HEADER TRANSFERASE 11-JAN-21 7BHT
TITLE CRYSTAL STRUCTURE OF MAT2A WITH QUINAZOLINONE FRAGMENT 5 BOUND IN THE
TITLE 2 ALLOSTERIC SITE
COMPND MOL_ID: 1;
COMPND 2 MOLECULE: S-ADENOSYLMETHIONINE SYNTHASE ISOFORM TYPE-2;
COMPND 3 CHAIN: A;
COMPND 4 FRAGMENT: FULL LENGTH PROTEIN;
COMPND 5 SYNONYM: ADOMET SYNTHASE 2,METHIONINE ADENOSYLTRANSFERASE 2,MAT 2,
COMPND 6 METHIONINE ADENOSYLTRANSFERASE II,MAT-II;
COMPND 7 EC: 2.5.1.6;
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 GENE: MAT2A, AMS2, MATA2;
SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3);
SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008;
SOURCE 8 EXPRESSION_SYSTEM_VARIANT: BL21 GOLD (DE3);
SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID;
SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PNIC28-BSA4
KEYWDS ALLOSTERIC INHIBITOR, FRAGMENT-BASED DRUG DESIGN, SYNTHETIC LETHAL
KEYWDS 2 THERAPY, ONCOLOGY, TRANSFERASE
EXPDTA X-RAY DIFFRACTION
AUTHOR M.SCHIMPL,C.DE FUSCO,U.BORJESSON,T.CHEUNG,I.COLLIE,L.EVANS,
AUTHOR 2 P.NARASIMHAN,C.STUBBS,M.VAZQUEZ-CHANTADA,D.J.WAGNER,M.GRONDINE,
AUTHOR 3 S.TENTARELLI,E.UNDERWOOD,A.ARGYROU,S.BAGAL,E.CHIARPARIN,G.ROBB,
AUTHOR 4 J.S.SCOTT
REVDAT 4 01-MAY-24 7BHT 1 REMARK
REVDAT 3 09-JUN-21 7BHT 1 JRNL
REVDAT 2 05-MAY-21 7BHT 1 JRNL
REVDAT 1 21-APR-21 7BHT 0
JRNL AUTH C.DE FUSCO,M.SCHIMPL,U.BORJESSON,T.CHEUNG,I.COLLIE,L.EVANS,
JRNL AUTH 2 P.NARASIMHAN,C.STUBBS,M.VAZQUEZ-CHANTADA,D.J.WAGNER,
JRNL AUTH 3 M.GRONDINE,M.G.SANDERS,S.TENTARELLI,E.UNDERWOOD,A.ARGYROU,
JRNL AUTH 4 J.M.SMITH,J.T.LYNCH,E.CHIARPARIN,G.ROBB,S.K.BAGAL,J.S.SCOTT
JRNL TITL FRAGMENT-BASED DESIGN OF A POTENT MAT2A INHIBITOR AND IN
JRNL TITL 2 VIVO EVALUATION IN AN MTAP NULL XENOGRAFT MODEL.
JRNL REF J.MED.CHEM. V. 64 6814 2021
JRNL REFN ISSN 0022-2623
JRNL PMID 33900758
JRNL DOI 10.1021/ACS.JMEDCHEM.1C00067
REMARK 2
REMARK 2 RESOLUTION. 1.05 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) : 1.05
REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 15.40
REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000
REMARK 3 COMPLETENESS FOR RANGE (%) : 70.2
REMARK 3 NUMBER OF REFLECTIONS : 120799
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) : 0.157
REMARK 3 R VALUE (WORKING SET) : 0.156
REMARK 3 FREE R VALUE : 0.175
REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.920
REMARK 3 FREE R VALUE TEST SET COUNT : 5942
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) : 1.05
REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 1.11
REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 9.33
REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 2416
REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.1911
REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2310
REMARK 3 BIN R VALUE (WORKING SET) : 0.1910
REMARK 3 BIN FREE R VALUE : 0.1945
REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.39
REMARK 3 BIN FREE R VALUE TEST SET COUNT : 106
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 : 2941
REMARK 3 NUCLEIC ACID ATOMS : 0
REMARK 3 HETEROGEN ATOMS : 47
REMARK 3 SOLVENT ATOMS : 399
REMARK 3
REMARK 3 B VALUES.
REMARK 3 FROM WILSON PLOT (A**2) : 7.84
REMARK 3 MEAN B VALUE (OVERALL, A**2) : 13.11
REMARK 3 OVERALL ANISOTROPIC B VALUE.
REMARK 3 B11 (A**2) : -0.18310
REMARK 3 B22 (A**2) : 0.31670
REMARK 3 B33 (A**2) : -0.13360
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) : 0.120
REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 0.034
REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.036
REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.033
REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.035
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 : 0.968
REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.959
REMARK 3
REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15
REMARK 3 TERM COUNT WEIGHT FUNCTION.
REMARK 3 BOND LENGTHS : 3093 ; 2.000 ; HARMONIC
REMARK 3 BOND ANGLES : 4204 ; 2.000 ; HARMONIC
REMARK 3 TORSION ANGLES : 1087 ; 2.000 ; SINUSOIDAL
REMARK 3 TRIGONAL CARBON PLANES : NULL ; NULL ; NULL
REMARK 3 GENERAL PLANES : 535 ; 5.000 ; HARMONIC
REMARK 3 ISOTROPIC THERMAL FACTORS : 3093 ; 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 : 400 ; 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 : 4145 ; 4.000 ; SEMIHARMONIC
REMARK 3
REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES.
REMARK 3 BOND LENGTHS (A) : 0.010
REMARK 3 BOND ANGLES (DEGREES) : 1.10
REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 5.27
REMARK 3 OTHER TORSION ANGLES (DEGREES) : 14.43
REMARK 3
REMARK 3 TLS DETAILS
REMARK 3 NUMBER OF TLS GROUPS : 1
REMARK 3
REMARK 3 TLS GROUP : 1
REMARK 3 SELECTION: { A|* }
REMARK 3 ORIGIN FOR THE GROUP (A): 25.9790 38.7598 32.4956
REMARK 3 T TENSOR
REMARK 3 T11: 0.0000 T22: 0.0014
REMARK 3 T33: -0.0030 T12: -0.0046
REMARK 3 T13: -0.0045 T23: -0.0018
REMARK 3 L TENSOR
REMARK 3 L11: 0.1203 L22: 0.2331
REMARK 3 L33: 0.1229 L12: -0.0620
REMARK 3 L13: 0.0216 L23: -0.0100
REMARK 3 S TENSOR
REMARK 3 S11: -0.0009 S12: 0.0078 S13: -0.0215
REMARK 3 S21: -0.0294 S22: 0.0057 S23: 0.0287
REMARK 3 S31: 0.0148 S32: -0.0139 S33: -0.0047
REMARK 3
REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4
REMARK 4 7BHT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11
REMARK 100
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 12-JAN-21.
REMARK 100 THE DEPOSITION ID IS D_1292113321.
REMARK 200
REMARK 200 EXPERIMENTAL DETAILS
REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION
REMARK 200 DATE OF DATA COLLECTION : 22-SEP-20
REMARK 200 TEMPERATURE (KELVIN) : 100
REMARK 200 PH : 8.0
REMARK 200 NUMBER OF CRYSTALS USED : 1
REMARK 200
REMARK 200 SYNCHROTRON (Y/N) : Y
REMARK 200 RADIATION SOURCE : DIAMOND
REMARK 200 BEAMLINE : I03
REMARK 200 X-RAY GENERATOR MODEL : NULL
REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M
REMARK 200 WAVELENGTH OR RANGE (A) : 0.89685
REMARK 200 MONOCHROMATOR : NULL
REMARK 200 OPTICS : NULL
REMARK 200
REMARK 200 DETECTOR TYPE : PIXEL
REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M
REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS
REMARK 200 DATA SCALING SOFTWARE : STARANISO
REMARK 200
REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 120837
REMARK 200 RESOLUTION RANGE HIGH (A) : 1.050
REMARK 200 RESOLUTION RANGE LOW (A) : 19.817
REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL
REMARK 200
REMARK 200 OVERALL.
REMARK 200 COMPLETENESS FOR RANGE (%) : 94.9
REMARK 200 DATA REDUNDANCY : 13.40
REMARK 200 R MERGE (I) : 0.10500
REMARK 200 R SYM (I) : NULL
REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 12.1000
REMARK 200
REMARK 200 IN THE HIGHEST RESOLUTION SHELL.
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.05
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.14
REMARK 200 COMPLETENESS FOR SHELL (%) : 72.3
REMARK 200 DATA REDUNDANCY IN SHELL : 14.40
REMARK 200 R MERGE FOR SHELL (I) : 1.50600
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: AMORE
REMARK 200 STARTING MODEL: INTERNAL MODEL
REMARK 200
REMARK 200 REMARK: NULL
REMARK 280
REMARK 280 CRYSTAL
REMARK 280 SOLVENT CONTENT, VS (%): 42.02
REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.12
REMARK 280
REMARK 280 CRYSTALLIZATION CONDITIONS: 8-12 % PEG8000, 8-12 % ETHYLENE
REMARK 280 GLYCOL, 0.1 M HEPES PH 8.0; SOAKED WITH 0.01 M COMPOUND (10 %
REMARK 280 DMSO), VAPOR DIFFUSION, TEMPERATURE 293K
REMARK 290
REMARK 290 CRYSTALLOGRAPHIC SYMMETRY
REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 2
REMARK 290
REMARK 290 SYMOP SYMMETRY
REMARK 290 NNNMMM OPERATOR
REMARK 290 1555 X,Y,Z
REMARK 290 2555 -X,-Y,Z
REMARK 290 3555 -X,Y,-Z
REMARK 290 4555 X,-Y,-Z
REMARK 290 5555 X+1/2,Y+1/2,Z+1/2
REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2
REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2
REMARK 290 8555 X+1/2,-Y+1/2,-Z+1/2
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 0.00000
REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000
REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000
REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000
REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000
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 0.00000
REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 33.93650
REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 46.96300
REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 58.48250
REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 33.93650
REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 46.96300
REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 58.48250
REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 33.93650
REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 46.96300
REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 58.48250
REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 33.93650
REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 46.96300
REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 58.48250
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: 7240 ANGSTROM**2
REMARK 350 SURFACE AREA OF THE COMPLEX: 24280 ANGSTROM**2
REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -48.0 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 -1.000000 0.000000 0.000000 67.87300
REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 93.92600
REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000
REMARK 375
REMARK 375 SPECIAL POSITION
REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS
REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL
REMARK 375 POSITIONS.
REMARK 375
REMARK 375 ATOM RES CSSEQI
REMARK 375 HOH A 591 LIES ON A SPECIAL POSITION.
REMARK 375 HOH A 804 LIES ON A SPECIAL POSITION.
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 GLN A -1
REMARK 465 SER A 0
REMARK 465 MET A 1
REMARK 465 ASN A 2
REMARK 465 GLY A 3
REMARK 465 GLN A 4
REMARK 465 LEU A 5
REMARK 465 ASN A 6
REMARK 465 GLY A 7
REMARK 465 PHE A 8
REMARK 465 HIS A 9
REMARK 465 GLU A 10
REMARK 465 ALA A 11
REMARK 465 PHE A 12
REMARK 465 ILE A 13
REMARK 465 GLU A 14
REMARK 465 GLU A 15
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 A 343 NE CZ NH1 NH2
REMARK 470 LYS A 351 CD CE NZ
REMARK 470 LYS A 392 CD CE NZ
REMARK 470 LYS A 394 CD CE NZ
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 VAL A 226 -69.74 -108.46
REMARK 500 THR A 270 -103.45 -121.20
REMARK 500 ARG A 292 -62.24 -93.88
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 A 899 DISTANCE = 6.78 ANGSTROMS
REMARK 800
REMARK 800 SITE
REMARK 800 SITE_IDENTIFIER: AC1
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: binding site for residue DMS A 401
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC2
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: binding site for residue TO8 A 402
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC3
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: binding site for residue SAM A 403
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC4
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 404
DBREF 7BHT A 1 395 UNP P31153 METK2_HUMAN 1 395
SEQADV 7BHT GLN A -1 UNP P31153 EXPRESSION TAG
SEQADV 7BHT SER A 0 UNP P31153 EXPRESSION TAG
SEQRES 1 A 397 GLN SER MET ASN GLY GLN LEU ASN GLY PHE HIS GLU ALA
SEQRES 2 A 397 PHE ILE GLU GLU GLY THR PHE LEU PHE THR SER GLU SER
SEQRES 3 A 397 VAL GLY GLU GLY HIS PRO ASP LYS ILE CYS ASP GLN ILE
SEQRES 4 A 397 SER ASP ALA VAL LEU ASP ALA HIS LEU GLN GLN ASP PRO
SEQRES 5 A 397 ASP ALA LYS VAL ALA CYS GLU THR VAL ALA LYS THR GLY
SEQRES 6 A 397 MET ILE LEU LEU ALA GLY GLU ILE THR SER ARG ALA ALA
SEQRES 7 A 397 VAL ASP TYR GLN LYS VAL VAL ARG GLU ALA VAL LYS HIS
SEQRES 8 A 397 ILE GLY TYR ASP ASP SER SER LYS GLY PHE ASP TYR LYS
SEQRES 9 A 397 THR CYS ASN VAL LEU VAL ALA LEU GLU GLN GLN SER PRO
SEQRES 10 A 397 ASP ILE ALA GLN GLY VAL HIS LEU ASP ARG ASN GLU GLU
SEQRES 11 A 397 ASP ILE GLY ALA GLY ASP GLN GLY LEU MET PHE GLY TYR
SEQRES 12 A 397 ALA THR ASP GLU THR GLU GLU CYS MET PRO LEU THR ILE
SEQRES 13 A 397 VAL LEU ALA HIS LYS LEU ASN ALA LYS LEU ALA GLU LEU
SEQRES 14 A 397 ARG ARG ASN GLY THR LEU PRO TRP LEU ARG PRO ASP SER
SEQRES 15 A 397 LYS THR GLN VAL THR VAL GLN TYR MET GLN ASP ARG GLY
SEQRES 16 A 397 ALA VAL LEU PRO ILE ARG VAL HIS THR ILE VAL ILE SER
SEQRES 17 A 397 VAL GLN HIS ASP GLU GLU VAL CYS LEU ASP GLU MET ARG
SEQRES 18 A 397 ASP ALA LEU LYS GLU LYS VAL ILE LYS ALA VAL VAL PRO
SEQRES 19 A 397 ALA LYS TYR LEU ASP GLU ASP THR ILE TYR HIS LEU GLN
SEQRES 20 A 397 PRO SER GLY ARG PHE VAL ILE GLY GLY PRO GLN GLY ASP
SEQRES 21 A 397 ALA GLY LEU THR GLY ARG LYS ILE ILE VAL ASP THR TYR
SEQRES 22 A 397 GLY GLY TRP GLY ALA HIS GLY GLY GLY ALA PHE SER GLY
SEQRES 23 A 397 LYS ASP TYR THR LYS VAL ASP ARG SER ALA ALA TYR ALA
SEQRES 24 A 397 ALA ARG TRP VAL ALA LYS SER LEU VAL LYS GLY GLY LEU
SEQRES 25 A 397 CYS ARG ARG VAL LEU VAL GLN VAL SER TYR ALA ILE GLY
SEQRES 26 A 397 VAL SER HIS PRO LEU SER ILE SER ILE PHE HIS TYR GLY
SEQRES 27 A 397 THR SER GLN LYS SER GLU ARG GLU LEU LEU GLU ILE VAL
SEQRES 28 A 397 LYS LYS ASN PHE ASP LEU ARG PRO GLY VAL ILE VAL ARG
SEQRES 29 A 397 ASP LEU ASP LEU LYS LYS PRO ILE TYR GLN ARG THR ALA
SEQRES 30 A 397 ALA TYR GLY HIS PHE GLY ARG ASP SER PHE PRO TRP GLU
SEQRES 31 A 397 VAL PRO LYS LYS LEU LYS TYR
HET DMS A 401 4
HET TO8 A 402 15
HET SAM A 403 27
HET CL A 404 1
HETNAM DMS DIMETHYL SULFOXIDE
HETNAM TO8 7-CHLORANYL-4-(DIMETHYLAMINO)-1~{H}-QUINAZOLIN-2-ONE
HETNAM SAM S-ADENOSYLMETHIONINE
HETNAM CL CHLORIDE ION
FORMUL 2 DMS C2 H6 O S
FORMUL 3 TO8 C10 H10 CL N3 O
FORMUL 4 SAM C15 H22 N6 O5 S
FORMUL 5 CL CL 1-
FORMUL 6 HOH *399(H2 O)
HELIX 1 AA1 HIS A 29 ASP A 49 1 21
HELIX 2 AA2 ASP A 78 GLY A 91 1 14
HELIX 3 AA3 SER A 95 GLY A 98 5 4
HELIX 4 AA4 SER A 114 HIS A 122 1 9
HELIX 5 AA5 ASN A 126 ILE A 130 5 5
HELIX 6 AA6 PRO A 151 ASN A 170 1 20
HELIX 7 AA7 CYS A 214 LYS A 225 1 12
HELIX 8 AA8 PRO A 232 LEU A 236 5 5
HELIX 9 AA9 GLY A 253 ASP A 258 1 6
HELIX 10 AB1 LYS A 289 GLY A 308 1 20
HELIX 11 AB2 SER A 341 PHE A 353 1 13
HELIX 12 AB3 ARG A 356 LEU A 364 1 9
HELIX 13 AB4 ILE A 370 ALA A 375 1 6
HELIX 14 AB5 PHE A 385 VAL A 389 5 5
SHEET 1 AA1 4 PHE A 18 VAL A 25 0
SHEET 2 AA1 4 LEU A 176 ASP A 191 -1 O TYR A 188 N PHE A 18
SHEET 3 AA1 4 ALA A 194 HIS A 209 -1 O ILE A 198 N GLN A 187
SHEET 4 AA1 4 ILE A 241 LEU A 244 1 O HIS A 243 N ILE A 203
SHEET 1 AA2 4 ASN A 105 GLU A 111 0
SHEET 2 AA2 4 MET A 64 THR A 72 1 N LEU A 67 O ALA A 109
SHEET 3 AA2 4 LYS A 53 LYS A 61 -1 N LYS A 61 O MET A 64
SHEET 4 AA2 4 GLY A 260 LEU A 261 -1 O GLY A 260 N ALA A 60
SHEET 1 AA3 2 ASP A 93 ASP A 94 0
SHEET 2 AA3 2 PHE A 99 ASP A 100 -1 O PHE A 99 N ASP A 94
SHEET 1 AA4 3 GLY A 136 THR A 143 0
SHEET 2 AA4 3 ARG A 313 TYR A 320 -1 O VAL A 316 N GLY A 140
SHEET 3 AA4 3 SER A 329 PHE A 333 -1 O PHE A 333 N LEU A 315
SITE 1 AC1 9 ASP A 124 ARG A 125 ASN A 126 LYS A 228
SITE 2 AC1 9 ALA A 229 VAL A 230 VAL A 231 PRO A 232
SITE 3 AC1 9 HOH A 604
SITE 1 AC2 11 PHE A 18 PHE A 20 TRP A 274 ARG A 313
SITE 2 AC2 11 GLN A 317 SER A 331 ILE A 332 PHE A 333
SITE 3 AC2 11 TYR A 335 HOH A 506 HOH A 792
SITE 1 AC3 24 HIS A 29 PRO A 30 ALA A 55 GLU A 70
SITE 2 AC3 24 GLN A 113 ASP A 116 ILE A 117 GLY A 133
SITE 3 AC3 24 ASP A 134 ASP A 179 LYS A 181 SER A 247
SITE 4 AC3 24 ARG A 249 PHE A 250 ASP A 258 LYS A 289
SITE 5 AC3 24 ILE A 322 CL A 404 HOH A 556 HOH A 632
SITE 6 AC3 24 HOH A 634 HOH A 635 HOH A 723 HOH A 744
SITE 1 AC4 6 HIS A 29 ASP A 134 LYS A 181 LYS A 265
SITE 2 AC4 6 SAM A 403 HOH A 790
CRYST1 67.873 93.926 116.965 90.00 90.00 90.00 I 2 2 2 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 0.014733 0.000000 0.000000 0.00000
SCALE2 0.000000 0.010647 0.000000 0.00000
SCALE3 0.000000 0.000000 0.008550 0.00000