 34 GLY A 40 0
SHEET 2 AA2 5 VAL A 13 VAL A 20 -1 N VAL A 13 O GLY A 40
SHEET 3 AA2 5 SER A 96 ASN A 102 1 O CYS A 99 N VAL A 16
SHEET 4 AA2 5 ARG A 108 HIS A 113 -1 O THR A 109 N ILE A 100
SHEET 5 AA2 5 GLU B 29 ARG B 31 1 O ILE B 30 N LEU A 112
SHEET 1 AA3 5 GLU A 29 ARG A 31 0
SHEET 2 AA3 5 ARG B 108 LEU B 112 1 O LEU B 112 N ILE A 30
SHEET 3 AA3 5 SER B 96 ASN B 102 -1 N CYS B 98 O VAL B 111
SHEET 4 AA3 5 VAL B 13 VAL B 20 1 N LEU B 14 O SER B 97
SHEET 5 AA3 5 SER B 34 GLY B 40 -1 O GLN B 38 N ASP B 15
SHEET 1 AA4 2 SER A 62 MET A 63 0
SHEET 2 AA4 2 ALA A 87 TRP A 88 1 O ALA A 87 N MET A 63
SHEET 1 AA5 8 CYS B 57 MET B 60 0
SHEET 2 AA5 8 GLN B 5 VAL B 9 1 N CYS B 8 O MET B 60
SHEET 3 AA5 8 PHE B 133 GLU B 139 1 O HIS B 137 N LEU B 7
SHEET 4 AA5 8 ARG B 167 VAL B 172 1 O ARG B 167 N ILE B 136
SHEET 5 AA5 8 VAL B 188 VAL B 191 1 O PHE B 190 N VAL B 170
SHEET 6 AA5 8 VAL B 220 ALA B 224 1 O VAL B 222 N VAL B 189
SHEET 7 AA5 8 ALA B 230 LEU B 233 -1 O LEU B 233 N LEU B 221
SHEET 8 AA5 8 LEU B 239 SER B 242 -1 O LEU B 240 N ALA B 232
SHEET 1 AA6 2 SER B 62 MET B 63 0
SHEET 2 AA6 2 ALA B 87 TRP B 88 1 O ALA B 87 N MET B 63
SITE 1 AC1 16 ASN A 107 ALA A 224 ALA A 226 GLU A 227
SITE 2 AC1 16 PRO A 246 PRO A 247 VAL A 250 THR A 253
SITE 3 AC1 16 ALA A 256 GLY A 257 PHE A 260 GLY A 286
SITE 4 AC1 16 HOH A 403 HOH A 427 HOH A 434 ASP B 27
SITE 1 AC2 7 ARG A 108 THR A 253 GLY A 255 ALA A 256
SITE 2 AC2 7 GLY A 257 ASP A 258 HOH A 407
SITE 1 AC3 11 LEU A 11 VAL A 13 ASP A 15 GLY A 41
SITE 2 AC3 11 ASN A 42 SER A 97 GLU A 139 GLU A 173
SITE 3 AC3 11 LYS A 174 HOH A 417 GLU B 29
SITE 1 AC4 15 ALA B 224 ALA B 226 GLU B 227 PRO B 246
SITE 2 AC4 15 PRO B 247 VAL B 250 THR B 253 ALA B 256
SITE 3 AC4 15 GLY B 257 PHE B 260 GLY B 286 CYS B 289
SITE 4 AC4 15 HOH B 401 HOH B 409 HOH B 474
SITE 1 AC5 7 ARG B 78 ARG B 79 GLY B 293 PHE B 294
SITE 2 AC5 7 ASP B 295 HOH B 404 HOH B 463
SITE 1 AC6 4 ARG A 31 HIS B 113 ARG B 141 LYS B 174
SITE 1 AC7 10 ARG A 272 GLU A 276 HOH A 413 HOH A 454
SITE 2 AC7 10 PHE B 266 SER B 267 GLN B 270 ARG B 272
SITE 3 AC7 10 GLU B 276 PHE B 280
CRYST1 82.800 86.170 137.130 90.00 90.00 90.00 P 21 21 21 8
ORIGX1 1.000000 0.000000 0.000000 0.00000
ORIGX2 0.000000 1.000000 0.000000 0.00000
ORIGX3 0.000000 0.000000 1.000000 0.00000
SCALE1 0.012077 0.000000 0.000000 0.00000
SCALE2 0.000000 0.011605 0.000000 0.00000
SCALE3 0.000000 0.000000 0.007292 0.00000